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Vorimore F, Hölzer M, Liebler-Tenorio EM, Barf LM, Delannoy S, Vittecoq M, Wedlarski R, Lécu A, Scharf S, Blanchard Y, Fach P, Hsia RC, Bavoil PM, Rosselló-Móra R, Laroucau K, Sachse K. Evidence for the existence of a new genus Chlamydiifrater gen. nov. inside the family Chlamydiaceae with two new species isolated from flamingo (Phoenicopterus roseus): Chlamydiifrater phoenicopteri sp. nov. and Chlamydiifrater volucris sp. nov. Syst Appl Microbiol 2021; 44:126200. [PMID: 34298369 DOI: 10.1016/j.syapm.2021.126200] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [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: 11/19/2020] [Revised: 03/01/2021] [Accepted: 03/18/2021] [Indexed: 11/17/2022]
Abstract
The family Chlamydiaceae currently comprises a single genus Chlamydia, with 11 validly published species and seven more taxa. It includes the human pathogens Chlamydia (C.) trachomatis, C. pneumoniae and C. psittaci, a zoonotic agent causing avian chlamydiosis and human psittacosis, as well as other proven or potential pathogens in ruminants, birds, snakes, reptiles and turtles. During routine testing of 15 apparently healthy captive flamingos in a zoo in 2011, an atypical strain of Chlamydiaceae was detected by real-time PCR of cloacal swab samples. Sequence analysis of the 16S rRNA gene revealed high similarity to the uncultured Chlamydiales bacterium clone 122, which previously had been found in gulls. As more samples were collected during annual campaigns of the flamingo ringing program in southern France from 2012 to 2015, Chlamydiaceae-specific DNA was detected by PCR in 30.9% of wild birds. From these samples, three strains were successfully grown in cell culture. Ultrastructural analysis, comparison of 16S and 23S rRNA gene sequences, whole-genome analysis based on de novo hybrid-assembled sequences of the new strains as well as subsequent calculation of taxonomic parameters revealed that the relatedness of the flamingo isolates to established members of the family Chlamydiaceae was sufficiently distant to indicate that the three strains belong to two distinct species within a new genus. Based on these data, we propose the introduction of Chlamydiifrater gen. nov., as a new genus, and Chlamydiifrater phoenicopteri sp. nov. and Chlamydiifrater volucris sp. nov., as two new species of the genus.
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Affiliation(s)
- F Vorimore
- University Paris-Est, Anses, Animal Health Laboratory, Bacterial Zoonoses Unit, Maisons-Alfort, France.
| | - M Hölzer
- Robert Koch Institute, MF1 Bioinformatics, Berlin, Germany
| | - E M Liebler-Tenorio
- Friedrich-Loeffler-Institut (Federal Research Institute for Animal Health), Institute of Molecular Pathogenesis, Germany
| | - L-M Barf
- Friedrich-Schiller-Universität Jena, RNA Bioinformatics and High-Throughput Analysis, Jena, Germany
| | - S Delannoy
- University Paris-Est, Anses, Food Research Laboratory, IdentyPath Platform, Maisons-Alfort, France
| | - M Vittecoq
- Tour du Valat, Centre de recherche pour la conservation des zones humides méditerranéennes, Le Sambuc, Arles, France
| | - R Wedlarski
- Bioparc - Zoo de Doué la fontaine, 103 rue de Cholet, 49700 Doué la Fontaine, France
| | - A Lécu
- Parc Zoologique de Paris, avenue de Daumesnil, 75012 Paris, France
| | - S Scharf
- Friedrich-Loeffler-Institut (Federal Research Institute for Animal Health), Institute of Molecular Pathogenesis, Germany
| | - Y Blanchard
- Unit of Viral Genetics and Biosafety, ANSES, Laboratory of Ploufragan, Ploufragan, France
| | - P Fach
- University Paris-Est, Anses, Food Research Laboratory, IdentyPath Platform, Maisons-Alfort, France
| | - R C Hsia
- University of Maryland, Electron Microscopy Core Imaging Facility, Baltimore, MD 21201, USA
| | - P M Bavoil
- University of Maryland, Department of Microbial Pathogenesis, Baltimore, MD 21201, USA
| | - R Rosselló-Móra
- Marine Microbiology Group, Department of Animal and Microbial Biodiversity, Mediterranean Institute for Advanced Studies, 07190 Esporles, Spain
| | - K Laroucau
- University Paris-Est, Anses, Animal Health Laboratory, Bacterial Zoonoses Unit, Maisons-Alfort, France
| | - K Sachse
- Friedrich-Schiller-Universität Jena, RNA Bioinformatics and High-Throughput Analysis, Jena, Germany
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Douëllou T, Delannoy S, Ganet S, Fach P, Loukiadis E, Montel MC, Sergentet-Thevenot D. Molecular characterization of O157:H7, O26:H11 and O103:H2 Shiga toxin-producing Escherichia coli isolated from dairy products. Int J Food Microbiol 2017; 253:59-65. [PMID: 28499121 DOI: 10.1016/j.ijfoodmicro.2017.04.010] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [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: 12/12/2016] [Revised: 04/18/2017] [Accepted: 04/19/2017] [Indexed: 01/10/2023]
