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Certad G, Gantois N, Merlin S, Martel S, Even G, Viscogliosi E, Audebert C, Chabé M. Frequency and Molecular Identification of Cryptosporidium in Adult Prim'Holstein Dairy Cattle Farms in the North of France. Microorganisms 2024; 12:335. [PMID: 38399739 PMCID: PMC10892647 DOI: 10.3390/microorganisms12020335] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Revised: 01/25/2024] [Accepted: 02/01/2024] [Indexed: 02/25/2024] Open
Abstract
Cryptosporidium apicomplexan protozoa are ubiquitous intracellular agents affecting humans and animals. In particular, bovine cryptosporidiosis is recognized as endemic worldwide. However, epidemiological investigations remain limited in France regarding the burden of these parasites in cattle. To improve our understanding of the epidemiology of cryptosporidiosis, the main aim of this study was to determine the frequency and the genetic diversity of Cryptosporidium in adult Prim'Holstein dairy cattle farms in the north of France. Fecal specimens were collected from 1454 non-diarrheic and non-pregnant animals (nulli-, primi-, or multiparous) throughout 20 farms in an area of 110 km around Lille. For Cryptosporidium species identification, nested PCR followed by sequence and phylogenetic analyses were used. The overall frequency of Cryptosporidium spp. in-fection was 30.00% (C.I. 95%: 12.83-54.33) in farms and 0.89% (C.I. 95%: 0.498-1.57) at the individual level. In primi- or multiparous cows, only C. andersoni was found. C. ryanae, C. bovis/xiaoi and C. andersoni were detected in heifers. The phylogenetic tree confirmed that analyzed sequences were grouped with known reference sequences reported in dairy cattle. Further studies on the cumulative prevalence, risks factors and pathogenicity are needed to give a more accurate assessment of the impact of Cryptosporidium infection in dairy cattle in France.
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Affiliation(s)
- Gabriela Certad
- Centre National de la Rrecherche Scientifique (CNRS), Institut National de la Santé et de la Recherche Médicale (Inserm), Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (N.G.); (E.V.); (M.C.)
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Nausicaa Gantois
- Centre National de la Rrecherche Scientifique (CNRS), Institut National de la Santé et de la Recherche Médicale (Inserm), Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (N.G.); (E.V.); (M.C.)
| | - Sophie Merlin
- GD Biotech-Gènes Diffusion, F-59000 Lille, France; (S.M.); (S.M.); (G.E.); (C.A.)
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Sophie Martel
- GD Biotech-Gènes Diffusion, F-59000 Lille, France; (S.M.); (S.M.); (G.E.); (C.A.)
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Gaël Even
- GD Biotech-Gènes Diffusion, F-59000 Lille, France; (S.M.); (S.M.); (G.E.); (C.A.)
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Eric Viscogliosi
- Centre National de la Rrecherche Scientifique (CNRS), Institut National de la Santé et de la Recherche Médicale (Inserm), Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (N.G.); (E.V.); (M.C.)
| | - Christophe Audebert
- GD Biotech-Gènes Diffusion, F-59000 Lille, France; (S.M.); (S.M.); (G.E.); (C.A.)
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Magali Chabé
- Centre National de la Rrecherche Scientifique (CNRS), Institut National de la Santé et de la Recherche Médicale (Inserm), Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (N.G.); (E.V.); (M.C.)
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Naguib D, Gantois N, Desramaut J, Arafat N, Mandour M, Abdelmaogood AKK, Mosa AF, Denoyelle C, Even G, Certad G, Chabé M, Viscogliosi E. Molecular Epidemiology and Genetic Diversity of the Enteric Protozoan Parasite Blastocystis sp. in the Northern Egypt Population. Pathogens 2023; 12:1359. [PMID: 38003823 PMCID: PMC10674599 DOI: 10.3390/pathogens12111359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 11/14/2023] [Accepted: 11/14/2023] [Indexed: 11/26/2023] Open
Abstract
Blastocystis sp. is currently reported as the most frequent single-celled eukaryote inhabiting the intestinal tract of humans and a wide range of animal groups. Its prevalence is especially higher in developing countries linked with fecal peril. Despite a growing interest in this enteric protozoan, certain geographical regions potentially at high risk of infection, such as North Africa, remain under-investigated. Therefore, a large-scale molecular epidemiological survey, including 825 participants presenting digestive disorders or not, was conducted in five governorates located in Northern Egypt. A real-time polymerase chain reaction (qPCR) assay was performed to identify the parasite in stool samples, followed by direct sequencing of the positive PCR products for subtyping and genotyping of the corresponding isolates. The overall prevalence was shown to reach 72.4% in the Egyptian cohort, coupled with a variable frequency depending on the governorate (41.3 to 100%). Among the 597 positive participants, a large proportion of them (39.4%) presented mixed infections, as determined by sequencing. The remaining individuals with single infection were predominantly colonized by subtype 3 (ST3) (48.3%) followed by ST1 (39.5%), ST2 (10.8%), ST14 (1.1%), and ST10 (0.3%). This was the first report of ST10 and ST14 in North Africa. Age, sex, digestive symptoms, and health status of the participants or contact with animals were not identified as significant risk factors for Blastocystis sp. occurrence or affecting the ST distribution. In contrast, substantial variations in the prevalence and ST distribution of the parasite were reported according to the governorate. Genotyping of isolates revealed the lower intra-ST diversity for ST3, followed by ST1 and then ST2. By combining subtyping and genotyping data, a widespread inter-human transmission was strongly suggested for ST3 within the Egyptian cohort. Regarding ST1 and ST2, additional animal or environmental sources of infection by these STs have been proposed, whereas the few cases of colonization by ST10 and ST14 were likely the result of zoonotic transmission from bovid. These investigations clearly emphasized the active circulation of Blastocystis sp. in Northern Egypt and the necessity for health authorities to implement prevention campaigns towards the population and quality control of drinking water, with the aim of reducing the burden of this enteric protozoan in this endemic country.
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Affiliation(s)
- Doaa Naguib
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
- Department of Hygiene and Zoonoses, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt
| | - Nausicaa Gantois
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
| | - Jeremy Desramaut
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
| | - Nagah Arafat
- Department of Poultry Diseases, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt;
| | - Mohamed Mandour
- Clinical Pathology Department, Faculty of Medicine, Suez Canal University, Ismailia 41511, Egypt; (M.M.); (A.K.K.A.)
| | | | - Ashraf Fawzy Mosa
- Parasitology Department, Medical Research Institute, Alexandria University, Alexandria 21500, Egypt;
| | - Constance Denoyelle
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
| | - Gaël Even
- GD Biotech-Gènes Diffusion, F-59000 Lille, France;
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Gabriela Certad
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Magali Chabé
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
| | - Eric Viscogliosi
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France; (D.N.); (N.G.); (J.D.); (C.D.); (G.C.); (M.C.)
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Guyard-Nicodème M, Anis N, Naguib D, Viscogliosi E, Chemaly M. Prevalence and Association of Campylobacter spp., Salmonella spp., and Blastocystis sp. in Poultry. Microorganisms 2023; 11:1983. [PMID: 37630543 PMCID: PMC10458391 DOI: 10.3390/microorganisms11081983] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Revised: 07/26/2023] [Accepted: 07/31/2023] [Indexed: 08/27/2023] Open
Abstract
Poultry and poultry meat are considered the most important sources of human campylobacteriosis and salmonellosis. However, data about the occurrence of Campylobacter and Salmonella concomitantly with intestinal protozoa such as Blastocystis sp. in poultry remain very scarce. Therefore, this study aimed to investigate the presence and possible interactions between these three microorganisms in fecal samples from 214 chickens collected either on farms or from live bird markets in Egypt. The results obtained showed that Campylobacter spp., Salmonella spp., and Blastocystis sp. were present in 91.6% (196/214), 44.4% (95/214), and 18.2% (39/214) of tested samples, respectively, highlighting an active circulation of these microorganisms. Moreover, a significant positive correlation was reported between the occurrence of Campylobacter spp. and Blastocystis sp. together with a significant negative correlation between Blastocystis sp. and Salmonella spp. This study confirms the association reported previously between Blastocystis sp. and Campylobacter spp. while disclosing an association between Blastocystis sp. and Salmonella spp.; it also highlights the need to improve studies on the interactions between bacteria and eukaryotes in the gut microbiota of poultry.
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Affiliation(s)
- Muriel Guyard-Nicodème
- Unit for Hygiene and Quality of Poultry and Pork Products, Laboratory of Ploufragan-Plouzané-Niort, ANSES, F-22440 Ploufragan, France; (N.A.); (M.C.)
| | - Nagham Anis
- Unit for Hygiene and Quality of Poultry and Pork Products, Laboratory of Ploufragan-Plouzané-Niort, ANSES, F-22440 Ploufragan, France; (N.A.); (M.C.)
| | - Doaa Naguib
- Department of Hygiene and Zoonoses, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt;
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019—UMR 9017—CIIL—Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France;
| | - Eric Viscogliosi
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019—UMR 9017—CIIL—Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France;
| | - Marianne Chemaly
- Unit for Hygiene and Quality of Poultry and Pork Products, Laboratory of Ploufragan-Plouzané-Niort, ANSES, F-22440 Ploufragan, France; (N.A.); (M.C.)
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Nguyen LDN, Gantois N, Hoang TT, Do BT, Desramaut J, Naguib D, Tran TN, Truong AD, Even G, Certad G, Chabé M, Viscogliosi E. First Epidemiological Survey on the Prevalence and Subtypes Distribution of the Enteric Parasite Blastocystis sp. in Vietnam. Microorganisms 2023; 11:microorganisms11030731. [PMID: 36985304 PMCID: PMC10056178 DOI: 10.3390/microorganisms11030731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Revised: 03/07/2023] [Accepted: 03/10/2023] [Indexed: 03/14/2023] Open
Abstract
Although Blastocystis sp. is the most common enteric protozoan in human stools worldwide, various geographical areas remain to be investigated regarding the frequency and circulation of this parasite. Such is the case of some developing countries in Southeast Asia that exhibit a higher risk for parasitic infections due to unsanitary conditions. While several epidemiological surveys have been conducted, for instance, in Thailand, little or no data are available from neighboring countries, such as Vietnam. Therefore, in order to determine the prevalence and subtype (ST) distribution of Blastocystis sp. and to clarify the transmission of the parasite, the first molecular epidemiological survey ever conducted in this country was performed. For this purpose, a total of 310 stool specimens were collected from patients enrolled at the Family Hospital of Da Nang and then tested for the presence of Blastocystis sp. by real-time Polymerase Chain Reaction (qPCR), followed by subtyping of the isolates. The overall prevalence of the parasite reached 34.5% in this Vietnamese cohort. No significant association was found between parasite infection and gender, age, symptomatic status, contact with animals or source of drinking water. Out of the 107 positive patients, nearly half presented mixed infections. Therefore, some of the corresponding samples were reanalyzed by end-point PCR, followed by PCR products cloning and sequencing. Of the 88 total subtyped isolates, ST3 was predominant, followed by ST10, ST14, ST7, ST1, ST4, ST6 and ST8. Our study was, thus, the first to report ST8, ST10 and ST14 in the Southeast Asian population. The predominance of ST3 within this Vietnamese cohort, coupled with its low intra-ST genetic variability, reflected a large inter-human transmission, while ST1 transmission was suggested to be not only anthroponotic, but also likely correlated to animal or environmental sources. Strikingly, isolates considered of animal origin (ST6-ST8, ST10 and ST14) accounted for more than 50% of the subtyped isolates. These findings improved our knowledge of the epidemiology and circulation of Blastocystis sp. in Southeast Asia, and in particular, in Vietnam, and highlighted both a major burden of the parasite in this country and a high risk of zoonotic transmission, mainly from poultry and livestock.
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Affiliation(s)
| | - Nausicaa Gantois
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France
| | | | - Bong Thi Do
- Family Hospital, 73 Nguyen Huu Tho Street, Da Nang 550000, Vietnam
| | - Jeremy Desramaut
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France
| | - Doaa Naguib
- Department of Hygiene and Zoonoses, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt
| | - Tuan Ngoc Tran
- Family Hospital, 73 Nguyen Huu Tho Street, Da Nang 550000, Vietnam
| | - Anh Duc Truong
- Family Hospital, 73 Nguyen Huu Tho Street, Da Nang 550000, Vietnam
| | - Gaël Even
- GD Biotech-Gènes Diffusion, F-59000 Lille, France
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Gabriela Certad
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France
- Correspondence: (M.C.); (E.V.)
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France
- Correspondence: (M.C.); (E.V.)
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Guilavogui T, Verdun S, Koïvogui A, Viscogliosi E, Certad G. Prevalence of Intestinal Parasitosis in Guinea: Systematic Review of the Literature and Meta-Analysis. Pathogens 2023; 12:pathogens12020336. [PMID: 36839608 PMCID: PMC9964089 DOI: 10.3390/pathogens12020336] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2022] [Revised: 02/10/2023] [Accepted: 02/13/2023] [Indexed: 02/18/2023] Open
Abstract
BACKGROUND Intestinal parasitosis constitute a major public health issue, particularly in sub-tropical and tropical areas. Even though they are classified as neglected tropical diseases, no national study has been carried out recently in Guinea to estimate the prevalence of intestinal parasitosis. OBJECTIVE A systematic review and meta-analysis aimed to determine the overall prevalence of intestinal parasitosis in Guinea. METHOD The PRISMA method was used to perform a systematic review and meta-analysis. The studies carried out in order to study intestinal parasitosis in Guinea and published between 2010 and 2020 were searched in online public databases. The prevalence of parasitosis was calculated by a random-effects meta-analysis. Subgroup comparisons were performed using Q-tests. Statistical analyses were performed with the R software. This review was registered with PROSPERO under the identification number CRD42022349743. RESULTS 69 studies were selected out of 1230 studies identified in online public databases. The meta-analysis involved 44,186 people with an overall prevalence of intestinal parasitic infections of 52%. CONCLUSIONS This is the first study in Guinea to assess the prevalence of intestinal parasitic infections in different regions of the country. It was found that intestinal parasitosis are a real health problem in Guinea, hence, the need to put in place national strategies for regular control.
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Affiliation(s)
- Timothé Guilavogui
- Centre National de la Recherche Scientifique, Institut National de la Santé et de la Recherche Médicale, Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-Centre d’Infection et d’Immunité de Lille, Université de Lille, 59000 Lille, France
- Unité d’Appui à la Gestion et la Coordination des Programmes, Ministère de la Santé, Conakry 585, Guinea
| | - Stéphane Verdun
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, 59000 Lille, France
| | - Akoï Koïvogui
- Comité Départemental des Cancers (CDC-93), CRCDC-IDF, Site de Seine-Saint-Denis, 93146 Bondy, France
| | - Eric Viscogliosi
- Centre National de la Recherche Scientifique, Institut National de la Santé et de la Recherche Médicale, Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-Centre d’Infection et d’Immunité de Lille, Université de Lille, 59000 Lille, France
| | - Gabriela Certad
- Centre National de la Recherche Scientifique, Institut National de la Santé et de la Recherche Médicale, Centre Hospitalier Universitaire de Lille, Institut Pasteur de Lille, U1019-UMR 9017-Centre d’Infection et d’Immunité de Lille, Université de Lille, 59000 Lille, France
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, 59000 Lille, France
- Correspondence:
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Naguib D, Gantois N, Desramaut J, Arafat N, Even G, Certad G, Chabé M, Viscogliosi E. Prevalence, Subtype Distribution and Zoonotic Significance of Blastocystis sp. Isolates from Poultry, Cattle and Pets in Northern Egypt. Microorganisms 2022; 10:2259. [PMID: 36422329 PMCID: PMC9696183 DOI: 10.3390/microorganisms10112259] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Revised: 11/10/2022] [Accepted: 11/13/2022] [Indexed: 07/25/2023] Open
Abstract
Blastocystis sp. is a widespread enteric protozoan that frequently infects human and animal groups. Despite its burden and zoonotic potential worldwide, epidemiological investigations remain limited in animal groups that come in contact with humans. Therefore, the largest survey ever conducted in North Africa was performed in Egypt with the aim to investigate the prevalence and subtype (ST) distribution of Blastocystis sp. in animals. For this purpose, a total of 889 fecal specimens were collected from chickens (217), cattle (373), dogs (144) and cats (155) from six governorates of northern Egypt. These specimens were then screened for the presence of Blastocystis sp. using a quantitative real-time PCR, followed by subtyping the isolates. The overall prevalence of Blastocystis sp. reached 9.2% (82/889), with the highest infection rates reported in chickens (17.0%) and domestic cattle (11.0%), highlighting an active circulation of the parasite in both animal groups. In contrast, the low prevalence in cats (2.6%) and the absence of the parasite in dogs suggested that pets are not natural hosts of Blastocystis sp. ST10 and ST14 were largely predominant in cattle, confirming that both STs represented cattle-adapted STs. The report of one ST3 and one ST4 isolate in this animal group could be explained by an accidental zoonosis from humans to animals. All but one of the subtyped isolates in poultry belonged to ST7, which was considered as an avian ST. The presence of a remaining isolate of ST14 likely reflected a transient infection from contact between birds and cattle feces. The same environmental contamination was also likely the source of the ST14 infection in three of the four positive cats, with the remaining animals infected by ST3 as the result of human-to-animal transmission. These occurrences and subtyping data, combined with those previously collected in the Egyptian population, implies that poultry could play a significant role as reservoir for zoonotic transmission, which would not be the case for cattle and pets.
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Affiliation(s)
- Doaa Naguib
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
- Department of Hygiene and Zoonoses, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt
| | - Nausicaa Gantois
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
| | - Jeremy Desramaut
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
| | - Nagah Arafat
- Department of Poultry Diseases, Faculty of Veterinary Medicine, Mansoura University, Mansoura 35516, Egypt
| | - Gaël Even
- GD Biotech-Gènes Diffusion, F-59000 Lille, France
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Gabriela Certad
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Magali Chabé
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
| | - Eric Viscogliosi
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, F-59000 Lille, France
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Li L, Delgado‐Viscogliosi P, Gerphagnon M, Viscogliosi E, Christaki U, Sime‐Ngando T, Monchy S. Taxonomic and functional dynamics during chytrid epidemics in an aquatic ecosystem. Mol Ecol 2022; 31:5618-5634. [PMID: 36028992 PMCID: PMC9826485 DOI: 10.1111/mec.16675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 08/16/2022] [Accepted: 08/18/2022] [Indexed: 01/11/2023]
Abstract
Fungal parasitism is common in plankton communities and plays a crucial role in the ecosystem by balancing nutrient cycling in the food web. Previous studies of aquatic ecosystems revealed that zoosporic chytrid epidemics represent an important driving factor in phytoplankton seasonal successions. In this study, host-parasite dynamics in Lake Pavin (France) were investigated during the spring diatom bloom while following chytrid epidemics using next generation sequencing (NGS). Metabarcoding analyses were applied to study changes in the eukaryotic microbial community throughout diatom bloom-chytrid epidemics. Relative read abundances of metabarcoding data revealed potential "beneficiaries" and "victims" during the studied period. Subsequently, metatranscriptomic analyses on samples before and during the chytrid epidemic unveiled the active part of the community and functional/metabolic dynamics in association with the progress of chytrid infection. Diatom functions involving lipases, transporters, histones, vacuolar systems, the proteasome, proteases and DNA/RNA polymerases were more abundant during the diatom bloom. Chytrid functions related to a parasitic lifestyle including invasion, colonization and stress tolerance were up-regulated during the chytrid epidemic. In addition, functions related to the degradation/metabolism of proteins, lipids and chitin were in higher proportion in the community during the epidemic event. Results of NGS and bioinformatics analyses offered a panorama of dynamic biodiversity and biological functioning of the community.
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Affiliation(s)
- Luen‐Luen Li
- Université du Littoral Côte d'Opale, CNRS, Univ. Lille, UMR 8187, LOGLaboratoire d'Océanologie et de GéosciencesWimereuxFrance
| | - Pilar Delgado‐Viscogliosi
- University of Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de LilleU1019 – UMR 9017 – CIIL – Centre d'’Infection et d'’Immunité de LilleLilleFrance
| | - Mélanie Gerphagnon
- Laboratoire Microorganismes: Génome et Environnement, UMR CNRS 6023Clermont Université, Blaise PascalAubièreFrance
| | - Eric Viscogliosi
- University of Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de LilleU1019 – UMR 9017 – CIIL – Centre d'’Infection et d'’Immunité de LilleLilleFrance
| | - Urania Christaki
- Université du Littoral Côte d'Opale, CNRS, Univ. Lille, UMR 8187, LOGLaboratoire d'Océanologie et de GéosciencesWimereuxFrance
| | - Télesphore Sime‐Ngando
- Laboratoire Microorganismes: Génome et Environnement, UMR CNRS 6023Clermont Université, Blaise PascalAubièreFrance
| | - Sébastien Monchy
- Université du Littoral Côte d'Opale, CNRS, Univ. Lille, UMR 8187, LOGLaboratoire d'Océanologie et de GéosciencesWimereuxFrance
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8
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Sawant M, Benamrouz-Vanneste S, Meloni D, Gantois N, Even G, Guyot K, Creusy C, Duval E, Wintjens R, Weitzman JB, Chabe M, Viscogliosi E, Certad G. Putative SET-domain methyltransferases in Cryptosporidium parvum and histone methylation during infection. Virulence 2022; 13:1632-1650. [PMID: 36097362 PMCID: PMC9487757 DOI: 10.1080/21505594.2022.2123363] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Abstract
Cryptosporidium parvum is a leading cause of diarrhoeal illness worldwide being a significant threat to young children and immunocompromised patients, but the pathogenesis caused by this parasite remains poorly understood. C. parvum was recently linked with oncogenesis. Notably, the mechanisms of gene expression regulation are unexplored in Cryptosporidium and little is known about how the parasite impact host genome regulation. Here, we investigated potential histone lysine methylation, a dynamic epigenetic modification, during the life cycle of the parasite. We identified SET-domain containing proteins, putative lysine methyltransferases (KMTs), in the C. parvum genome and classified them phylogenetically into distinct subfamilies (namely CpSET1, CpSET2, CpSET8, CpKMTox and CpAKMT). Our structural analysis further characterized CpSET1, CpSET2 and CpSET8 as histone lysine methyltransferases (HKMTs). The expression of the CpSET genes varies considerably during the parasite life cycle and specific methyl-lysine antibodies showed dynamic changes in parasite histone methylation during development (CpSET1:H3K4; CpSET2:H3K36; CpSET8:H4K20). We investigated the impact of C. parvum infection on the host histone lysine methylation. Remarkably, parasite infection led to a considerable decrease in host H3K36me3 and H3K27me3 levels, highlighting the potential of the parasite to exploit the host epigenetic regulation to its advantage. This is the first study to describe epigenetic mechanisms occurring throughout the parasite life cycle and during the host–parasite interaction. A better understanding of histone methylation in both parasite and host genomes may highlight novel infection control strategies.
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Affiliation(s)
- Manasi Sawant
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Sadia Benamrouz-Vanneste
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France.,Unité de Recherche Smart and Sustainable Cities, Faculté de Gestion, Economie et Sciences, Institut Catholique de Lille, France
| | - Dionigia Meloni
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Nausicaa Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Gaël Even
- Gènes Diffusion, F-59501 Douai, France.,PEGASE-Biosicences Plateforme d'Expertises Génomiques Appliquées aux Sciences Expérimentales, Institut Pasteur de Lille, F-59000 Lille, France
| | - Karine Guyot
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Colette Creusy
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l'Institut Catholique de Lille (GHICL), F-59000 Lille, France
| | - Erika Duval
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l'Institut Catholique de Lille (GHICL), F-59000 Lille, France
| | - René Wintjens
- Unit of Microbiology, Bioorganic and Macromolecular Chemistry, Department of Research in Drug Development (RD3), Faculté de Pharmacie, Université Libre de Bruxelles, 1050 Brussels, Belgium
| | - Jonathan B Weitzman
- UMR7216 Epigenetics and Cell, Université Paris Cité, Fate, CNRS, F-75013 Paris, France
| | - Magali Chabe
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Eric Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France
| | - Gabriela Certad
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Centre d'Infection et d'Immunité de Lille, F-59000 Lille, France.,Délégation à la Recherche Clinique et à l'Innovation, Groupement des Hôpitaux de l'Institut Catholique de Lille, F-59462 Lomme, France
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9
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El Hage R, El Rayess Y, Bonifait L, El Hafi B, Baugé L, Viscogliosi E, Hamze M, Mathieu F, Matar GM, Chemaly M. A national study through a 'Farm-to-fork' Approach to determine Salmonella dissemination along with the Lebanese poultry production chain. Zoonoses Public Health 2022; 69:499-513. [PMID: 35301827 DOI: 10.1111/zph.12939] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 02/13/2022] [Accepted: 03/06/2022] [Indexed: 01/26/2023]
Abstract
This cross-sectional study was conducted to determine the prevalence of Salmonella at different stages of the broiler production chain and layer flocks in addition to their antibiotic resistance profile and molecular patterns. Over a period of 3 years, different sample matrices were collected from Lebanese farms, slaughterhouses and retail markets. Out of 672 Salmonella serotyped, 514 were analysed for antimicrobial resistance and 214 for clonality using Pulsed-field gel electrophoresis (PFGE). The results highlighted an important prevalence of Salmonella, 30% in farms, 35.8% in slaughterhouses and 22.4% at retail level. A large diversity of serotypes was identified with predominance among Salmonella Infantis (32.9%), Salmonella Enteritidis (28.4%) and Salmonella Kentucky (21.4%). High resistance to nalidixic acid was revealed in all the isolates. The most prominent resistance was exhibited in S. Kentucky and S. Infantis. The latter was resistant to tetracycline (99%), streptomycin (88.2%) and remarkable multi-drug resistance (MDR) (89.7%). All S. Kentucky isolates were resistant to ciprofloxacin, MDR (62.4%) and 6% were resistant to extended-spectrum cephalosporin (ESCs). One persistent clone of S. Enteritidis was found common between poultry and humans. Similar genomic profiles were detected between farms, slaughterhouses and retail suggesting the dissemination of identical clones throughout the food chain possibly due to weak barriers preventing such transmission.
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Affiliation(s)
- Rima El Hage
- Fanar Station, Food Microbiology Laboratory, Lebanese Agricultural Research Institute (LARI), Jdeideh El-Metn, Lebanon.,Laboratoire de Génie Chimique, UMR 5503 CNRS/INPT/UPS, INP-ENSAT, Université de Toulouse, Castanet-Tolosan, France
| | - Youssef El Rayess
- Department of Agriculture and Food Engineering, School of Engineering, Holy Spirit University of Kaslik, Jounieh, Lebanon
| | - Laetitia Bonifait
- French Agency for Food Environmental and Occupational Health & Safety (ANSES), Unit of Hygiene and Quality of Poultry & Pork Products, Laboratory of Ploufragan-Plouzané, Ploufragan, France
| | - Bassam El Hafi
- Department of Experimental Pathology, Immunology and Microbiology, Faculty of Medicine, American University of Beirut, Beirut, Lebanon
| | - Louise Baugé
- French Agency for Food Environmental and Occupational Health & Safety (ANSES), Unit of Hygiene and Quality of Poultry & Pork Products, Laboratory of Ploufragan-Plouzané, Ploufragan, France
| | - Eric Viscogliosi
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Université de Lille, Lille, France
| | - Mounzer Hamze
- Faculté de Santé Publique, Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Université Libanaise, Tripoli, Lebanon
| | - Florence Mathieu
- Laboratoire de Génie Chimique, UMR 5503 CNRS/INPT/UPS, INP-ENSAT, Université de Toulouse, Castanet-Tolosan, France
| | - Ghassan M Matar
- Department of Experimental Pathology, Immunology and Microbiology, Faculty of Medicine, American University of Beirut, Beirut, Lebanon
| | - Marianne Chemaly
- French Agency for Food Environmental and Occupational Health & Safety (ANSES), Unit of Hygiene and Quality of Poultry & Pork Products, Laboratory of Ploufragan-Plouzané, Ploufragan, France
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10
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Landman WJM, Gantois N, Sawant M, Majoor FA, van Eck JHH, Viscogliosi E. Prevalence of trichomonads in the cloaca of wild wetland birds in the Netherlands. Avian Pathol 2021; 50:465-476. [PMID: 34463603 DOI: 10.1080/03079457.2021.1967876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Severe granulomatosis in productive layer chickens due to Tetratrichomonas gallinarum strain 13/16632 infection occurred in 2013 and 2017 on farms situated in a wetland area in the Netherlands. We hypothesized that wetland birds could be the source of the infection. Therefore, a prevalence study on trichomonads was performed by analysing cloaca swabs of 526 birds belonging to 13 species of wetland birds. The number of birds sampled ranged from 1 to 275 per species. Birds were sampled at 15 locations in the Netherlands. DNA extracted from the cloaca swabs was subjected to nested PCR using trichomonad-specific primers targeting the internal transcribed spacer 1 (ITS1)-5.8S rRNA-ITS2 region followed by cloning and sequencing. In nine bird species, trichomonads were detected; the overall prevalence was 9% (47/526), while the prevalence in the five species for which a substantial number of birds were examined (at least 39 per species) ranged from 4% to 24%. Three trichomonad species were found: T. gallinarum, Trichomonas tenax and Simplicimonas sp. of which T. gallinarum dominated. The virulent T. gallinarum strain 13/16632 was not detected, but closely related strains were. Phylogenetic analysis revealed that all T. gallinarum isolates belonged to two clusters within lineage 15 of Tetratrichomonas lineages. All T. tenax isolates were identical and clustered with reference strain H95, while Simplicimonas sp. isolates showed large genetic diversity. Some isolates may represent a new species of the genus Simplicimonas. We conclude that trichomonads are widespread amongst wetland birds, raising the question, amongst others, of their relevance for commercial poultry. RESEARCH HIGHLIGHTSTrichomonads occur among wild wetland birds in the Netherlands.T. gallinarum is the dominant trichomonad species in the cloaca of wetland birds.Some T. gallinarum isolates are closely related to a strain causing granulomas in layer chickens.Some isolates may represent a new species of the genus Simplicimonas.
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Affiliation(s)
| | - N Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d'Infection et d'Immunité de Lille, Lille, France
| | - M Sawant
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d'Infection et d'Immunité de Lille, Lille, France
| | - F A Majoor
- SOVON Vogelonderzoek Nederland, Nijmegen, Netherlands
| | - J H H van Eck
- Department of Population Health Sciences, Faculty of Veterinary Medicine, Utrecht University, Utrecht, Netherlands
| | - E Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d'Infection et d'Immunité de Lille, Lille, France
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11
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Even G, Lokmer A, Rodrigues J, Audebert C, Viscogliosi E, Ségurel L, Chabé M. Changes in the Human Gut Microbiota Associated With Colonization by Blastocystis sp. and Entamoeba spp. in Non-Industrialized Populations. Front Cell Infect Microbiol 2021; 11:533528. [PMID: 33816323 PMCID: PMC8013780 DOI: 10.3389/fcimb.2021.533528] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2020] [Accepted: 01/29/2021] [Indexed: 01/04/2023] Open
Abstract
Human gut microbial communities are mainly composed of bacteria, but also include fungi, viruses, archaea, and protozoa, whose role in the gut ecosystem has only recently begun to be recognized. For example, humans colonized by Blastocystis (a gut protozoan with controversial pathogenicity) host a more diverse bacterial microbiota than individuals not carrying it, suggesting that its presence may be beneficial for the host. In parallel, the presence of non-pathogenic Entamoeba spp. has been associated with an increased diversity and compositional shifts in the bacterial microbiota of healthy rural individuals in Cameroon. However, Entamoeba and Blastocystis, the two most prevalent human gut protozoa, have never been studied in the same individuals, preventing the study of their interaction. As Blastocystis is one of the few gut protozoa commonly found in industrialized populations, which are otherwise mostly devoid of gut eukaryotes, we need to focus on rural “traditional” populations, who harbor a higher diversity of gut eukaryotes (whether pathogenic or commensal) in order to study protozoa interactions in the gut ecosystem. To this end, we profiled the gut bacterial microbiota of 134 healthy Cameroonian adults using 16S rRNA gene amplicon sequencing data. Entamoeba and Blastocystis presence and co-occurrence pattern in the same individuals were determined using metagenomic shotgun data. We found that, when taking into account both protozoa jointly, Blastocystis was associated with both a higher richness and a higher evenness of the gut bacterial microbiota, while Entamoeba was associated only with a higher richness. We demonstrated a cumulative influence of these protozoa on bacterial microbiome diversity. Furthermore, while the abundance of several common taxa (for example, Ruminococcaceae, Coprococcus and Butyrivibrio) varied according to Blastocystis colonization, only a single Bacteroides amplicon sequence variant was found to be differentially abundant between Entamoeba-negative and Entamoeba-positive samples. Given the specific signature of each protozoan on the gut microbiota and the seemingly stronger association for Blastocystis, our results suggest that Blastocystis and Entamoeba interact with gut bacteria each in its own way, but experimental studies are needed to explore the precise mechanisms of these interactions.
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Affiliation(s)
- Gaël Even
- Gènes Diffusion, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Ana Lokmer
- UMR7206 Eco-Anthropologie, CNRS-MNHN-Université de Paris, Paris, France
| | - Jules Rodrigues
- UMR7206 Eco-Anthropologie, CNRS-MNHN-Université de Paris, Paris, France
| | - Christophe Audebert
- Gènes Diffusion, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Laure Ségurel
- UMR7206 Eco-Anthropologie, CNRS-MNHN-Université de Paris, Paris, France.,Laboratoire de Biométrie et Biologie Evolutive UMR5558, CNRS - Université Lyon 1, Université de Lyon, Villeurbanne, France
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9017-CIIL-Centre d'Infection et d'Immunité de Lille, Lille, France
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12
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Certad G, Viscogliosi E. Editorial for the Special Issue: Epidemiology, Transmission, Cell Biology and Pathogenicity of Cryptosporidium. Microorganisms 2021; 9:microorganisms9030511. [PMID: 33804407 PMCID: PMC7999443 DOI: 10.3390/microorganisms9030511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Accepted: 02/25/2021] [Indexed: 11/16/2022] Open
Affiliation(s)
- Gabriela Certad
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019—UMR 9017—CIIL—Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France;
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59462 Lomme, France
- Correspondence:
| | - Eric Viscogliosi
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019—UMR 9017—CIIL—Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France;
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13
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Certad G, Zahedi A, Gantois N, Sawant M, Creusy C, Duval E, Benamrouz-Vanneste S, Ryan U, Viscogliosi E. Molecular Characterization of Novel Cryptosporidium Fish Genotypes in Edible Marine Fish. Microorganisms 2020; 8:microorganisms8122014. [PMID: 33339341 PMCID: PMC7767022 DOI: 10.3390/microorganisms8122014] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2020] [Revised: 12/11/2020] [Accepted: 12/14/2020] [Indexed: 12/17/2022] Open
Abstract
Current knowledge of Cryptosporidium species/genotypes in marine fish is limited. Following phylogenetic analysis at the 18S rDNA locus, a recent study identified six new genotypes of Cryptosporidium colonizing edible fish found in European seas. Of these, five grouped in a clade together (#Cryptofish 1-5) and one grouped separately (#Cryptofish 7). In the present study, after phylogenetic analyses of #Cryptofish1, #Cryptofish2, #Cryptofish4, #Cryptofish5 and #Cryptofish7 at the actin locus, the presence of two major clades was confirmed. In addition, when possible, longer 18S amplicons were generated. In conclusion, the small genetic distances between these genotypes designated as a novel marine genotype I (#Cryptofish 1-5) suggest that they may be genetic variants of the same species, while the designated novel marine genotype 2 (#Cryptofish 7) is clearly representative of a separate species.