Abstract
Pathogenic Shiga toxin-producing E. coli (STEC) are recognized worldwide as environment and foodborne pathogens which can be transmitted by ingestion of ready-to-eat food such as raw milk-derived products. STEC show a prevalence rate in dairy products of 0.9%, yet comparably few outbreaks have been related to dairy products consumption. In this study, we used rt-qPCR to identify the virulence potential of O157, O26 and O103 STEC strains isolated from raw-milk dairy products by analyzing virulence-related gene frequencies and associations with O-island (OI) 44, OI-48, OI-50, OI-57, OI-71 and OI-122. Results showed that 100% of STEC strains investigated harbored genes associated with EHEC-related virulence profile patterns (eae and stx, with either espK, espV, ureD and/or Z2098). We also found similarities in virulence-related gene content between O157:H7 and O103:H2 dairy and non-dairy STEC strains, especially isolates from human cases. The O26:H11-serotype STEC strains investigated harbor the arcA-allele 2 gene associated with specific genetic markers. These profiles are associated with high-virulence seropathotype-A STEC. However, the low frequency of stx2 gene associated with absence of other virulence genes in dairy isolates of O26:H11 remains a promising avenue of investigation to estimate their real pathogenicity. All O26:H11 attaching-effacing E. coli (AEEC) strains carried CRISPRO26:H11SP_O26_E but not genetic markers espK, espV, ureD and/or Z2098 associated with the emerging potentially high-virulence "new French clone". These strains are potentially as "EHEC-like" strains because they may acquire (or have lost) stx gene. In this study, O157:H7, O103:H2 and O26:H11 STEC strains isolated from dairy products were assigned as potential pathogens. However, research now needs to investigate the impact of dairy product environment and dairy processing on the expression of their pathogenicity.
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Affiliation(s)
- T Douëllou
- Institute National de Recherche Agronomique, Unité de Recherches Fromagères, 15000 Aurillac, France; Université de Lyon, Research Group "Bacterial Opportunistic Pathogens and Environment", UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France.
| | - S Delannoy
- Université Paris-Est, ANSES, Laboratoire de Sécurité des Aliments, Plateforme IdentyPath, 14 rue Pierre et Marie Curie, 94701 Maisons-Alfort, France
| | - S Ganet
- Université de Lyon, Research Group "Bacterial Opportunistic Pathogens and Environment", UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'Etudes des Microorganismes Alimentaires Pathogènes-French National Reference laboratory for Escherichia coli including Shiga toxin-producing E. coli (NRL-STEC), 69280 Marcy l'Etoile, France
| | - P Fach
- Université Paris-Est, ANSES, Laboratoire de Sécurité des Aliments, Plateforme IdentyPath, 14 rue Pierre et Marie Curie, 94701 Maisons-Alfort, France
| | - E Loukiadis
- Université de Lyon, Research Group "Bacterial Opportunistic Pathogens and Environment", UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'Etudes des Microorganismes Alimentaires Pathogènes-French National Reference laboratory for Escherichia coli including Shiga toxin-producing E. coli (NRL-STEC), 69280 Marcy l'Etoile, France
| | - M-C Montel
- Institute National de Recherche Agronomique, Unité de Recherches Fromagères, 15000 Aurillac, France
| | - D Sergentet-Thevenot
- Université de Lyon, Research Group "Bacterial Opportunistic Pathogens and Environment", UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'Etudes des Microorganismes Alimentaires Pathogènes-French National Reference laboratory for Escherichia coli including Shiga toxin-producing E. coli (NRL-STEC), 69280 Marcy l'Etoile, France
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Mondani L, Delannoy S, Mathey R, Piat F, Mercey T, Slimani S, Fach P, Livache T, Roupioz Y. Fast detection of both O157 and non-O157 shiga-toxin producing Escherichia coli by real-time optical immunoassay. Lett Appl Microbiol 2016; 62:39-46. [PMID: 26432989 DOI: 10.1111/lam.12503] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [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: 05/29/2015] [Revised: 09/04/2015] [Accepted: 09/24/2015] [Indexed: 11/28/2022]
Abstract