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Affiliation(s)
- Gabriela Certad
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, Université de Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (N.G.); (M.S.); (S.B.-V.); (E.V.)
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59462 Lomme, France
- Correspondence:
| | - Alireza Zahedi
- Harry Butler Institute, Murdoch University, Perth 6150, Australia; (A.Z.); (U.R.)
| | - Nausicaa Gantois
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, Université de Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (N.G.); (M.S.); (S.B.-V.); (E.V.)
| | - Manasi Sawant
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, Université de Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (N.G.); (M.S.); (S.B.-V.); (E.V.)
| | - Colette Creusy
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Institut Catholique de Lille (GHICL), F-59000 Lille, France; (C.C.); (E.D.)
| | - Erika Duval
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Institut Catholique de Lille (GHICL), F-59000 Lille, France; (C.C.); (E.D.)
| | - Sadia Benamrouz-Vanneste
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, Université de Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (N.G.); (M.S.); (S.B.-V.); (E.V.)
- Laboratoire Ecologie et Biodiversité, Institut Catholique de Lille, Faculté de Gestion Economie et Sciences, F-59000 Lille, France
| | - Una Ryan
- Harry Butler Institute, Murdoch University, Perth 6150, Australia; (A.Z.); (U.R.)
| | - Eric Viscogliosi
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, Université de Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (N.G.); (M.S.); (S.B.-V.); (E.V.)
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14
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Khaled S, Gantois N, Ly AT, Senghor S, Even G, Dautel E, Dejager R, Sawant M, Baydoun M, Benamrouz-Vanneste S, Chabé M, Ndiaye S, Schacht AM, Certad G, Riveau G, Viscogliosi E. Prevalence and Subtype Distribution of Blastocystis sp. in Senegalese School Children. Microorganisms 2020; 8:microorganisms8091408. [PMID: 32932661 PMCID: PMC7564003 DOI: 10.3390/microorganisms8091408] [Citation(s) in RCA: 53] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Revised: 09/07/2020] [Accepted: 09/10/2020] [Indexed: 12/12/2022] Open
Abstract
Blastocystis sp. is an enteric protozoan that frequently colonizes humans and many animals. Despite impacting on human health, data on the prevalence and subtype (ST) distribution of Blastocystis sp. remain sparse in Africa. Accordingly, we performed the first multicenter and largest epidemiological survey ever conducted on Blastocystis sp. for this continent. A total of 731 stool samples collected from healthy school children living in 10 villages of the northwestern region of Senegal were tested for the presence of Blastocystis sp. by real-time polymerase chain reaction followed by subtyping of positive samples. Considerable variation in prevalence between villages (51.7 to 100%) was evident with the overall prevalence being 80.4%. Mixed infections were identified in 23% of positive individuals. Among 453 school children with a single infection, ST2 was predominant, followed by ST1, ST3, ST7, ST10, and ST14; this is the first report of ST10 and ST14 in humans. Genetic polymorphisms were evident at the intra-ST level with the identification of numerous ST1 to ST3 genotypes. ST1 showed the greatest intra-ST diversity followed by ST2 and ST3. The prevalence and distribution of STs and genotypes varied among target villages, pointing to several potential infection sources, including human-to-human, zoonotic, and waterborne transmission.
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Affiliation(s)
- Salma Khaled
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Nausicaa Gantois
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Amadou Tidjani Ly
- Biomedical Research Center Espoir Pour La Santé (BRC-EPLS), BP 226 Saint-Louis, Senegal; (A.T.L.); (S.S.)
| | - Simon Senghor
- Biomedical Research Center Espoir Pour La Santé (BRC-EPLS), BP 226 Saint-Louis, Senegal; (A.T.L.); (S.S.)
| | - Gaël Even
- Gènes Diffusion, F-59501 Douai, France;
- PEGASE-Biosciences (Plateforme d’Expertises Génomiques Appliquées aux Sciences Expérimentales), Institut Pasteur de Lille, F-59000 Lille, France
| | - Ellena Dautel
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Romane Dejager
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Manasi Sawant
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Martha Baydoun
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Sadia Benamrouz-Vanneste
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
- Laboratoire Ecologie et Biodiversité, Institut Catholique de Lille, Faculté de Gestion Economie et Sciences, F-59000 Lille, France
| | - Magali Chabé
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
| | - Seynabou Ndiaye
- Région Médicale de Saint-Louis, MSAS, BP 226 Saint-Louis, Senegal;
| | - Anne-Marie Schacht
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
- Biomedical Research Center Espoir Pour La Santé (BRC-EPLS), BP 226 Saint-Louis, Senegal; (A.T.L.); (S.S.)
| | - Gabriela Certad
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Gilles Riveau
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
- Biomedical Research Center Espoir Pour La Santé (BRC-EPLS), BP 226 Saint-Louis, Senegal; (A.T.L.); (S.S.)
| | - Eric Viscogliosi
- Institut Pasteur de Lille, U1019–UMR 9017–CIIL–Centre d’Infection et d’Immunité de Lille, University of Lille, CNRS, Inserm, CHU Lille, F-59000 Lille, France; (S.K.); (N.G.); (E.D.); (R.D.); (M.S.); (M.B.); (S.B.-V.); (M.C.); (A.-M.S.); (G.C.); (G.R.)
- Correspondence:
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15
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Gantois N, Lamot A, Seesao Y, Creusy C, Li LL, Monchy S, Benamrouz-Vanneste S, Karpouzopoulos J, Bourgain JL, Rault C, Demaret F, Baydoun M, Chabé M, Fréalle E, Aliouat-Denis CM, Gay M, Certad G, Viscogliosi E. First Report on the Prevalence and Subtype Distribution of Blastocystis sp. in Edible Marine Fish and Marine Mammals: A Large Scale-Study Conducted in Atlantic Northeast and on the Coasts of Northern France. Microorganisms 2020; 8:microorganisms8030460. [PMID: 32213897 PMCID: PMC7144014 DOI: 10.3390/microorganisms8030460] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Revised: 03/03/2020] [Accepted: 03/22/2020] [Indexed: 12/18/2022] Open
Abstract
Blastocystis is frequently identified in humans and animal hosts and exhibits a large genetic diversity with the identification of 17 subtypes (STs). Despite its zoonotic potential, its prevalence and ST distribution in edible marine fish and marine mammals remain unknown. A large-scale survey was thus conducted by screening 345 fish caught in Atlantic Northeast and 29 marine mammals stranded on the coasts of northern France for the presence of the parasite using real-time Polymerase Chain Reaction PCR. The prevalence of the parasite was about 3.5% in marine fish. These animals were mostly colonized by poikilotherm-derived isolates not identified in humans and corresponding to potential new STs, indicating that fish are natural hosts of Blastocystis. Marine fishes are also carriers of human STs and represent a likely limited source of zoonotic transmission. 13.8% of the marine mammals tested were colonized and 6 different STs were identified including 3 potential new STs. The risk of zoonotic transmission through marine mammals is insignificant due to the lack of repeated contact with humans. The present survey represents the first data regarding the prevalence and ST distribution of Blastocystis in marine fish and marine mammals and provides new insights into its genetic diversity, host range and transmission.
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Affiliation(s)
- Nausicaa Gantois
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Angélique Lamot
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Yuwalee Seesao
- French Agency for Food, Environmental and Occupational Health and Safety (Anses), Laboratory for Food Safety, F-62200 Boulogne-sur-mer, France; (Y.S.); (L.-L.L.); (M.G.)
| | - Colette Creusy
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Institut Catholique de Lille (GHICL), F-59000 Lille, France;
| | - Luen-Luen Li
- French Agency for Food, Environmental and Occupational Health and Safety (Anses), Laboratory for Food Safety, F-62200 Boulogne-sur-mer, France; (Y.S.); (L.-L.L.); (M.G.)
- Univ. Littoral Côte d’Opale, CNRS, Univ. Lille, UMR 8187, LOG, Laboratoire d’Océanologie et de Géosciences, F-62930 Wimereux, France;
| | - Sébastien Monchy
- Univ. Littoral Côte d’Opale, CNRS, Univ. Lille, UMR 8187, LOG, Laboratoire d’Océanologie et de Géosciences, F-62930 Wimereux, France;
| | - Sadia Benamrouz-Vanneste
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
- Laboratoire Ecologie et Biodiversité, Faculté de Gestion Economie et Sciences, Institut Catholique de Lille, F-59000 Lille, France
| | - Jacky Karpouzopoulos
- Coordination Mammalogique du Nord de la France, Groupe Mammifères Marins, F-62850 Alembon, France; (J.K.); (J.-L.B.); (C.R.)
| | - Jean-Luc Bourgain
- Coordination Mammalogique du Nord de la France, Groupe Mammifères Marins, F-62850 Alembon, France; (J.K.); (J.-L.B.); (C.R.)
| | - Célia Rault
- Coordination Mammalogique du Nord de la France, Groupe Mammifères Marins, F-62850 Alembon, France; (J.K.); (J.-L.B.); (C.R.)
| | - Fabien Demaret
- Observatoire PELAGIS - UMS 3462, La Rochelle Université/CNRS, F-17000 La Rochelle, France;
| | - Martha Baydoun
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Emilie Fréalle
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Cécile-Marie Aliouat-Denis
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
| | - Mélanie Gay
- French Agency for Food, Environmental and Occupational Health and Safety (Anses), Laboratory for Food Safety, F-62200 Boulogne-sur-mer, France; (Y.S.); (L.-L.L.); (M.G.)
| | - Gabriela Certad
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille, F-59000 Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 – UMR 9017 – CIIL – Centre d’Infection et d’Immunité de Lille, F-59000 Lille, France; (N.G.); (A.L.); (S.B.-V.); (M.B.); (M.C.); (E.F.); (C.-M.A.-D.); (G.C.)
- Correspondence:
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16
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Abstract
Granuloma disease in a flock of free range productive layers in the Netherlands in 2017 is described. The disease resembled granuloma outbreaks in layers caused by Tetratrichomonas gallinarum in 2013 and occurred in the same area in which the rearing farm considered as the source of the 2013 outbreaks was located. Between 55 and 84 weeks of age mortality was 20.3% (breeder’s norm 3.9%). All dead hens examined (n = 20) showed granulomas especially in liver and ceca. Nine hens with or without liver and/or ceca granulomas were examined for trichomonads in mentioned organs by in situ hybridization (ISH), nested PCR, and cloning and sequencing. Ceca were also examined by culture. T. gallinarum ISH was positive in all livers and ceca with granulomas and negative in case granulomas were absent. T. gallinarum strain 13/16632, which caused the 2013 outbreaks was found in 4/8 hens with granulomas. Moreover, other trichomonads were detected: a T. gallinarum strain GPO-like and a Simplicimonas sp. strain GABC1-like. Mixed infections also occurred. Infectious causes of granuloma disease other than the afore-mentioned trichomonads could be excluded. Trichomonad DNA was not detected in environmental samples and wild ducks originating from the farm of concern, except for one duck in which the same Simplicimonas sp. as in hens was detected, leaving the source of the T. gallinarum infection in hens unknown. It is concluded that the herein described granuloma disease likely was caused by T. gallinarum strain 13/16632. However, the pathogenicity of the other trichomonads found remains to be clarified.
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Affiliation(s)
| | - N Gantois
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, University of Lille, Lille, France
| | - J H H van Eck
- Department of Farm Animal Health, Faculty of Veterinary Medicine, Utrecht University, Utrecht, the Netherlands
| | | | - E Viscogliosi
- CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, University of Lille, Lille, France
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17
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Baydoun M, Treizeibré A, Follet J, Benamrouz Vanneste S, Creusy C, Dercourt L, Delaire B, Mouray A, Viscogliosi E, Certad G, Senez V. An Interphase Microfluidic Culture System for the Study of Ex Vivo Intestinal Tissue. Micromachines (Basel) 2020; 11:E150. [PMID: 32019215 PMCID: PMC7074597 DOI: 10.3390/mi11020150] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/13/2019] [Revised: 01/21/2020] [Accepted: 01/28/2020] [Indexed: 11/22/2022]
Abstract
Ex vivo explant culture models offer unique properties to study complex mechanisms underlying tissue growth, renewal, and disease. A major weakness is the short viability depending on the biopsy origin and preparation protocol. We describe an interphase microfluidic culture system to cultivate full thickness murine colon explants which keeps morphological structures of the tissue up to 192 h. The system was composed of a central well on top of a porous membrane supported by a microchannel structure. The microfluidic perfusion allowed bathing the serosal side while preventing immersion of the villi. After eight days, up to 33% of the samples displayed no histological abnormalities. Numerical simulation of the transport of oxygen and glucose provided technical solutions to improve the functionality of the microdevice.
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Affiliation(s)
- Martha Baydoun
- Univ. Lille, CNRS, ISEN-YNCREA, UMR 8520-IEMN, F-59000 Lille, France
- ISA-YNCREA Hauts de France, F-59000 Lille, France
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9107-CIIL-Centre d’Infection et d’Immunité de Lille, F-59019 Lille, France
| | | | - Jérôme Follet
- Univ. Lille, CNRS, ISEN-YNCREA, UMR 8520-IEMN, F-59000 Lille, France
- ISA-YNCREA Hauts de France, F-59000 Lille, France
| | - Sadia Benamrouz Vanneste
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9107-CIIL-Centre d’Infection et d’Immunité de Lille, F-59019 Lille, France
- Laboratoire Ecologie et Biodiversité, Unité de Recherche Smart and Sustainable Cities, Faculté de Gestion Economie et Sciences, Institut Catholique de Lille, F-59800 Lille, France
| | - Colette Creusy
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Université Catholique de Lille, 59000 Lille, France
| | - Lucie Dercourt
- CNRS, Univ. Tokyo, UMI 2820 — LIMMS, F-59000 Lille, France
| | - Baptiste Delaire
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Université Catholique de Lille, 59000 Lille, France
| | - Anthony Mouray
- Plateforme d’Expérimentations et de Hautes Technologies Animales, Institut Pasteur de Lille Lille, 59019 Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9107-CIIL-Centre d’Infection et d’Immunité de Lille, F-59019 Lille, France
| | - Gabriela Certad
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019-UMR 9107-CIIL-Centre d’Infection et d’Immunité de Lille, F-59019 Lille, France
- Délégation à la Recherche Clinique et à l’Innovation, Groupement des Hôpitaux de l’Institut Catholique de Lille (GHICL), Faculté de Médecine et Maïeutique, Université Catholique de Lille, 59800 Lille, France
| | - Vincent Senez
- Univ. Lille, CNRS, ISEN-YNCREA, UMR 8520-IEMN, F-59000 Lille, France
- CNRS, Univ. Tokyo, UMI 2820 — LIMMS, F-59000 Lille, France
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18
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Greige S, Rivoal K, Osman M, Safadi DE, Dabboussi F, Hage RE, Viscogliosi E, Hamze M, Chemaly M. Prevalence and genetic diversity of Campylobacter spp. in the production chain of broiler chickens in Lebanon and its association with the intestinal protozoan Blastocystis sp. Poult Sci 2020; 98:5883-5891. [PMID: 31134283 DOI: 10.3382/ps/pez286] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2018] [Accepted: 05/06/2019] [Indexed: 01/09/2023] Open
Abstract
Campylobacter jejuni is recognized as the most common foodborne pathogen associated with human gastroenteritis worldwide. Broilers are frequently infected by the bacteria and are considered the main source of exposure to humans. However, despite its public health impact, no recent data are currently available in Lebanon about Campylobacter spp. in poultry and human population. Therefore, this study aimed to determine the prevalence and genetic diversity of Campylobacter spp. in 227 ceca and on 227 carcasses of broiler chickens collected in Lebanese slaughterhouses. Overall, the prevalence of Campylobacter was shown to reach 67.0% in ceca and 17.2% on carcasses of Lebanese poultry. The only 2 Campylobacter species identified were C. jejuni and C. coli, with a slightly higher prevalence of C. coli in ceca and of C. jejuni on carcasses. A high level of genetic diversity was reported among the 51 C. jejuni isolates selected, since 25 distinct profiles were identified according to the comparative genomic fingerprinting typing method based on a subset of 40 genes using the 90% similarity threshold. Predominant clusters observed in Lebanese poultry isolates were also frequently found among French human clinical cases, highlighting that broiler chickens represent a potential reservoir for human campylobacteriosis. In addition, a significantly higher prevalence of Campylobacter spp. was found in slaughterhouse workers than in a cohort of hospitalized patients with no contact with poultry, confirming that contaminated broiler chickens in slaughterhouse appeared to be a non-negligible source of Campylobacter spp. transmission. Interestingly, a significant association between Campylobacter spp. and Blastocystis sp. has been observed. This correlation suggested that the presence of Campylobacter spp. would be favored when Blastocystis sp. is present and, similarly, the absence of one would favor the absence of the other. This is the first large-scale investigation focusing on the impact of Campylobacter spp. in broiler chickens in Lebanon and confirmed the need to implement prevention and control measures in the poultry production to reduce the burden of campylobacteriosis in the human population.
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Affiliation(s)
- S Greige
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 59000 Lille, France.,Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Liban.,ANSES, Ploufragan-Plouzané Laboratory, Hygiene and Quality of Poultry and Pig Products Unit, Bretagne-Loire University, 22440 Ploufragan, France
| | - K Rivoal
- ANSES, Ploufragan-Plouzané Laboratory, Hygiene and Quality of Poultry and Pig Products Unit, Bretagne-Loire University, 22440 Ploufragan, France
| | - M Osman
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Liban
| | - D El Safadi
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Liban
| | - F Dabboussi
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Liban
| | - R El Hage
- Institut de Recherche Agronomique Libanais (IRAL), Laboratoire de Microbiologie Alimentaire, Station de Fanar, Jdeideh El-Metn, Lebanon
| | - E Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 59000 Lille, France
| | - M Hamze
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Liban
| | - M Chemaly
- ANSES, Ploufragan-Plouzané Laboratory, Hygiene and Quality of Poultry and Pig Products Unit, Bretagne-Loire University, 22440 Ploufragan, France
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19
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Greige S, El Safadi D, Khaled S, Gantois N, Baydoun M, Chemaly M, Benamrouz-Vanneste S, Chabé M, Osman M, Certad G, Hamze M, Viscogliosi E. First report on the prevalence and subtype distribution of Blastocystis sp. in dairy cattle in Lebanon and assessment of zoonotic transmission. Acta Trop 2019; 194:23-29. [PMID: 30878470 DOI: 10.1016/j.actatropica.2019.02.013] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2018] [Revised: 02/06/2019] [Accepted: 02/12/2019] [Indexed: 02/07/2023]
Abstract
Blastocystis sp. is frequently identified in a wide range of animal hosts, including bovids. Because of its burden and zoonotic potential, this parasite has been sought in domestic cattle from various countries, since this livestock may also represent a possible reservoir of human infection. However, epidemiological data regarding the prevalence and ST distribution of Blastocystis sp. in this animal group is lacking in Lebanon. Therefore, faecal samples were collected from a total of 254 dairy cattle raised on 55 farms located in the North Lebanon region and screened for the presence of the parasite by quantitative real-time PCR. The overall prevalence of Blastocystis sp. was shown to reach 63.4% in cattle livestock. Sequence analysis of positive samples indicated the presence of seven STs, with predominance of ST10 (44.0%) and ST14 (36.8%) and lower proportions of ST2 (8.0%), ST1 (7.2%), ST5 (2.4%), ST3 and ST7 (0.8% each). This survey was the first conducted worldwide reporting ST2 and ST7 in domestic cattle and confirmed that ST10 and ST14 represent cattle-adapted STs in view of their high prevalence. Faecal samples from in-contact dairy farmers and patients hospitalised in the same Lebanese governorate who reported no contact with cattle livestock were also analysed for the presence of Blastocystis sp. The same three STs were identified in both human cohorts, with predominance of ST3, followed either by ST1 or ST2 depending of the group. No other STs, including ST10 or ST14, have been reported. Moreover, even though ST1, ST2 and ST3 were found to be common to dairy cattle and farmers cohorts, only one ST3 isolate showed 100% sequence identity between both hosts. Consequently, the presence and low prevalence of ST1, ST2, ST3, ST5 and ST7 identified herein in domestic cattle, most of which exhibit low host specificity, could be derived from occasional direct exposure to faecal material from human and non-human hosts or by ingestion of contaminated drinking water or food in the enclosure of the farms. Together with the absence of ST10 and ST14 in the human population, these data suggest that cattle play a negligible role as zoonotic reservoirs of Blastocystis sp.
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Affiliation(s)
- Stéphanie Greige
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France; Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Rue Mitein, Tripoli, Lebanon
| | - Dima El Safadi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France; Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Rue Mitein, Tripoli, Lebanon
| | - Salma Khaled
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France; Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Rue Mitein, Tripoli, Lebanon
| | - Nausicaa Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Martha Baydoun
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Marianne Chemaly
- ANSES, Ploufragan-Plouzané Laboratory, Hygiene and Quality of Poultry and Pig Products Unit, Bretagne-Loire University, Ploufragan, France
| | - Sadia Benamrouz-Vanneste
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Magali Chabé
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Marwan Osman
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Rue Mitein, Tripoli, Lebanon
| | - Gabriela Certad
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France; Département de la Recherche Médicale, Groupement des Hôpitaux de l'Institut Catholique de Lille, Faculté de Médecine et Maïeutique, Université Catholique de Lille, 51 Boulevard de Belfort, 59000 Lille, France
| | - Monzer Hamze
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Rue Mitein, Tripoli, Lebanon
| | - Eric Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France.
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20
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Certad G, Follet J, Gantois N, Hammouma-Ghelboun O, Guyot K, Benamrouz-Vanneste S, Fréalle E, Seesao Y, Delaire B, Creusy C, Even G, Verrez-Bagnis V, Ryan U, Gay M, Aliouat-Denis C, Viscogliosi E. Prevalence, Molecular Identification, and Risk Factors for Cryptosporidium Infection in Edible Marine Fish: A Survey Across Sea Areas Surrounding France. Front Microbiol 2019; 10:1037. [PMID: 31156581 PMCID: PMC6530514 DOI: 10.3389/fmicb.2019.01037] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Accepted: 04/24/2019] [Indexed: 12/19/2022] Open
Abstract
Cryptosporidium, a zoonotic pathogen, is able to infect a wide range of hosts including wild and domestic animals, and humans. Although it is well known that some parasites are both fish pathogens and recognized agents of zoonosis with a public health impact, little information is available concerning the prevalence of Cryptosporidium in wild aquatic environments. To evaluate the prevalence of Cryptosporidium spp. in commercially important edible marine fish in different European seas (English channel, North sea, Bay of Biscay, Celtic sea and Mediterranean sea), 1,853 specimens were collected as part of two surveys. Nested PCR followed by sequence analysis at the 18S rRNA gene locus was used to identify Cryptosporidium spp. The overall prevalence of Cryptosporidium spp. in sampled fish reached 2.3% (35 out of 1,508) in a first campaign and 3.2% (11 out of 345) in a second campaign. Sequence and phylogenetic analysis of positive samples identified Cryptosporidium parvum (n = 10) and seven genotypes which exhibited between 7.3 and 10.1% genetic distance from C. molnari, with the exception of one genotype which exhibited only 0.5–0.7% genetic distance from C. molnari. Among 31 analyzed fish species, 11 (35.5%) were identified as potential hosts for Cryptosporidium. A higher prevalence of Cryptosporidium spp. was observed in larger fish, in fish collected during the spring-summer period, and in those caught in the North East Atlantic. Pollachius virens (saithe) was the most frequently Cryptosporidium positive species. In fish infected by other parasites, the risk of being Cryptosporidium positive increased 10-fold (OR: 9.95, CI: 2.32–40.01.04, P = 0.0002). Four gp60 subtypes were detected among the C. parvum positive samples: IIaA13G1R1, IIaA15G2R1, IIaA17G2R1, and IIaA18G3R1. These C. parvum subtypes have been previously detected in terrestrial mammals and may constitute an additional source of infection for other animals and in particular for humans. Microscopical examination of histological sections confirmed the presence of round bodies suggestive of the development of C. parvum within digestive glands. We report herein the first epidemiological and molecular data concerning the detection of Cryptosporidium in edible marine fish in European seas surrounding France broadening its host range and uncovering potential novel infection routes.
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Affiliation(s)
- Gabriela Certad
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France.,Délégation à la Recherche Clinique et à l'innovation, Groupement des Hôpitaux de l'Institut Catholique de Lille, Lille, France
| | - Jérôme Follet
- ISA-YNCREA Hauts-de-France, Lille, France.,CNRS, ISEN, UMR 8520 - IEMN, Université de Lille, Lille, France
| | - Nausicaa Gantois
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | | | - Karine Guyot
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | - Sadia Benamrouz-Vanneste
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France.,Laboratoire Ecologie et Biodiversité, Faculté de Gestion Economie et Sciences, Institut Catholique de Lille, Lille, France
| | - Emilie Fréalle
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | - Yuwalee Seesao
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | - Baptiste Delaire
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l'Institut Catholique de Lille, Lille, France
| | - Colette Creusy
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l'Institut Catholique de Lille, Lille, France
| | - Gaël Even
- Gènes Diffusion, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Véronique Verrez-Bagnis
- Ifremer, Laboratoire Ecosystèmes Microbiens et Molécules Marines pour les Biotechnologies, Nantes, France
| | - Una Ryan
- Centre for Sustainable Aquatic Ecosystems, College of Science, Health, Engineering and Education, Murdoch University, Perth, WA, Australia
| | - Mélanie Gay
- Laboratory for Food Safety, French Agency for Food, Environmental and Occupational Health and Safety (ANSES), Boulogne-sur-mer, France
| | - Cécile Aliouat-Denis
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | - Eric Viscogliosi
- CNRS, Inserm, CHU Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
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21
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Lokmer A, Cian A, Froment A, Gantois N, Viscogliosi E, Chabé M, Ségurel L. Use of shotgun metagenomics for the identification of protozoa in the gut microbiota of healthy individuals from worldwide populations with various industrialization levels. PLoS One 2019; 14:e0211139. [PMID: 30726303 PMCID: PMC6364966 DOI: 10.1371/journal.pone.0211139] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Accepted: 01/08/2019] [Indexed: 11/19/2022] Open
Abstract
Protozoa have long been considered undesirable residents of the human gut, but recent findings suggest that some of them may positively affect the gut ecosystem. To better understand the role and ecological dynamics of these commensal and potentially beneficial protozoan symbionts, we need efficient methods to detect them, as well as accurate estimates of their prevalence across human populations. Metagenomics provides such an opportunity, allowing simultaneous detection of multiple symbionts in a single analytical procedure. In this study, we collected fecal samples of 68 individuals from three Cameroonian populations with different subsistence modes and compared metagenomics-based and targeted methods of detection for two common protozoan genera: Blastocystis and Entamoeba. In addition, we analyzed our data along with publicly available fecal metagenomes from various worldwide populations to explore the prevalence and association patterns of ten protozoan genera. Regarding the detection method, microscopy was much less sensitive than metagenomics for Entamoeba, whereas qPCR was at least as sensitive as metagenomics for Blastocystis sp. However, metagenomics was more likely to detect co-colonizations by multiple subtypes. Out of the ten examined genera in 127 individuals from Cameroon, Tanzania, Peru, Italy or USA, only three (Blastocystis, Entamoeba and Enteromonas) had an overall prevalence exceeding 10%. All three genera were more common in less industrialized populations and their prevalence differed between continents and subsistence modes, albeit not in a straightforward manner. The majority (72.5%) of colonized individuals carried at least two protozoan species, indicating that mixed-species colonizations are common. In addition, we detected only positive and no negative association patterns between different protozoa. Despite the pitfalls of the metagenomic approach, ranging from the availability of good-quality sequencing data to the lack of standard analytical procedures, we demonstrated its utility in simultaneous detection of multiple protozoan genera, and especially its ability to efficiently detect mixed-species colonizations. Our study corroborates and expands prevalence results previously obtained for Blastocystis sp. and provides novel data for Entamoeba spp. and several other protozoan genera. Furthermore, it indicates that multiple protozoa are common residents of the healthy human gut worldwide.
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Affiliation(s)
- Ana Lokmer
- UMR7206 Eco-anthropologie et Ethnobiologie, CNRS—MNHN—Univ Paris Diderot—Sorbonne Paris Cité, Paris, France
| | - Amandine Cian
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Alain Froment
- UMR7206 Eco-anthropologie et Ethnobiologie, CNRS—MNHN—Univ Paris Diderot—Sorbonne Paris Cité, Paris, France
| | - Nausicaa Gantois
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Laure Ségurel
- UMR7206 Eco-anthropologie et Ethnobiologie, CNRS—MNHN—Univ Paris Diderot—Sorbonne Paris Cité, Paris, France
- * E-mail:
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22
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Greige S, El Safadi D, Bécu N, Gantois N, Pereira B, Chabé M, Benamrouz-Vanneste S, Certad G, El Hage R, Chemaly M, Hamze M, Viscogliosi E. Prevalence and subtype distribution of Blastocystis sp. isolates from poultry in Lebanon and evidence of zoonotic potential. Parasit Vectors 2018; 11:389. [PMID: 29973261 PMCID: PMC6030734 DOI: 10.1186/s13071-018-2975-5] [Citation(s) in RCA: 58] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2018] [Accepted: 06/22/2018] [Indexed: 12/21/2022] Open
Abstract
BACKGROUND Blastocystis sp. is a common protozoan parasite frequently identified in the digestive tract of humans and a large variety of animal hosts worldwide, including birds. It exhibits a large genetic diversity with the identification of 17 subtypes (STs), most of them with low host specificity. ST6 and ST7 were identified in birds and suggested to represent avian STs only in the context of scarce small-scale epidemiological surveys. Moreover, these two STs also account for a significant proportion of human infections whose zoonotic origin has never been clearly confirmed. Therefore, molecular screening of Blastocystis sp. was conducted by quantitative real-time PCR for fecal samples from poultry farms and their in-contact humans from slaughterhouses in Lebanon. In parallel, a control group consisting of patients hospitalized in the same geographical area and reporting no contact with poultry was also screened for the presence of the parasite. RESULTS The overall prevalence of Blastocystis sp. was shown to reach around 32% in chicken samples and 65% in the farms screened. All the avian isolates were subtyped and belonged to either ST6 or ST7, with a large predominance of ST6. Fifty-four percent of slaughterhouse staff members were positive for Blastocystis sp. compared with a similar prevalence of 56% in hospitalized patients. ST3 was predominant in both human cohorts followed by either ST1 then ST2 among slaughterhouse staff or by ST2 then ST1 among hospitalized patients. ST6 was also identified in two slaughterhouse workers and not in the group of hospitalized patients. Gene sequence identity was observed between chicken and human ST6 isolates from the same slaughterhouse. CONCLUSIONS Our data revealed a high prevalence of Blastocystis sp. in chicken samples and confirmed that ST6 and ST7 represented avian-adapted STs. Among both human cohorts, Blastocystis sp. infection was shown to exceed 50% with a predominance of ST3. The identification of ST6 in slaughterhouse staff members confirmed the zoonotic transmission of this ST through repeated and direct contact between chickens and their handlers.
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Affiliation(s)
- Stéphanie Greige
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Dima El Safadi
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Noémie Bécu
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Nausicaa Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Bruno Pereira
- CHU Clermont-Ferrand, Unité de Biostatistiques, Direction de la Recherche Clinique (DRCI), Clermont-Ferrand, France
| | - Magali Chabé
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Sadia Benamrouz-Vanneste
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Laboratoire Ecologie et Biodiversité, Faculté de Gestion Economie et Sciences, Institut Catholique de Lille, Lille, France
| | - Gabriela Certad
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Département de la Recherche Médicale, Groupement des Hôpitaux de l'Institut Catholique de Lille, Faculté de Médecine et Maïeutique, Université Catholique de Lille, Lille, France
| | - Rima El Hage
- Institut de Recherche Agronomique Libanais (IRAL), Laboratoire de Microbiologie Alimentaire, Station de Fanar, Jdeideh El-Metn, Lebanon
| | - Marianne Chemaly
- ANSES, Laboratoire de Ploufragan - Plouzané, Unité Hygiène et qualité des produits avicoles et porcins, Université Bretagne-Loire, Ploufragan, France
| | - Monzer Hamze
- Laboratoire Microbiologie Santé Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Eric Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.
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23
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Dauchy C, Bautin N, Nseir S, Reboux G, Wintjens R, Le Rouzic O, Sendid B, Viscogliosi E, Le Pape P, Arendrup MC, Gosset P, Fry S, Fréalle E. Emergence of Aspergillus fumigatus azole resistance in azole-naïve patients with chronic obstructive pulmonary disease and their homes. Indoor Air 2018; 28:298-306. [PMID: 29082624 DOI: 10.1111/ina.12436] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 10/19/2017] [Indexed: 06/07/2023]
Abstract
Azole-resistant Aspergillus fumigatus (ARAF) has been reported in patients with chronic obstructive pulmonary disease (COPD) but has not been specifically assessed so far. Here, we evaluated ARAF prevalence in azole-naïve COPD patients and their homes, and assessed whether CYP51A mutations were similar in clinical and environmental reservoirs. Sixty respiratory samples from 41 COPD patients with acute exacerbation and environmental samples from 36 of these patient's homes were prospectively collected. A. fumigatus was detected in respiratory samples from 11 of 41 patients (27%) and in 15 of 36 domiciles (42%). Cyp51A sequencing and selection on itraconazole medium of clinical (n = 68) and environmental (n = 48) isolates yielded ARAF detection in 1 of 11 A. fumigatus colonized patients with COPD (9%) and 2 of 15 A. fumigatus-positive patient's homes (13%). The clinical isolate had no CYP51A mutation. Two environmental isolates from two patients harbored TR34 /L98H mutation, and one had an H285Y mutation. Coexistence of different cyp51A genotypes and/or azole resistance profiles was detected in 3 of 8 respiratory and 2 of 10 environmental samples with more than one isolate, confirming the need for a systematic screening of all clinically relevant isolates. The high prevalence of ARAF in patients with COPD and their homes supports the need for further studies to assess the prevalence of azole resistance in patients with Aspergillus diseases in Northern France.
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Affiliation(s)
- C Dauchy
- CHU Lille, Laboratoire de Parasitologie-Mycologie, Lille, France
| | - N Bautin
- CHU Lille, Department of Respiratory Diseases, Lille, France
| | - S Nseir
- CHU Lille, Critical Care Center, Lille, France
| | - G Reboux
- Chrono-Environnement UMR 6249 CNRS, Université de Bourgogne Franche-Comté & Laboratoire de Parasitologie-Mycologie, CHU de Besançon, Hôpital Jean-Minjoz, Besançon, France
| | - R Wintjens
- Research in Drug Development, Faculté de Pharmacie, Université Libre de Bruxelles, Bruxelles, Belgium
| | - O Le Rouzic
- CHU Lille, Department of Respiratory Diseases, Lille, France
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
| | - B Sendid
- CHU Lille, Laboratoire de Parasitologie-Mycologie, Lille, France
- Inserm U995, Université de Lille, Lille, France
| | - E Viscogliosi
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
| | - P Le Pape
- EA1155-IICiMed, Institut de Recherche en Santé 2, Université de Nantes, Nantes, France
| | - M C Arendrup
- Unit of Mycology, Statens Serum Institut, Copenhagen, Denmark
- Department of Clinical Microbiology, Rigshospitalet, Copenhagen, Denmark
- Department of Clinical Medicine, University of Copenhagen, Copenhagen, Denmark
| | - P Gosset
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
| | - S Fry
- CHU Lille, Department of Respiratory Diseases, Lille, France
| | - E Fréalle
- CHU Lille, Laboratoire de Parasitologie-Mycologie, Lille, France
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
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24
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Osman M, Benamrouz S, Guyot K, El Safadi D, Mallat H, Dabboussi F, Hamze M, Viscogliosi E, Certad G. Molecular epidemiology of Cryptosporidium spp. in North Lebanon. J Infect Dev Ctries 2018; 12:34S. [DOI: 10.3855/jidc.10014] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Accepted: 01/18/2018] [Indexed: 10/31/2022] Open
Abstract
Cryptosporidium spp. are enteroparasites with worldwide distribution that infect the gastrointestinal tract of several vertebrates including humans. Human to human, zoonotic, foodborne and waterborne are reported as the main transmission routes of this parasite. Cryptosporidium spp. have been recognized as the predominant cause of waterborne and foodborne outbreaks. However, the epidemiological situation of cryptosporidiosis is not well known in Lebanon, a developing country with a population often affected by intestinal parasitic infections.