UNLABELLED Among bacterial pathogens involved in food-illnesses, seven serogroups (O26, O45, O103, O111, O121, O145 and O157) of Shiga-toxin producing Escherichia coli (STEC), are frequently identified. During such outbreak, and due to the perishable property of most foodstuff, the time laps for the identification of contaminated products and pathogens is thus critical to better circumvent their spread. Traditional detection methods using PCR or culture plating are time consuming and may present some limitations. In this study, we present a multiplexed immunoassay for the optical detection of most commonly enterohemorrhagic E. coli serogroups: O26, O45, O103, O111, O121, O145 and O157:H7 in a single device. The use of Surface Plasmon Resonance imaging not only enabled the label-free analysis of the samples but gave results in a real-time manner. A dedicated protocol was set up for the detection of both low contaminating bacterial concentrations of food samples (5 CFU per 25 g) and postenrichment aliquots. By combining one single device for the detection of O157 and non-O157 STEC in a label-free manner, this rapid approach may have an important economic and societal impact. SIGNIFICANCE AND IMPACT OF THE STUDY This article presents a simple-to-operate immunoassay for the specific detection of Shiga-toxin producing Escherichia coli (STEC). This approach consists in the on-chip assay detection of viable cells on a specifically designed antibody microarray. By skipping any enrichment step and avoiding the use of labelling agent, this approach based on the Surface Plasmon Resonance imaging of the microarrays turns out to be much faster and more cost effective by comparison with standardized methods.
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Affiliation(s)
- L Mondani
- University of Grenoble Alpes, INAC-SPRAM, Grenoble, France.,CEA, INAC-SPrAM, Grenoble, France.,CNRS, INAC-SPrAM, Grenoble, France
| | - S Delannoy
- Université Paris-Est, ANSES, Food Safety Laboratory, Platform IdentyPath, Maisons-Alfort, France
| | - R Mathey
- University of Grenoble Alpes, INAC-SPRAM, Grenoble, France.,CEA, INAC-SPrAM, Grenoble, France.,CNRS, INAC-SPrAM, Grenoble, France
| | - F Piat
- Prestodiag, Villejuif, France
| | | | | | - P Fach
- Université Paris-Est, ANSES, Food Safety Laboratory, Platform IdentyPath, Maisons-Alfort, France
| | - T Livache
- University of Grenoble Alpes, INAC-SPRAM, Grenoble, France.,CEA, INAC-SPrAM, Grenoble, France.,CNRS, INAC-SPrAM, Grenoble, France
| | - Y Roupioz
- University of Grenoble Alpes, INAC-SPRAM, Grenoble, France.,CEA, INAC-SPrAM, Grenoble, France.,CNRS, INAC-SPrAM, Grenoble, France
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Douëllou T, Delannoy S, Ganet S, Mariani-Kurkdjian P, Fach P, Loukiadis E, Montel M, Thevenot-Sergentet D. Shiga toxin-producing Escherichia coli strains isolated from dairy products - Genetic diversity and virulence gene profiles. Int J Food Microbiol 2016; 232:52-62. [PMID: 27257743 DOI: 10.1016/j.ijfoodmicro.2016.04.032] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Revised: 04/27/2016] [Accepted: 04/29/2016] [Indexed: 01/01/2023]
Abstract
Shiga toxin-producing Escherichia coli (STEC) are widely recognized as pathogens causing food borne disease. Here we evaluate the genetic diversity of 197 strains, mainly STEC, from serotypes O157:H7, O26:H11, O103:H2, O111:H8 and O145:28 and compared strains recovered in dairy products against strains from human, meat and environment cases. For this purpose, we characterized a set of reference-collection STEC isolates from dairy products by PFGE DNA fingerprinting and a subset of these by virulence-gene profiling. PFGE profiles of restricted STEC total DNA showed high genomic variability (0.9976 on Simpson's discriminatory index), enabling all dairy isolates to be differentiated. High-throughput real-time PCR screening of STEC virulence genes were applied on the O157:H7 and O26:H11 STEC isolates from dairy products and human cases. The virulence gene profiles of dairy and human STEC strains were similar. Nevertheless, frequency-wise, stx1 was more prevalent among dairy O26:H11 isolates than in human cases ones (87% vs. 44%) while stx2 was more prevalent among O26:H11 human isolates (23% vs. 81%). For O157:H7 isolates, stx1 (0% vs. 39%), nleF (40% vs 94%) and Z6065 (40% vs 100%) were more prevalent among human than dairy strains. Our data point to differences between human and dairy strains but these differences were not sufficient to associate PFGE and virulence gene profiles to a putative lower pathogenicity of dairy strains based on their lower incidence in disease. Further comparison of whole-genome expression and virulence gene profiles should be investigated in cheese and intestinal tract samples.