This study was devoted to determine the prevalence and the genetic diversity of Cryptosporidium spp. in symptomatic hospitalized patients and in two children populations with different socio-economic level in North-Lebanon, as well as the risk factors associated with cryptosporidiosis.
Fecal samples obtained from these populations were examined microscopically by modified Ziehl-Neelsen staining as well as nested PCR were done for the detection of Cryptosporidium oocysts.
Out of 163 symptomatic hospitalized patients and 249 children, Cryptosporidium was present in 11% and 10.4% respectively according to microscopy examination and/or molecular tests. The genotyping showed the predominance of Cryptosporidium hominis in both populations. Subgenotype analysis of the isolates at the gp60 locus identified three subtypes IdA19, IbA10G2 and IaA18R3 for C. hominis and two subtypes IIaA15G1R1 and IIaA15G2R1 for C. parvum. Moreover, cryptosporidiosis was correlated with having meals outside home and presence of gastrointestinal symptoms especially diarrhea (p <0.05).
This work constitutes the first molecular epidemiology study outlining risk factors associated with cryptosporidiosis in Lebanon. These findings support a need of a control program to prevent the circulation of this parasite.
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Osman M, Benamrouz S, Guyot K, Baydoun M, Frealle E, Chabe M, Gantois N, Delaire B, Goffard A, Aoun A, Jurdi N, Dabboussi F, Even G, Slomianny C, Gosset P, Hamze M, Creusy C, Viscogliosi E, Certad G. High association of Cryptosporidium spp. infection with colon adenocarcinoma in Lebanese patients. PLoS One 2017; 12:e0189422. [PMID: 29261714 PMCID: PMC5736188 DOI: 10.1371/journal.pone.0189422] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2017] [Accepted: 11/24/2017] [Indexed: 11/29/2022] Open
Abstract
Background The association between Cryptosporidium and human colon cancer has been reported in different populations. However, this association has not been well studied. In order to add new strong arguments for a probable link between cryptosporidiosis and colon human cancer, the aim of this study was to determine prevalence and to identify species of Cryptosporidium among Lebanese patients. Methodology and principal findings Overall, 218 digestive biopsies were collected in Tripoli, Lebanon, from three groups of patients: (i) patients with recently diagnosed colon intraepithelial neoplasia/adenocarcinoma before any treatment (n = 72); (ii) patients with recently diagnosed stomach intraepithelial neoplasia/adenocarcinoma before any treatment (n = 21); and (iii) patients without digestive intraepithelial neoplasia/adenocarcinoma but with persistent digestive symptoms (n = 125). DNA extraction was performed from paraffin-embedded tissue. The presence of the parasite in tissues was confirmed by PCR, microscopic observation and immunofluorescence analysis. We identified a high rate (21%) of Cryptosporidium presence in biopsies from Lebanese patients with recently diagnosed colonic neoplasia/adenocarcinoma before any treatment. This prevalence was significantly higher compared to 7% of Cryptosporidium prevalence among patients without colon neoplasia but with persistent gastrointestinal symptoms (OR: 4, CI: 1.65–9.6, P = 0.001). When the comparison was done against normal biopsies, the risk of infection increased 11-fold in the group of patients with colon adenocarcinoma (OR: 11.315, CI: 1.44–89.02, P = 0.003). Conclusions This is the first study performed in Lebanon reporting the prevalence of Cryptosporidium among patients with digestive cancer. These results show that Cryptosporidium is strongly associated with human colon cancer being maybe a potential etiological agent of this disease.
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Affiliation(s)
- Marwan Osman
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Sadia Benamrouz
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Ecologie et Biodiversité, Faculté de Gestion, Economie et Sciences (FGES), Université Catholique de Lille, Lille, France
| | - Karine Guyot
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Martha Baydoun
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- BioMEMS, Université de Lille, CNRS, ISEN, UMR 8520 - IEMN, Lille, France
- BioGAP, groupe HEI-ISA-ISEN, Lille, France
| | - Emilie Frealle
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre Hospitalier Régional et Universitaire de Lille & Faculté de Médecine de Lille, Université Lille Nord de France, Laboratoire de Parasitologie-Mycologie, Centre de Biologie et Pathologie, Lille, France
| | - Magali Chabe
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Faculté des sciences pharmaceutiques et biologiques, Université Lille Nord de France, Département de Parasitologie–Mycologie, Lille, France
| | - Nausicaa Gantois
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Baptiste Delaire
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Université Catholique de Lille, Lille, France
| | - Anne Goffard
- Molecular and Cellular Virology, University Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Albert Aoun
- Pathology Department, Faculty of Medicine, American University of Beirut, Beirut, Lebanon
| | - Nawaf Jurdi
- Pathology Department, Faculty of Medicine, American University of Beirut, Beirut, Lebanon
| | - Fouad Dabboussi
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Gael Even
- Genes Difussion, Douai, France-PEGASE-Biosciences, Lille, France
| | - Christian Slomianny
- Laboratory of Cell Physiology, INSERM U 1003, Université de Lille, Villeneuve d’Ascq, France
| | - Pierre Gosset
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Université Catholique de Lille, Lille, France
| | - Monzer Hamze
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Colette Creusy
- Service d’Anatomie et de Cytologie Pathologiques, Groupement des Hôpitaux de l’Université Catholique de Lille, Lille, France
| | - Eric Viscogliosi
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Gabriela Certad
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, INSERM U1019, Université de Lille, CHU de Lille, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Département de la Recherche Médicale, Groupement des Hôpitaux de l’Institut Catholique de Lille, Faculté de Médecine et Maïeutique, Université Catholique de Lille, Lille, France
- * E-mail:
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Baydoun M, Vanneste SB, Creusy C, Guyot K, Gantois N, Chabe M, Delaire B, Mouray A, Baydoun A, Forzy G, Chieux V, Gosset P, Senez V, Viscogliosi E, Follet J, Certad G. Three-dimensional (3D) culture of adult murine colon as an in vitro model of cryptosporidiosis: Proof of concept. Sci Rep 2017; 7:17288. [PMID: 29230047 PMCID: PMC5725449 DOI: 10.1038/s41598-017-17304-2] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2017] [Accepted: 11/19/2017] [Indexed: 01/12/2023] Open
Abstract
Cryptosporidium parvum is a major cause of diarrheal illness and was recently potentially associated with digestive carcinogenesis. Despite its impact on human health, Cryptosporidium pathogenesis remains poorly known, mainly due to the lack of a long-term culture method for this parasite. Thus, the aim of the present study was to develop a three-dimensional (3D) culture model from adult murine colon allowing biological investigations of the host-parasite interactions in an in vivo-like environment and, in particular, the development of parasite-induced neoplasia. Colonic explants were cultured and preserved ex vivo for 35 days and co-culturing was performed with C. parvum. Strikingly, the resulting system allowed the reproduction of neoplastic lesions in vitro at 27 days post-infection (PI), providing new evidence of the role of the parasite in the induction of carcinogenesis. This promising model could facilitate the study of host-pathogen interactions and the investigation of the process involved in Cryptosporidium-induced cell transformation.
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Affiliation(s)
- Martha Baydoun
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,ISA-YNCREA Hauts-de-France, Lille, France.,Univ. Lille, CNRS, ISEN, UMR 8520 - IEMN, Lille, France
| | - Sadia Benamrouz Vanneste
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Laboratoire Ecologie et Biodiversité, Faculté de Gestion Economie et Sciences, Institut Catholique de Lille, Lille, France
| | - Colette Creusy
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hopitaux de l'Institut Catholique de Lille (GHICL), Lille, France
| | - Karine Guyot
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Nausicaa Gantois
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Magali Chabe
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Faculté de Pharmacie, Univ. de Lille, Lille, France
| | - Baptiste Delaire
- Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hopitaux de l'Institut Catholique de Lille (GHICL), Lille, France
| | - Anthony Mouray
- Plateforme d'Expérimentations et de Hautes Technologies Animales, Institut Pasteur de Lille, Lille, France
| | - Atallah Baydoun
- Department of Internal Medicine, Case Western Reserve University School of Medicine, Cleveland, OH, USA.,Department of Internal Medicine, Louis Stokes VA Medical Center, Cleveland, OH, USA.,Department of Biomedical Engineering, Case Western Reserve University, Cleveland, OH, USA
| | - Gerard Forzy
- Laboratoire de Biologie Médicale, Groupement des Hospitaux de l'Institut Catholique de Lille (GHICL), Lille, France
| | - Vincent Chieux
- Laboratoire de Biologie Médicale, Groupement des Hospitaux de l'Institut Catholique de Lille (GHICL), Lille, France
| | - Pierre Gosset
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France.,Service d'Anatomie et de Cytologie Pathologiques, Groupement des Hopitaux de l'Institut Catholique de Lille (GHICL), Lille, France
| | - Vincent Senez
- Univ. Lille, CNRS, ISEN, UMR 8520 - IEMN, Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France
| | - Jérôme Follet
- ISA-YNCREA Hauts-de-France, Lille, France.,Univ. Lille, CNRS, ISEN, UMR 8520 - IEMN, Lille, France
| | - Gabriela Certad
- Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, Lille, France. .,Département de la Recherche Médicale, Groupement des Hopitaux de l'Institut Catholique de Lille (GHICL), Faculté de Médecine et Maïeutique, Université Catholique de Lille, Lille, France.
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Armengaud J, Pible O, Gaillard JC, Cian A, Gantois N, Tan KSW, Chabé M, Viscogliosi E. Proteogenomic Insights into the Intestinal Parasite Blastocystis
sp. Subtype 4 Isolate WR1. Proteomics 2017; 17. [DOI: 10.1002/pmic.201700211] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Revised: 08/09/2017] [Indexed: 12/15/2022]
Affiliation(s)
- Jean Armengaud
- Laboratoire Innovations technologiques pour la Détection et le Diagnostic (Li2D); Service de Pharmacologie et Immunoanalyse (SPI); CEA, INRA; Gif-Sur-Yvette France
| | - Olivier Pible
- Laboratoire Innovations technologiques pour la Détection et le Diagnostic (Li2D); Service de Pharmacologie et Immunoanalyse (SPI); CEA, INRA; Gif-Sur-Yvette France
| | - Jean-Charles Gaillard
- Laboratoire Innovations technologiques pour la Détection et le Diagnostic (Li2D); Service de Pharmacologie et Immunoanalyse (SPI); CEA, INRA; Gif-Sur-Yvette France
| | - Amandine Cian
- Université de Lille; CNRS, Inserm, CHU Lille; Institut Pasteur de Lille; U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille; 1 rue du Professeur Calmette, Lille, France
| | - Nausicaa Gantois
- Université de Lille; CNRS, Inserm, CHU Lille; Institut Pasteur de Lille; U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille; 1 rue du Professeur Calmette, Lille, France
| | - Kevin S. W. Tan
- Laboratory of Molecular and Cellular Parasitology; Department of Microbiology and Immunology; Yong Loo Lin School of Medicine; National University of Singapore; Singapore Singapore
| | - Magali Chabé
- Université de Lille; CNRS, Inserm, CHU Lille; Institut Pasteur de Lille; U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille; 1 rue du Professeur Calmette, Lille, France
| | - Eric Viscogliosi
- Université de Lille; CNRS, Inserm, CHU Lille; Institut Pasteur de Lille; U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille; 1 rue du Professeur Calmette, Lille, France
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28
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Siegwald L, Audebert C, Even G, Viscogliosi E, Caboche S, Chabé M. Targeted metagenomic sequencing data of human gut microbiota associated with Blastocystis colonization. Sci Data 2017; 4:170081. [PMID: 28654083 PMCID: PMC5486356 DOI: 10.1038/sdata.2017.81] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2017] [Accepted: 05/19/2017] [Indexed: 01/27/2023] Open
Abstract
In the past decade, metagenomics studies have become widespread due to the arrival of second-generation sequencing platforms characterized by low costs, high throughput and short read lengths. Today, although benchtop sequencers are considered to be accurate platforms to deliver data for targeted metagenomics studies, the limiting factor has become the analysis of these data. In a previous paper, we performed an Ion Torrent PGM 16S rDNA gene sequencing of faecal DNAs from 48 Blastocystis-colonized patients and 48 Blastocystis-negative subjects, in order to decipher the impact of this widespread protist on gut microbiota composition and diversity. We report here on the Ion Torrent targeted metagenomic sequencing and analysis of these 96 human faecal samples, and the complete datasets from raw to analysed data. We also provide the key steps of the bioinformatic analyses, from library preparation to data filtering and OTUs tables generation. This data represents a valuable resource for the scientific community, enabling re-processing of these targeted metagenomic datasets through various pipelines and a comparative evaluation of microbiota analysis methods.
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Affiliation(s)
- Léa Siegwald
- GENES DIFFUSION, Douai 59501, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille 59019, France.,CRIStAL (UMR CNRS 9189 Université de Lille, Centre de Recherche en Informatique, Signal et Automatique de Lille) &Inria, Villeneuve d'Ascq 59655, France.,Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, Lille 59019, France
| | - Christophe Audebert
- GENES DIFFUSION, Douai 59501, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille 59019, France
| | - Gaël Even
- GENES DIFFUSION, Douai 59501, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille 59019, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, Lille 59019, France
| | - Ségolène Caboche
- PEGASE-Biosciences, Institut Pasteur de Lille, Lille 59019, France.,Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, Lille 59019, France
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019-UMR 8204-CIIL-Centre d'Infection et d'Immunité de Lille, Lille 59019, France
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Landman WJM, Molenaar RJ, Cian A, van der Heijden HMJF, Viscogliosi E. Granuloma disease in flocks of productive layers caused by Tetratrichomonas gallinarum. Avian Pathol 2017; 45:465-77. [PMID: 26950827 DOI: 10.1080/03079457.2016.1163325] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
In 2013, seven outbreaks of granuloma disease occurred in Dutch flocks of productive layers housed on different farms. These outbreaks were characterized by increased mortality and high incidence of granulomas, mainly in caeca (340/408 hens = 83%) and livers (69/408 hens = 17%). Mortality started to increase between 21 and 35 weeks of age and reached 3.7% to 11.0% exceeding the breeder's norm in periods ranging from 9 to 48 weeks. Some flocks also showed decreased egg production and/or loss of mean egg weight. All affected flocks were linked to one rearing farm, which therefore seemed to be the source of the disease. However, no signs of disease had been observed at this rearing farm. Sentinel hens placed in one of the affected flocks to determine whether the disease had an infectious nature developed granulomas identical to those seen in the outbreaks. Next, by fulfilling Koch's postulates it was shown that Tetratrichomonas gallinarum was the aetiological agent of the granuloma disease. The condition was reproduced in mature specified pathogen free White Leghorn hens (GD - Animal Health, Deventer, the Netherlands) by inoculation via both an artificial and a natural route with a well-defined axenic T. gallinarum isolate obtained from one of the affected flocks. Other causes of granuloma disease were excluded.
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Affiliation(s)
| | - R J Molenaar
- a GD - Animal Health , Deventer , the Netherlands
| | - A Cian
- b CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, University of Lille , Lille , France
| | | | - E Viscogliosi
- b CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, University of Lille , Lille , France
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30
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Certad G, Viscogliosi E, Chabé M, Cacciò SM. Pathogenic Mechanisms of Cryptosporidium and Giardia. Trends Parasitol 2017; 33:561-576. [PMID: 28336217 DOI: 10.1016/j.pt.2017.02.006] [Citation(s) in RCA: 110] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Revised: 02/21/2017] [Accepted: 02/23/2017] [Indexed: 02/07/2023]
Abstract
Intestinal protozoa are important etiological agents of diarrhea, particularly in children, yet the public health risk they pose is often neglected. Results from the Global Enteric Multicenter Study (GEMS) showed that Cryptosporidium is among the leading causes of moderate to severe diarrhea in children under 2 years. Likewise, Giardia infects approximately 200 million individuals worldwide, and causes acute diarrhea in children under 5 years. Despite this recognized role as pathogens, the question is why and how these parasites cause disease in some individuals but not in others. This review focuses on known pathogenic mechanisms of Cryptosporidium and Giardia, and infection progress towards disease.
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Affiliation(s)
- Gabriela Certad
- University of Lille, CNRS, Inserm, CHU Lille, Pasteur Institute of Lille, U1019-UMR 8204-CIIL, Center for Infection and Immunity of Lille, Lille, France; Medical Research Department, Hospital Group of the Catholic Institute of Lille, Faculty of Medicine and Maieutics, Catholic University of Lille, Lille, France.
| | - Eric Viscogliosi
- University of Lille, CNRS, Inserm, CHU Lille, Pasteur Institute of Lille, U1019-UMR 8204-CIIL, Center for Infection and Immunity of Lille, Lille, France
| | - Magali Chabé
- University of Lille, CNRS, Inserm, CHU Lille, Pasteur Institute of Lille, U1019-UMR 8204-CIIL, Center for Infection and Immunity of Lille, Lille, France
| | - Simone M Cacciò
- European Union Reference Laboratory for Parasites, Department of Infectious Diseases, Istituto Superiore di Sanità, Rome, Italy
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31
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Demanche C, Deville M, Michaux J, Barriel V, Pinçon C, Aliouat-Denis CM, Pottier M, Noël C, Viscogliosi E, Aliouat EM, Dei-Cas E, Morand S, Guillot J. Correction: What Do Pneumocystis Organisms Tell Us about the Phylogeography of Their Hosts? The Case of the Woodmouse Apodemus sylvaticus in Continental Europe and Western Mediterranean Islands. PLoS One 2017; 12:e0171282. [PMID: 28182721 PMCID: PMC5300120 DOI: 10.1371/journal.pone.0171282] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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32
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Cian A, El Safadi D, Osman M, Moriniere R, Gantois N, Benamrouz-Vanneste S, Delgado-Viscogliosi P, Guyot K, Li LL, Monchy S, Noël C, Poirier P, Nourrisson C, Wawrzyniak I, Delbac F, Bosc S, Chabé M, Petit T, Certad G, Viscogliosi E. Molecular Epidemiology of Blastocystis sp. in Various Animal Groups from Two French Zoos and Evaluation of Potential Zoonotic Risk. PLoS One 2017; 12:e0169659. [PMID: 28060901 PMCID: PMC5217969 DOI: 10.1371/journal.pone.0169659] [Citation(s) in RCA: 114] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Accepted: 12/20/2016] [Indexed: 01/28/2023] Open
Abstract
Blastocystis sp. is a common intestinal parasite infecting humans and a wide range of animals worldwide. It exhibits an extensive genetic diversity and 17 subtypes (STs) have thus far been identified in mammalian and avian hosts. Since several STs are common to humans and animals, it was proposed that a proportion of human infections may result from zoonotic transmission. However, the contribution of each animal source to human infection remains to be clarified. Therefore, the aim of this study was to expand our knowledge of the epidemiology and host specificity of this parasite by performing the largest epidemiological survey ever conducted in animal groups in terms of numbers of species screened. A total of 307 stool samples from 161 mammalian and non-mammalian species in two French zoos were screened by real-time PCR for the presence of Blastocystis sp. Overall, 32.2% of the animal samples and 37.9% of the species tested were shown to be infected with the parasite. A total of 111 animal Blastocystis sp. isolates were subtyped, and 11 of the 17 mammalian and avian STs as well as additional STs previously identified in reptiles and insects were found with a varying prevalence according to animal groups. These data were combined with those obtained from previous surveys to evaluate the potential risk of zoonotic transmission of Blastocystis sp. through the comparison of ST distribution between human and animal hosts. This suggests that non-human primates, artiodactyls and birds may serve as reservoirs for human infection, especially in animal handlers. In contrast, other mammals such as carnivores, and non-mammalian groups including reptiles and insects, do not seem to represent significant sources of Blastocystis sp. infection in humans. In further studies, more intensive sampling and screening of potential new animal hosts will reinforce these statements and expand our understanding of the circulation of Blastocystis sp. in animal and human populations.
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Affiliation(s)
- Amandine Cian
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Dima El Safadi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Marwan Osman
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
- Laboratoire Microbiologie Santé et Environnement (LMSE), Ecole Doctorale des Sciences et de Technologie, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | | | - Nausicaa Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Sadia Benamrouz-Vanneste
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
- Laboratoire Ecologie et Biodiversité, Faculté Libre des Sciences et Technologies de Lille, Université Catholique de Lille, Lille, France
| | - Pilar Delgado-Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Karine Guyot
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | - Luen-Luen Li
- Laboratoire d’Océanologie et de Géosciences, CNRS UMR 8187, Université du Littoral Côte d’Opale, Wimereux, France
| | - Sébastien Monchy
- Laboratoire d’Océanologie et de Géosciences, CNRS UMR 8187, Université du Littoral Côte d’Opale, Wimereux, France
| | - Christophe Noël
- Geneius Laboratories Ltd., INEX Business Centre, Newcastle-upon-Tyne, United Kingdom
| | - Philippe Poirier
- Clermont Université, Université Blaise Pascal-Université d'Auvergne—CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Céline Nourrisson
- Clermont Université, Université Blaise Pascal-Université d'Auvergne—CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Ivan Wawrzyniak
- Clermont Université, Université Blaise Pascal-Université d'Auvergne—CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Frédéric Delbac
- Clermont Université, Université Blaise Pascal-Université d'Auvergne—CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | | | - Magali Chabé
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
| | | | - Gabriela Certad
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
- Département de la Recherche Médicale, Groupement des Hôpitaux de l'Institut Catholique de Lille, Faculté de Médecine et Maïeutique, Université Catholique de Lille, France
| | - Eric Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 –UMR 8204 –CIIL–Centre d’Infection et d’Immunité de Lille, Lille, France
- * E-mail:
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Nguyen LDN, Deschaght P, Merlin S, Loywick A, Audebert C, Van Daele S, Viscogliosi E, Vaneechoutte M, Delhaes L. Effects of Propidium Monoazide (PMA) Treatment on Mycobiome and Bacteriome Analysis of Cystic Fibrosis Airways during Exacerbation. PLoS One 2016; 11:e0168860. [PMID: 28030619 PMCID: PMC5193350 DOI: 10.1371/journal.pone.0168860] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Accepted: 12/07/2016] [Indexed: 02/06/2023] Open
Abstract
Introduction and Purpose Propidium monoazide (PMA)-pretreatment has increasingly been applied to remove the bias from dead or damaged cell artefacts, which could impact the microbiota analysis by high-throughput sequencing. Our study aimed to determine whether a PMA-pretreatment coupled with high-throughput sequencing analysis provides a different picture of the airway mycobiome and bacteriome. Results and Discussion We compared deep-sequencing data of mycobiota and microbiota of 15 sputum samples from 5 cystic fibrosis (CF) patients with and without prior PMA-treatment of the DNA-extracts. PMA-pretreatment had no significant effect on the entire and abundant bacterial community (genera expressed as operational taxonomic units (OTUs) with a relative abundance greater than or equal to 1%), but caused a significant difference in the intermediate community (less than 1%) when analyzing the alpha biodiversity Simpson index (p = 0.03). Regarding PMA impact on the airway mycobiota evaluated for the first time here; no significant differences in alpha diversity indexes between PMA-treated and untreated samples were observed. Regarding beta diversity analysis, the intermediate communities also differed more dramatically than the total and abundant ones when studying both mycobiome and bacteriome. Our results showed that only the intermediate (or low abundance) population diversity is impacted by PMA-treatment, and therefore that abundant taxa are mostly viable during acute exacerbation in CF. Given such a cumbersome protocol (PMA-pretreatment coupled with high-throughput sequencing), we discuss its potential interest within the follow-up of CF patients. Further studies using PMA-pretreatment are warranted to improve our “omic” knowledge of the CF airways.
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Affiliation(s)
- Linh Do Ngoc Nguyen
- Institut Pasteur de Lille, Center for Infection and Immunity of Lille (CIIL), INSERM U1019, CNRS UMR 8204, University of Lille, Lille, France
| | - Pieter Deschaght
- Laboratory for Bacteriology Research, Faculty of Medicine & Health Sciences, Ghent University, Ghent, Belgium
| | - Sophie Merlin
- GenesDiffusion, Douai, France
- PEGASE, Biosciences, Institut Pasteur de Lille, Lille, France
| | - Alexandre Loywick
- GenesDiffusion, Douai, France
- PEGASE, Biosciences, Institut Pasteur de Lille, Lille, France
| | - Christophe Audebert
- GenesDiffusion, Douai, France
- PEGASE, Biosciences, Institut Pasteur de Lille, Lille, France
| | - Sabine Van Daele
- Department of Pediatrics and Genetics, Faculty of Medicine & Health Sciences, Ghent University, Ghent, Belgium
| | - Eric Viscogliosi
- Institut Pasteur de Lille, Center for Infection and Immunity of Lille (CIIL), INSERM U1019, CNRS UMR 8204, University of Lille, Lille, France
| | - Mario Vaneechoutte
- Laboratory for Bacteriology Research, Faculty of Medicine & Health Sciences, Ghent University, Ghent, Belgium
| | - Laurence Delhaes
- Institut Pasteur de Lille, Center for Infection and Immunity of Lille (CIIL), INSERM U1019, CNRS UMR 8204, University of Lille, Lille, France
- Parasitology-Medical Mycology Department, Regional Hospital Center, Faculty of Medicine, Lille, France
- * E-mail:
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Ben Abda I, Maatoug N, Ben Romdhane R, Bouhelmi N, Zallegua N, Aoun K, Viscogliosi E, Bouratbine A. Prevalence and Subtype Identification of Blastocystis sp. in Healthy Individuals in the Tunis Area, Tunisia. Am J Trop Med Hyg 2016; 96:202-204. [PMID: 27920396 DOI: 10.4269/ajtmh.16-0506] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2016] [Accepted: 09/07/2016] [Indexed: 11/07/2022] Open
Abstract
Blastocystis sp. is currently the most common eukaryotic parasite found in humans. Despite its potential public health impact, epidemiological data regarding its prevalence and molecular subtype (ST) distribution in Maghreb are rarely reported. Therefore, the aim of this study was to determine the prevalence of the parasite in a cohort of healthy food handler Tunisian individuals and to acquire the first molecular data regarding the distribution of Blastocystis sp. STs in this country. Therefore, 524 fecal samples were collected, and 68 of them (13%) were identified as positive for the parasite by direct-light microscopy of smears. Seventeen samples of 100 negative by microscopy were also shown to be positive by real-time quantitative polymerase chain reaction. Among all the positive samples, 61 Blastocystis isolates were subtyped using partial small subunit ribosomal RNA gene analysis. ST3 was the most abundant (51%) followed by ST1 (30%), ST2 (16%), and ST4 and ST7 (both 1.6%).
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Affiliation(s)
- Imène Ben Abda
- Research Laboratory of Medical Parasitology, Biotechnology and Biomolecules (PMBB), Institut Pasteur of Tunis, Tunis, Tunisia.,Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
| | - Nabil Maatoug
- Research Laboratory of Medical Parasitology, Biotechnology and Biomolecules (PMBB), Institut Pasteur of Tunis, Tunis, Tunisia.,Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
| | - Rania Ben Romdhane
- Research Laboratory of Medical Parasitology, Biotechnology and Biomolecules (PMBB), Institut Pasteur of Tunis, Tunis, Tunisia
| | - Nada Bouhelmi
- Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
| | - Najet Zallegua
- Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
| | - Karim Aoun
- Research Laboratory of Medical Parasitology, Biotechnology and Biomolecules (PMBB), Institut Pasteur of Tunis, Tunis, Tunisia.,Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
| | - Eric Viscogliosi
- Centre d'Infection et d'Immunité de Lille, Institut Pasteur de Lille, Université de Lille, Lille, France
| | - Aïda Bouratbine
- Research Laboratory of Medical Parasitology, Biotechnology and Biomolecules (PMBB), Institut Pasteur of Tunis, Tunis, Tunisia. .,Department of Parasitology, Institut Pasteur of Tunis, Tunis, Tunisia
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El Safadi D, Cian A, Nourrisson C, Pereira B, Morelle C, Bastien P, Bellanger AP, Botterel F, Candolfi E, Desoubeaux G, Lachaud L, Morio F, Pomares C, Rabodonirina M, Wawrzyniak I, Delbac F, Gantois N, Certad G, Delhaes L, Poirier P, Viscogliosi E. Prevalence, risk factors for infection and subtype distribution of the intestinal parasite Blastocystis sp. from a large-scale multi-center study in France. BMC Infect Dis 2016; 16:451. [PMID: 27566417 PMCID: PMC5002209 DOI: 10.1186/s12879-016-1776-8] [Citation(s) in RCA: 70] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2016] [Accepted: 08/11/2016] [Indexed: 12/21/2022] Open
Abstract
Background Blastocystis sp. is the most common intestinal parasite of humans. Despite its potential public health impact, epidemiological data regarding the prevalence and molecular subtype distribution of Blastocystis sp. in Europe are rarely reported. Therefore, the first multi-center epidemiological survey performed in Europe was conducted in France to diagnose and subtype Blastocystis sp. and to identify risk factors for infection. Methods Stool samples from 788 patients were collected either in summer or winter in 11 hospitals throughout France together with patient data. All stool samples were tested for the presence of Blastocystis sp. by quantitative PCR targeting the SSU rDNA gene. Positive samples were sequenced to determine the distribution of the subtypes in our cohort. Statistical analyses were performed to identify potential risk factors for infection. Results Using quantitative PCR, the overall prevalence of Blastocystis sp. was shown to reach 18.1 %. The prevalence was significantly higher in summer (23.2 %) than in winter (13.7 %). Travellers or subjects infected with other enteric parasites were significantly more infected by Blastocystis sp. than non-travellers or subjects free of other enteric parasites, respectively. Different age-related epidemiological patterns were also highlighted from our data. The prevalence of Blastocystis sp. was not significantly higher in patients with digestive symptoms or diagnosed with chronic bowel diseases. Among symptomatic patients, Blastocystis sp. infection was significantly associated with abdominal pain. Gender, socioeconomic status, and immune status were not identified as potential risk factors associated with infection. Among a total of 141 subtyped isolates, subtype 3 was predominant (43.3 %), followed by subtype 1 and subtype 4 (20 %), subtype 2 (12.8 %), subtype 6 and subtype 7 (2.1 %). No association between ST and clinical symptoms was statistically evidenced. Conclusions A high prevalence of Blastocystis sp. infection was found in our French patient population. Seasonal impact on the prevalence of Blastocystis sp. was highlighted and recent travels and age were identified as main risk factors for infection. Most cases were caused by subtypes 1 to 4, with a predominance of subtype 3. Large variations in both prevalence and ST distribution between hospitals were also observed, suggesting distinct reservoirs and transmission sources of the parasite. Electronic supplementary material The online version of this article (doi:10.1186/s12879-016-1776-8) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Dima El Safadi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France
| | - Amandine Cian
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France
| | - Céline Nourrisson
- Laboratoire de Parasitologie-Mycologie, CHU Gabriel-Montpied, Clermont-Ferrand, France.,Clermont Université, Université Blaise Pascal-Université d'Auvergne - CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Bruno Pereira
- CHU Clermont-Ferrand, Unité de Biostatistiques, Direction de la Recherche Clinique (DRCI), Clermont-Ferrand, France
| | - Christelle Morelle
- Laboratoire de Parasitologie-Mycologie, CHU de Montpellier, CNRS UMR 5290/IRD 224/UM1, Université de Montpellier 1, Montpellier, France
| | - Patrick Bastien
- Laboratoire de Parasitologie-Mycologie, CHU de Montpellier, CNRS UMR 5290/IRD 224/UM1, Université de Montpellier 1, Montpellier, France
| | | | - Françoise Botterel
- Laboratoire de Parasitologie-Mycologie, AP-HP Hôpital Henri Mondor, Créteil, France
| | - Ermanno Candolfi
- Institut de Parasitologie et de Pathologie Tropicale de Strasbourg, Université de Strasbourg, Hôpitaux Universitaires de Strasbourg, Strasbourg, France
| | - Guillaume Desoubeaux
- Service de Parasitologie-Mycologie-Médecine Tropicale, CHU de Tours/CEPR Inserm U1100 Equipe 3, Université François-Rabelais de Tours, Tours, France
| | - Laurence Lachaud
- Département de Parasitologie-Mycologie, Faculté de Médecine de Montpellier-Nîmes, Université de Montpellier I, CHU de Montpellier, Montpellier, France
| | - Florent Morio
- Département de Parasitologie et Mycologie Médicale, Laboratoire de Parasitologie-Mycologie, Institut de Biologie, CHU de Nantes, EA1155-IICiMed, Université de Nantes, Nantes, France
| | - Christelle Pomares
- Laboratoire de Parasitologie-Mycologie CHU de Nice, C3M INSERM U1065, Université de Nice Sophia Antipolis, Nice, France
| | | | - Ivan Wawrzyniak
- Clermont Université, Université Blaise Pascal-Université d'Auvergne - CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Frédéric Delbac
- Clermont Université, Université Blaise Pascal-Université d'Auvergne - CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Nausicaa Gantois
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France
| | - Gabriela Certad
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France
| | - Laurence Delhaes
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France.,Département de Parasitologie-Mycologie, CHU de Lille, Faculté de Médecine, Lille, France
| | - Philippe Poirier
- Laboratoire de Parasitologie-Mycologie, CHU Gabriel-Montpied, Clermont-Ferrand, France. .,Clermont Université, Université Blaise Pascal-Université d'Auvergne - CNRS UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France.
| | - Eric Viscogliosi
- Université de Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019, Lille cedex, France.
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Audebert C, Even G, Cian A, Loywick A, Merlin S, Viscogliosi E, Chabé M. Colonization with the enteric protozoa Blastocystis is associated with increased diversity of human gut bacterial microbiota. Sci Rep 2016; 6:25255. [PMID: 27147260 PMCID: PMC4857090 DOI: 10.1038/srep25255] [Citation(s) in RCA: 174] [Impact Index Per Article: 21.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Accepted: 04/13/2016] [Indexed: 12/16/2022] Open
Abstract
Alterations in the composition of commensal bacterial populations, a phenomenon known as dysbiosis, are linked to multiple gastrointestinal disorders, such as inflammatory bowel disease and irritable bowel syndrome, or to infections by diverse enteric pathogens. Blastocystis is one of the most common single-celled eukaryotes detected in human faecal samples. However, the clinical significance of this widespread colonization remains unclear, and its pathogenic potential is controversial. To address the issue of Blastocystis pathogenicity, we investigated the impact of colonization by this protist on the composition of the human gut microbiota. For that purpose, we conducted a cross-sectional study including 48 Blastocystis-colonized patients and 48 Blastocystis-free subjects and performed an Ion Torrent 16S rDNA gene sequencing to decipher the Blastocystis-associated gut microbiota. Here, we report a higher bacterial diversity in faecal microbiota of Blastocystis colonized patients, a higher abundance of Clostridia as well as a lower abundance of Enterobacteriaceae. Our results contribute to suggesting that Blastocystis colonization is usually associated with a healthy gut microbiota, rather than with gut dysbiosis generally observed in metabolic or infectious inflammatory diseases of the lower gastrointestinal tract.
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Affiliation(s)
- Christophe Audebert
- GENES DIFFUSION, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Gaël Even
- GENES DIFFUSION, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Amandine Cian
- Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
| | | | - Alexandre Loywick
- GENES DIFFUSION, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Sophie Merlin
- GENES DIFFUSION, Douai, France.,PEGASE-Biosciences, Institut Pasteur de Lille, Lille, France
| | - Eric Viscogliosi
- Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
| | - Magali Chabé
- Univ. Lille, CNRS, Inserm, CHU de Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, Lille, France
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Nobre LS, Meloni D, Teixeira M, Viscogliosi E, Saraiva LM. Trichomonas vaginalis Repair of Iron Centres Proteins: The Different Role of Two Paralogs. Protist 2016; 167:222-33. [PMID: 27124376 DOI: 10.1016/j.protis.2016.03.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Revised: 01/28/2016] [Accepted: 03/15/2016] [Indexed: 01/04/2023]
Abstract
Trichomonas vaginalis, the causative parasite of one of the most prevalent sexually transmitted diseases is, so far, the only protozoan encoding two putative Repair of Iron Centres (RIC) proteins. Homologs of these proteins have been shown to protect bacteria from the chemical stress imposed by mammalian immunity. In this work, the biochemical and functional characterisation of the T. vaginalis RICs revealed that the two proteins have different properties. Expression of ric1 is induced by nitrosative stress but not by hydrogen peroxide, while ric2 transcription remained unaltered under similar conditions. T. vaginalis RIC1 contains a di-iron centre, but RIC2 apparently does not. Only RIC1 resembles bacterial RICs on spectroscopic profiling and repairing ability of oxidatively-damaged iron-sulfur clusters. Unexpectedly, RIC2 was found to bind DNA plasmid and T. vaginalis genomic DNA, a function proposed to be related with its leucine zipper domain. The two proteins also differ in their cellular localization: RIC1 is expressed in the cytoplasm only, and RIC2 occurs both in the nucleus and cytoplasm. Therefore, we concluded that the two RIC paralogs have different roles in T. vaginalis, with RIC2 showing an unprecedented DNA binding ability when compared with all other until now studied RICs.
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Affiliation(s)
- Lígia S Nobre
- Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Av. da República (EAN), 2780-157 Oeiras, Portugal
| | - Dionigia Meloni
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Miguel Teixeira
- Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Av. da República (EAN), 2780-157 Oeiras, Portugal
| | - Eric Viscogliosi
- University Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Centre d'Infection et d'Immunité de Lille, 1 rue du Professeur Calmette, BP 245, 59019 Lille Cedex, France
| | - Lígia M Saraiva
- Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Av. da República (EAN), 2780-157 Oeiras, Portugal.
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Osman M, El Safadi D, Cian A, Benamrouz S, Nourrisson C, Poirier P, Pereira B, Razakandrainibe R, Pinon A, Lambert C, Wawrzyniak I, Dabboussi F, Delbac F, Favennec L, Hamze M, Viscogliosi E, Certad G. Correction: Prevalence and Risk Factors for Intestinal Protozoan Infections with Cryptosporidium, Giardia, Blastocystis and Dientamoeba among Schoolchildren in Tripoli, Lebanon. PLoS Negl Trop Dis 2016; 10:e0004643. [PMID: 27081847 PMCID: PMC4833479 DOI: 10.1371/journal.pntd.0004643] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Osman M, El Safadi D, Cian A, Benamrouz S, Nourrisson C, Poirier P, Pereira B, Razakandrainibe R, Pinon A, Lambert C, Wawrzyniak I, Dabboussi F, Delbac F, Favennec L, Hamze M, Viscogliosi E, Certad G. Prevalence and Risk Factors for Intestinal Protozoan Infections with Cryptosporidium, Giardia, Blastocystis and Dientamoeba among Schoolchildren in Tripoli, Lebanon. PLoS Negl Trop Dis 2016; 10:e0004496. [PMID: 26974335 PMCID: PMC4790957 DOI: 10.1371/journal.pntd.0004496] [Citation(s) in RCA: 88] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2015] [Accepted: 02/08/2016] [Indexed: 01/03/2023] Open
Abstract
BACKGROUND Intestinal protozoan infections are confirmed as major causes of diarrhea, particularly in children, and represent a significant, but often neglected, threat to public health. No recent data were available in Lebanon concerning the molecular epidemiology of protozoan infections in children, a vulnerable population at high risk of infection. METHODOLOGY AND PRINCIPAL FINDINGS In order to improve our understanding of the epidemiology of intestinal pathogenic protozoa, a cross-sectional study was conducted in a general pediatric population including both symptomatic and asymptomatic subjects. After obtaining informed consent from the parents or legal guardians, stool samples were collected in January 2013 from 249 children in 2 schools in Tripoli, Lebanon. Information obtained from a standard questionnaire included demographic characteristics, current symptoms, socioeconomic status, source of drinking water, and personal hygiene habits. After fecal examination by both microscopy and molecular tools, the overall prevalence of parasitic infections was recorded as 85%. Blastocystis spp. presented the highest infection rate (63%), followed by Dientamoeba fragilis (60.6%), Giardia duodenalis (28.5%) and Cryptosporidium spp. (10.4%). PCR was also performed to identify species and genotypes of Cryptosporidium, subtypes of Blastocystis, and assemblages of Giardia. Statistical analysis using a logistic regression model showed that contact with family members presenting gastrointestinal disorders was the primary risk factor for transmission of these protozoa. CONCLUSIONS This is the first study performed in Lebanon reporting the prevalence and the clinical and molecular epidemiological data associated with intestinal protozoan infections among schoolchildren in Tripoli. A high prevalence of protozoan parasites was found, with Blastocystis spp. being the most predominant protozoans. Although only 50% of children reported digestive symptoms, asymptomatic infection was observed, and these children may act as unidentified carriers. This survey provides necessary information for designing prevention and control strategies to reduce the burden of these protozoan infections, especially in children.
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Affiliation(s)
- Marwan Osman
- Institut Pasteur de Lille, Centre d’Infection et d’Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre AZM pour la recherche en biotechnologies et ses applications, Universitè Libanaise, Laboratoire de Microbiologie Santè et Environnement (LMSE), Tripoli, Lebanon
- Faculté de Santé Publique, Université Libanaise, Beirut, Lebanon
| | - Dima El Safadi
- Institute Pasteur de Lille, Centre d'Infection et d'Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre AZM pour la recherche en biotechnologies et ses applications, Universitè Libanaise, Laboratoire de Microbiologie Santè et Environnement (LMSE), Tripoli, Lebanon
- Faculté de Santé Publique, Université Libanaise, Beirut, Lebanon
| | - Amandine Cian
- Institute Pasteur de Lille, Centre d'Infection et d'Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Sadia Benamrouz
- Institute Pasteur de Lille, Centre d'Infection et d'Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Facultè Libre des Sciences et Technologies de Lille, Universitè Catholique de Lille, Universitè de Lille, Laboratoire Ecologie et Biodiversitè, Lille, France
| | - Céline Nourrisson
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
- Laboratoire de Parasitologie-Mycologie, Centre Hospitalier Universitaire Gabriel-Montpied, Clermont-Ferrand, France
| | - Philippe Poirier
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
- Laboratoire de Parasitologie-Mycologie, Centre Hospitalier Universitaire Gabriel-Montpied, Clermont-Ferrand, France
| | - Bruno Pereira
- CHU Clermont-Ferrand, Unité de Biostatistiques, Direction de la Recherche Clinique, Clermont-Ferrand, France
| | - Romy Razakandrainibe
- EA 3800, Université de Rouen & Centre Hospitalier Universitaire Charles Nicolle, Rouen, France
| | - Anthony Pinon
- Institute Pasteur de Lille, Unité de Sécurité Microbiologique, Lille, France
| | - Céline Lambert
- CHU Clermont-Ferrand, Unité de Biostatistiques, Direction de la Recherche Clinique, Clermont-Ferrand, France
| | - Ivan Wawrzyniak
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Fouad Dabboussi
- Centre AZM pour la recherche en biotechnologies et ses applications, Universitè Libanaise, Laboratoire de Microbiologie Santè et Environnement (LMSE), Tripoli, Lebanon
- Faculté de Santé Publique, Université Libanaise, Beirut, Lebanon
| | - Frederic Delbac
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Loïc Favennec
- EA 3800, Université de Rouen & Centre Hospitalier Universitaire Charles Nicolle, Rouen, France
| | - Monzer Hamze
- Centre AZM pour la recherche en biotechnologies et ses applications, Universitè Libanaise, Laboratoire de Microbiologie Santè et Environnement (LMSE), Tripoli, Lebanon
- Faculté de Santé Publique, Université Libanaise, Beirut, Lebanon
| | - Eric Viscogliosi
- Institute Pasteur de Lille, Centre d'Infection et d'Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Gabriela Certad
- Institute Pasteur de Lille, Centre d'Infection et d'Immunitè de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université de Lille, Biologie et Diversitè des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Département de la Recherche Médicale, Groupement des Hôpitaux de l'Institut Catholique de Lille, Faculté de Médecine et Maïeutique, Université Catholique de Lille, France
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Le Govic Y, Guyot K, Certad G, Deschildre A, Novo R, Mary C, Sendid B, Viscogliosi E, Favennec L, Dei-Cas E, Fréalle E, Dutoit E. Assessment of microscopic and molecular tools for the diagnosis and follow-up of cryptosporidiosis in patients at risk. Eur J Clin Microbiol Infect Dis 2015; 35:137-48. [PMID: 26610340 DOI: 10.1007/s10096-015-2519-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2015] [Accepted: 10/30/2015] [Indexed: 11/29/2022]
Abstract
Cryptosporidiosis is an important though underreported public health concern. Molecular tools might be helpful in improving its diagnosis. In this study, ZR Fecal DNA MiniPrep™ Kit (ZR) and NucliSens® easyMAG® (EM) were compared using four Cryptosporidium-seeded feces and 29 Cryptosporidium-positive stools. Thereafter, ZR was selected for prospective evaluation of Cryptosporidium detection by 18S rDNA and LAXER quantitative PCR (qPCR) in 69 stools from 56 patients after Cryptosporidium detection by glycerin, modified Ziehl-Neelsen (ZN) and auramine-phenol (AP) stainings. The combination of any of the two extraction methods with 18S qPCR yielded adequate detection of Cryptosporidium in seeded stools, but the ZR kit showed the best performance. All 29 Cryptosporidium-positive samples were positive with 18S qPCR, after both ZR and EM extraction. However, false-negative results were found with LAXER qPCR or nested PCR. Cryptosporidiosis was diagnosed in 7/56 patients. All the microscopic methods enabled the initial diagnosis, but Cryptosporidium was detected in 12, 13, and 14 samples from these seven patients after glycerin, ZN, and AP staining respectively. Among these samples, 14 and 12 were positive with 18S and LAXER qPCR respectively. In two patients, Cryptosporidium DNA loads were found to be correlated with clinical evolution. Although little known, glycerin is a sensitive method for the initial detection of Cryptosporidium. When combined with 18S qPCR, ZR extraction, which had not been evaluated so far for Cryptosporidium, was an accurate tool for detecting Cryptosporidium and estimating the oocyst shedding in the course of infection.
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Affiliation(s)
- Y Le Govic
- Laboratoire de Parasitologie-Mycologie, CHRU de Lille & Faculté de Médecine de Lille, Université de Lille, Villeneuve-d'Ascq, France.,Laboratoire de Parasitologie-Mycologie, Centre Hospitalier Universitaire d'Angers, France; Groupe d'Etude des Interactions Hôte-Pathogène, UPRES-EA 3142, UNAM Université, Université d'Angers, Angers, France
| | - K Guyot
- Univ. Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, F-59000, Lille, France
| | - G Certad
- Univ. Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, F-59000, Lille, France
| | - A Deschildre
- Unité de pneumologie-allergologie pédiatrique, pôle enfant, clinique de pédiatrie Jeanne de Flandre, CHRU de Lille, Université de Lille, Lille, France
| | - R Novo
- Unité de Néphrologie Pédiatrique, CHRU de Lille, Lille, France
| | - C Mary
- Aix-Marseille Université, Faculté de Médecine, UMR MD3, et APHM, Laboratoire de Parasitologie-Mycologie, Hôpital de la Timone, Marseille, France
| | - B Sendid
- Laboratoire de Parasitologie-Mycologie, CHRU de Lille & Faculté de Médecine de Lille, Université de Lille, Villeneuve-d'Ascq, France.,Inserm U995, Université de Lille, Lille, France
| | - E Viscogliosi
- Univ. Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, F-59000, Lille, France
| | - L Favennec
- Laboratoire de Parasitologie, EA 3800-IRIB, CHRU de Rouen, Rouen, France
| | - E Dei-Cas
- Laboratoire de Parasitologie-Mycologie, CHRU de Lille & Faculté de Médecine de Lille, Université de Lille, Villeneuve-d'Ascq, France.,Univ. Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, F-59000, Lille, France
| | - E Fréalle
- Laboratoire de Parasitologie-Mycologie, CHRU de Lille & Faculté de Médecine de Lille, Université de Lille, Villeneuve-d'Ascq, France. .,Univ. Lille, CNRS, INSERM, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL - Center for Infection and Immunity of Lille, F-59000, Lille, France.
| | - E Dutoit
- Laboratoire de Parasitologie-Mycologie, CHRU de Lille & Faculté de Médecine de Lille, Université de Lille, Villeneuve-d'Ascq, France
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Fréalle E, El Safadi D, Cian A, Aubry E, Certad G, Osman M, Wacrenier A, Dutoit E, Creusy C, Dubos F, Viscogliosi E. Acute blastocystis-associated appendicular peritonitis in a child, Casablanca, Morocco. Emerg Infect Dis 2015; 21:91-4. [PMID: 25528951 PMCID: PMC4285265 DOI: 10.3201/eid2101.140544] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
Despite increasing reports that Blastocystis infection is associated with digestive symptoms, its pathogenicity remains controversial. We report appendicular peritonitis in a 9-year-old girl returning to France from Morocco. Only Blastocystis parasites were detected in stools, appendix, peritoneal liquid, and recto-uterine pouch. Simultaneous gastroenteritis in 26 members of the child's family suggested an outbreak.
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Ngoc Linh Nguyen D, Deschaght P, Merlin S, Loywick A, Audebert C, Viscogliosi E, Vaneechoutte M, Delhaes L. Intérêt d’un prétraitement par PMA dans l’analyse du microbiote pro- et eucaryotique pulmonaire. J Mycol Med 2015. [DOI: 10.1016/j.mycmed.2015.06.045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Certad G, Dupouy-Camet J, Gantois N, Hammouma-Ghelboun O, Pottier M, Guyot K, Benamrouz S, Osman M, Delaire B, Creusy C, Viscogliosi E, Dei-Cas E, Aliouat-Denis CM, Follet J. Identification of Cryptosporidium Species in Fish from Lake Geneva (Lac Léman) in France. PLoS One 2015. [PMID: 26213992 PMCID: PMC4516323 DOI: 10.1371/journal.pone.0133047] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Cryptosporidium, a protozoan parasite that can cause severe diarrhea in a wide range of vertebrates including humans, is increasingly recognized as a parasite of a diverse range of wildlife species. However, little data are available regarding the identification of Cryptosporidium species and genotypes in wild aquatic environments, and more particularly in edible freshwater fish. To evaluate the prevalence of Cryptosporidiumspp. in fish from Lake Geneva (Lac Léman) in France, 41 entire fish and 100 fillets (cuts of fish flesh) were collected from fishery suppliers around the lake. Nested PCR using degenerate primers followed by sequence analysis was used. Five fish species were identified as potential hosts of Cryptosporidium: Salvelinus alpinus, Esox lucius, Coregonus lavaretus, Perca fluviatilis, and Rutilus rutilus. The presence of Cryptosporidium spp. was found in 15 out of 41 fish (37%), distributed as follows: 13 (87%) C. parvum, 1 (7%) C. molnari, and 1 (7%) mixed infection (C. parvum and C. molnari). C. molnari was identified in the stomach, while C. parvum was found in the stomach and intestine. C. molnari was also detected in 1 out of 100 analyzed fillets. In order to identify Cryptosporidium subtypes, sequencing of the highly polymorphic 60-kDa glycoprotein (gp60) was performed. Among the C. parvum positive samples, three gp60 subtypes were identified: IIaA15G2R1, IIaA16G2R1, and IIaA17G2R1. Histological examination confirmed the presence of potential developmental stages of C. parvum within digestive epithelial cells. These observations suggest that C. parvum is infecting fish, rather than being passively carried. Since C. parvum is a zoonotic species, fish potentially contaminated by the same subtypes found in terrestrial mammals would be an additional source of infection for humans and animals, and may also contribute to the contamination of the environment with this parasite. Moreover, the risk of human transmission is strengthened by the observation of edible fillet contamination.
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Affiliation(s)
- Gabriela Certad
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France
| | - Jean Dupouy-Camet
- Université Paris Descartes, Assistance Publique Hôpitaux de Paris, Parasitologie-Mycologie, Hôpital Cochin, Paris, France
| | - Nausicaa Gantois
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France
| | - Ourida Hammouma-Ghelboun
- Laboratoire de Biotechnologie et Gestion des Agents Pathogènes en Agriculture, Institut Supérieur d'Agriculture de Lille, Lille, France
| | - Muriel Pottier
- Faculté de Pharmacie, Université de Lille, Lille, France
| | - Karine Guyot
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France
| | - Sadia Benamrouz
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France; Ecologie et Biodiversité, Faculté Libre des Sciences et Technologies de Lille, Université Catholique de Lille, Lille, France
| | - Marwan Osman
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France; Laboratoire Microbiologie, Santé et Environnement, Centre AZM pour la Recherche en Biotechnologie et ses Applications, Université Libanaise, Tripoli, Lebanon
| | - Baptiste Delaire
- Service d'Anatomie et de Cytologie Pathologiques, Groupe Hospitalier de l'Université Catholique de Lille, Lille, France
| | - Colette Creusy
- Service d'Anatomie et de Cytologie Pathologiques, Groupe Hospitalier de l'Université Catholique de Lille, Lille, France
| | - Eric Viscogliosi
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France
| | - Eduardo Dei-Cas
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France; Centre Hospitalier Régional et Universitaire de Lille, Université Lille Nord de France, Lille, France
| | - Cecile Marie Aliouat-Denis
- Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDEEP), Centre d'Infection et d'Immunité de Lille (CIIL), Institut Pasteur de Lille, INSERM U1019, CNRS UMR 8402, Université de Lille, Lille, France; Faculté de Pharmacie, Université de Lille, Lille, France
| | - Jérôme Follet
- Laboratoire de Biotechnologie et Gestion des Agents Pathogènes en Agriculture, Institut Supérieur d'Agriculture de Lille, Lille, France; Laboratoire BioMEMS, Univ.Lille, CNRS, ISEN, Univ.Valenciennes, UMR 8520, IEMN, Institut d'Electronique de Microélectronique et de Nanotechnologie, F 59 000, Lille, France
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Nguyen L, Deschaght P, Merlin S, Loywick A, Audebert C, Viscogliosi E, Vaneechoutte M, Delhaes L. 49 Propidium monoazide (PMA) sample pretreatment impacts the abundance of rare populations in high-throughput sequencing analysis of CF lung mycobiome and bacteriome. J Cyst Fibros 2015. [DOI: 10.1016/s1569-1993(15)30226-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Osman M, El Safadi D, Benamrouz S, Guyot K, Dei-Cas E, Aliouat EM, Creusy C, Mallat H, Hamze M, Dabboussi F, Viscogliosi E, Certad G. Initial data on the molecular epidemiology of cryptosporidiosis in Lebanon. PLoS One 2015; 10:e0125129. [PMID: 25950832 PMCID: PMC4423932 DOI: 10.1371/journal.pone.0125129] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Accepted: 03/11/2015] [Indexed: 12/01/2022] Open
Abstract
Cryptosporidium spp. represent a major public health problem worldwide and infect the gastrointestinal tract of both immunocompetent and immunocompromised persons. The prevalence of these parasites varies by geographic region, and no data are currently available in Lebanon. To promote an understanding of the epidemiology of cryptosporidiosisin this country, the main aim of this study was to determine the prevalence Cryptosporidium in symptomatic hospitalized patients, and to analyze the genetic diversity of the corresponding isolates. Fecal specimens were collected in four hospitals in North Lebanon from 163 patients (77 males and 86 females, ranging in age from 1 to 88 years, with a mean age of 22 years) presenting gastrointestinal disorders during the period July to December 2013. The overall prevalence of Cryptosporidium spp. infection obtained by modified Ziehl-Neelsen staining and/or nested PCR was 11%, and children <5 years old showed a higher rate of Cryptosporidium spp. The PCR products of the 15 positive samples were successfully sequenced. Among them, 10 isolates (66.7%) were identified as C. hominis, while the remaining 5 (33.3%) were identified as C. parvum. After analysis of the gp60 locus, C. hominis IdA19, a rare subtype, was found to be predominant. Two C. parvum subtypes were found: IIaA15G1R1 and IIaA15G2R1. The molecular characterization of Cryptosporidium isolates is an important step in improving our understanding of the epidemiology and transmission of the infection.
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Affiliation(s)
- Marwan Osman
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre AZM pour la recherche en biotechnologies et ses applications, Université Libanaise, Laboratoire de Microbiologie Santé et Environnement, Tripoli, Liban
| | - Dima El Safadi
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre AZM pour la recherche en biotechnologies et ses applications, Université Libanaise, Laboratoire de Microbiologie Santé et Environnement, Tripoli, Liban
| | - Sadia Benamrouz
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Faculté Libre des Sciences et Technologies de Lille, Université Catholique de Lille, Université Lille Nord de France, Laboratoire Ecologie et Biodiversité, Lille, France
| | - Karine Guyot
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Eduardo Dei-Cas
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Centre Hospitalier Régional et Universitaire de Lille & Faculté de Médicine de Lille, Université Lille Nord de France, Laboratoire de Parasitologie-Mycologie, Centre de Biologie et Pathologie, Lille, France
| | - El Moukhtar Aliouat
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- Faculté des sciences pharmaceutiques et biologiques, Université Lille Nord de France, Département de Parasitologie—Mycologie, Lille, France
| | - Colette Creusy
- Service d’Anatomie et de Cytologie Pathologiques, Groupe Hospitalier de l’Université Catholique de Lille, 59020 Lille, France
| | - Hassan Mallat
- Centre AZM pour la recherche en biotechnologies et ses applications, Université Libanaise, Laboratoire de Microbiologie Santé et Environnement, Tripoli, Liban
| | - Monzer Hamze
- Centre AZM pour la recherche en biotechnologies et ses applications, Université Libanaise, Laboratoire de Microbiologie Santé et Environnement, Tripoli, Liban
| | - Fouad Dabboussi
- Centre AZM pour la recherche en biotechnologies et ses applications, Université Libanaise, Laboratoire de Microbiologie Santé et Environnement, Tripoli, Liban
| | - Eric Viscogliosi
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
| | - Gabriela Certad
- Institut Pasteur de Lille, Centre d’Infection et d’Immunité de Lille (CIIL), UMR CNRS 8204, Inserm U1019, Université Lille Nord de France, Biologie et Diversité des Pathogènes Eucaryotes Emergents (BDPEE), Lille, France
- * E-mail:
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Demanche C, Deville M, Michaux J, Barriel V, Pinçon C, Aliouat-Denis CM, Pottier M, Noël C, Viscogliosi E, Aliouat EM, Dei-Cas E, Morand S, Guillot J. What do Pneumocystis organisms tell us about the phylogeography of their hosts? The case of the woodmouse Apodemus sylvaticus in continental Europe and western Mediterranean islands. PLoS One 2015; 10:e0120839. [PMID: 25830289 PMCID: PMC4382281 DOI: 10.1371/journal.pone.0120839] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2013] [Accepted: 02/11/2015] [Indexed: 12/02/2022] Open
Abstract
Pneumocystis fungi represent a highly diversified biological group with numerous species, which display a strong host-specificity suggesting a long co-speciation process. In the present study, the presence and genetic diversity of Pneumocystis organisms was investigated in 203 lung samples from woodmice (Apodemus sylvaticus) collected on western continental Europe and Mediterranean islands. The presence of Pneumocystis DNA was assessed by nested PCR at both large and small mitochondrial subunit (mtLSU and mtSSU) rRNA loci. Direct sequencing of nested PCR products demonstrated a very high variability among woodmouse-derived Pneumocystis organisms with a total number of 30 distinct combined mtLSU and mtSSU sequence types. However, the genetic divergence among these sequence types was very low (up to 3.87%) and the presence of several Pneumocystis species within Apodemus sylvaticus was considered unlikely. The analysis of the genetic structure of woodmouse-derived Pneumocystis revealed two distinct groups. The first one comprised Pneumocystis from woodmice collected in continental Spain, France and Balearic islands. The second one included Pneumocystis from woodmice collected in continental Italy, Corsica and Sicily. These two genetic groups were in accordance with the two lineages currently described within the host species Apodemus sylvaticus. Pneumocystis organisms are emerging as powerful tools for phylogeographic studies in mammals.
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Affiliation(s)
- Christine Demanche
- Laboratoire de Parasitologie (EA4547), Faculté de Pharmacie, Université de Lille, Lille, France; Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France
| | - Manjula Deville
- ENVA, UPEC, Research group Dynamyc, Ecole Nationale Vétérinaire d'Alfort, 94704, Maisons-Alfort Cedex, France
| | - Johan Michaux
- CBGP (Centre de Biologie et de Gestion des Populations), UMR INRA/IRD/Cirad/Montpellier SupAgro, Campus international de Baillarguet, CS 30016, 34988, Montferrier-sur-Lez cedex, France; Institut de Botanique (B22), University of Liège, 4000, Liège, (Sart Tilman), Belgium
| | - Véronique Barriel
- Muséum national d'histoire naturelle, CR2P-UMR 7207 CNRS, MNHN, Univ Paris06, Paris, France
| | - Claire Pinçon
- Departement of Biostatistics (EA2694), Université de Lille, Lille, France
| | - Cécile Marie Aliouat-Denis
- Laboratoire de Parasitologie (EA4547), Faculté de Pharmacie, Université de Lille, Lille, France; Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France
| | - Muriel Pottier
- Laboratoire de Parasitologie (EA4547), Faculté de Pharmacie, Université de Lille, Lille, France; Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France
| | - Christophe Noël
- Geneius Laboratories Ltd, INEX Business Centre, Newcastle upon Tyne, United Kingdom
| | - Eric Viscogliosi
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France
| | - El Moukhtar Aliouat
- Laboratoire de Parasitologie (EA4547), Faculté de Pharmacie, Université de Lille, Lille, France; Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France
| | - Eduardo Dei-Cas
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, UMR CNRS 8204, Université de Lille, BioPôle d'Alfort, Biologie et Diversité des Pathogènes Eucaryotes Emergents, Lille, France; Parasitologie-Mycologie (EA4547) Faculté de Médecine, Université de Lille, CHRU, Lille, France
| | - Serge Morand
- Institut des Sciences de l'Evolution, UMR CNRS-IRD-UM2, Université de Montpellier 2, F-34093, Montpellier, France; CIRAD-CNRS, Centre d'Infectiologie Christophe Mérieux du Laos, Vientiane, Lao PDR
| | - Jacques Guillot
- ENVA, UPEC, Research group Dynamyc, Ecole Nationale Vétérinaire d'Alfort, 94704, Maisons-Alfort Cedex, France
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Genitsaris S, Monchy S, Viscogliosi E, Sime-Ngando T, Ferreira S, Christaki U. Seasonal variations of marine protist community structure based on taxon-specific traits using the eastern English Channel as a model coastal system. FEMS Microbiol Ecol 2015; 91:fiv034. [PMID: 25873460 DOI: 10.1093/femsec/fiv034] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/23/2015] [Indexed: 11/12/2022] Open
Abstract
Previous microscopy-based studies in the eastern English Channel have revealed it to be a productive meso-eutrophic coastal ecosystem, characterized by strong repeating patterns in microplankton succession. The present study examines the seasonal structure of the entire protistan community from March 2011 to July 2013, using tag pyrosequencing of the V2-V3 hypervariable region of the 18S rRNA gene. A total of 1242 OTUs and 28 high-level taxonomic groups, which included previously undetected taxa in the area, were identified. The detected OTUs were considered according to taxon-specific traits, which included their trophic role, abundance and specialization level. Taxa differentiation based on specialization level rather than abundance was more informative in describing community organization. While generalists were always abundant, numerous specialists that were either rare or absent in most samples, increased in abundance for short periods, appearing to be overall abundant. Statistical and network analyses showed that the protistan seasonal organization was influenced by environmental parameters. It also highlighted that in addition to grazers, fungi and parasites played potentially significant roles during phytoplankton blooms. Overall, while the protistan succession was mainly shaped by environmental variations, biotic interactions among co-occurring taxa were the main structural drivers of the temporal assemblages.
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Affiliation(s)
- Savvas Genitsaris
- Laboratoire d'Océanologie et Géosciences (LOG), UMR CNRS 8187, Université du Littoral Côte d'Opale (ULCO), 32 av. Foch, 62930 Wimereux, France
| | - Sébastien Monchy
- Laboratoire d'Océanologie et Géosciences (LOG), UMR CNRS 8187, Université du Littoral Côte d'Opale (ULCO), 32 av. Foch, 62930 Wimereux, France
| | - Eric Viscogliosi
- Center for Infection and Immunity of Lille (CIIL), Institut Pasteur of Lille, Inserm U1019, CNRS UMR 8204, University Lille Nord de France, Biology and Diversity of Emerging Eukaryotic Pathogens, EA4547 Lille, France
| | - Télesphore Sime-Ngando
- Laboratoire Microorganismes: Génome et Environnement (LMGE), UMR CNRS 6023, Université Blaise Pascal, BP 80026, 63171 Aubière Cedex, France
| | | | - Urania Christaki
- Laboratoire d'Océanologie et Géosciences (LOG), UMR CNRS 8187, Université du Littoral Côte d'Opale (ULCO), 32 av. Foch, 62930 Wimereux, France
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48
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Nguyen LDN, Viscogliosi E, Delhaes L. The lung mycobiome: an emerging field of the human respiratory microbiome. Front Microbiol 2015; 6:89. [PMID: 25762987 PMCID: PMC4327734 DOI: 10.3389/fmicb.2015.00089] [Citation(s) in RCA: 162] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2014] [Accepted: 01/23/2015] [Indexed: 01/29/2023] Open
Abstract
The lung microbiome, which is believed to be stable or at least transient in healthy people, is now considered as a poly-microorganism component contributing to disease pathogenesis. Most research studies on the respiratory microbiome have focused on bacteria and their impact on lung health, but there is evidence that other non-bacterial organisms, comprising the viruses (virome) and fungi (mycobiome), are also likely to play an important role in healthy people as well as in patients. In the last few years, the lung mycobiome (previously named the fungal microbiota or microbiome) has drawn closer attention. There is growing evidence that the lung mycobiome has a significant impact on clinical outcome of chronic respiratory diseases (CRD) such as asthma, chronic obstructive pulmonary disease, cystic fibrosis, and bronchiectasis. Thanks to advances in culture independent methods, especially next generation sequencing, a number of fungi not detected by culture methods have been molecularly identified in human lungs. It has been shown that the structure and diversity of the lung mycobiome vary in different populations (healthy and different diseased individuals) which could play a role in CRD. Moreover, the link between lung mycobiome and different biomes of other body sites, especially the gut, has also been unraveled. By interacting with the bacteriome and/or virome, the respiratory mycobiome appears to be a cofactor in inflammation and in the host immune response, and therefore may contribute to the decline of the lung function and the disease progression. In this review, we report the recent limited explorations of the human respiratory mycobiome, and discuss the mycobiome’s connections with other local microbial communities, as well as the relationships with the different biomes of other body sites. These studies suggest several outlooks for this understudied emerging field, which will certainly call for a renewal of our understanding of pulmonary diseases.
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Affiliation(s)
- Linh D N Nguyen
- Biology and Diversity of Emerging Eukaryotic Pathogens, Center for Infection and Immunity of Lille, INSERM U1019, CNRS UMR 8204, Lille Pasteur Institute, University of Lille Nord de France , Lille, France
| | - Eric Viscogliosi
- Biology and Diversity of Emerging Eukaryotic Pathogens, Center for Infection and Immunity of Lille, INSERM U1019, CNRS UMR 8204, Lille Pasteur Institute, University of Lille Nord de France , Lille, France
| | - Laurence Delhaes
- Biology and Diversity of Emerging Eukaryotic Pathogens, Center for Infection and Immunity of Lille, INSERM U1019, CNRS UMR 8204, Lille Pasteur Institute, University of Lille Nord de France , Lille, France ; Parasitology-Mycology Department, Hospital University Center, Faculty of Medicine , Lille, France
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Wawrzyniak I, Courtine D, Osman M, Hubans-Pierlot C, Cian A, Nourrisson C, Chabe M, Poirier P, Bart A, Polonais V, Delgado-Viscogliosi P, El Alaoui H, Belkorchia A, van Gool T, Tan KSW, Ferreira S, Viscogliosi E, Delbac F. Draft genome sequence of the intestinal parasite Blastocystis subtype 4-isolate WR1. Genom Data 2015; 4:22-3. [PMID: 26484170 PMCID: PMC4535960 DOI: 10.1016/j.gdata.2015.01.009] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 12/05/2014] [Revised: 01/23/2015] [Accepted: 01/24/2015] [Indexed: 11/27/2022]
Abstract
The intestinal protistan parasite Blastocystis is characterized by an extensive genetic variability with 17 subtypes (ST1–ST17) described to date. Only the whole genome of a human ST7 isolate was previously sequenced. Here we report the draft genome sequence of Blastocystis ST4-WR1 isolated from a laboratory rodent at Singapore.
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Affiliation(s)
- Ivan Wawrzyniak
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Damien Courtine
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Marwan Osman
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, CNRS UMR 8204, Université Lille, Nord de France, France
| | | | - Amandine Cian
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, CNRS UMR 8204, Université Lille, Nord de France, France
| | - Céline Nourrisson
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Magali Chabe
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, CNRS UMR 8204, Université Lille, Nord de France, France
| | - Philippe Poirier
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Aldert Bart
- Department of Medical Microbiology, Section Parasitology, Center for Infection and Immunity Amsterdam, Academic Medical Center, Amsterdam, The Netherlands
| | - Valérie Polonais
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Pilar Delgado-Viscogliosi
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, CNRS UMR 8204, Université Lille, Nord de France, France
| | - Hicham El Alaoui
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Abdel Belkorchia
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
| | - Tom van Gool
- Department of Medical Microbiology, Section Parasitology, Center for Infection and Immunity Amsterdam, Academic Medical Center, Amsterdam, The Netherlands
| | - Kevin S W Tan
- Laboratory of Molecular and Cellular Parasitology, Department of Microbiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
| | | | - Eric Viscogliosi
- Institut Pasteur de Lille, Centre d'Infection et d'Immunité de Lille, Inserm U1019, CNRS UMR 8204, Université Lille, Nord de France, France
| | - Frédéric Delbac
- Clermont Université, Université Blaise Pascal-Université d'Auvergne-CNRS, UMR 6023 Laboratoire Microorganismes: Génome et Environnement, Clermont-Ferrand, France
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50
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Ngoc LND, Dassoneville R, Chabe M, Gantois N, Prevotat A, Perez T, Wallaert B, Audebert C, Goffart A, Viscogliosi E, Delhaes L. Lung mycobiota from patients with cystic fibrosis: Recent updates and links with other microbial communities. J Mycol Med 2014. [DOI: 10.1016/j.mycmed.2014.06.031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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