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Affiliation(s)
- T Douëllou
- INRA UR Fromagères 545, 20 Cote de Reyne, 15000 Aurillac, France; Université de Lyon, "Bacterial Opportunistic Pathogens and Environment" Research Group, UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France
| | - S Delannoy
- Université Paris-Est, ANSES, Laboratoire de Sécurité des Aliments, Plateforme IdentyPath, 14 rue Pierre et Marie Curie, 94701 Maisons-Alfort, France
| | - S Ganet
- Université de Lyon, "Bacterial Opportunistic Pathogens and Environment" Research Group, UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'études des Microorganismes Alimentaires Pathogènes, French National Reference Laboratory for Escherichia coli including Shiga-like toxin-producing E. coli (NRL-STEC), 69280 Marcy-l'Etoile, France
| | - P Mariani-Kurkdjian
- Centre National de Référence Associé des Escherichia coli, AP-HP, Service de Microbiologie, Hôpital Robert-Debré, 75019 Paris, France
| | - P Fach
- Université Paris-Est, ANSES, Laboratoire de Sécurité des Aliments, Plateforme IdentyPath, 14 rue Pierre et Marie Curie, 94701 Maisons-Alfort, France
| | - E Loukiadis
- Université de Lyon, "Bacterial Opportunistic Pathogens and Environment" Research Group, UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'études des Microorganismes Alimentaires Pathogènes, French National Reference Laboratory for Escherichia coli including Shiga-like toxin-producing E. coli (NRL-STEC), 69280 Marcy-l'Etoile, France
| | - Mc Montel
- INRA UR Fromagères 545, 20 Cote de Reyne, 15000 Aurillac, France
| | - D Thevenot-Sergentet
- Université de Lyon, "Bacterial Opportunistic Pathogens and Environment" Research Group, UMR5557 Ecologie Microbienne Lyon, Université Lyon 1, CNRS, VetAgro Sup, 69280 Marcy l'Etoile, France; Université de Lyon, VetAgro Sup Campus Vétérinaire, Laboratoire d'études des Microorganismes Alimentaires Pathogènes, French National Reference Laboratory for Escherichia coli including Shiga-like toxin-producing E. coli (NRL-STEC), 69280 Marcy-l'Etoile, France.
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Mondani L, Roupioz Y, Delannoy S, Fach P, Livache T. Simultaneous enrichment and optical detection of low levels of stressed Escherichia coli
O157:H7 in food matrices. J Appl Microbiol 2014; 117:537-46. [DOI: 10.1111/jam.12522] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2014] [Revised: 04/08/2014] [Accepted: 04/08/2014] [Indexed: 11/29/2022]
Affiliation(s)
- L. Mondani
- SPrAM; UMR 5819 CEA/CNRS/UJF-Grenoble 1; Institute for Nanosciences & Cryogeny; Grenoble France
| | - Y. Roupioz
- SPrAM; UMR 5819 CEA/CNRS/UJF-Grenoble 1; Institute for Nanosciences & Cryogeny; Grenoble France
| | - S. Delannoy
- French Agency for Food, Environmental and Occupational Health and Safety (ANSES); Food Safety Laboratory; Maisons-Alfort France
| | - P. Fach
- French Agency for Food, Environmental and Occupational Health and Safety (ANSES); Food Safety Laboratory; Maisons-Alfort France
| | - T. Livache
- SPrAM; UMR 5819 CEA/CNRS/UJF-Grenoble 1; Institute for Nanosciences & Cryogeny; Grenoble France
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Michelet L, Delannoy S, Devillers E, Umhang G, Aspan A, Juremalm M, Chirico J, Van der Wal FJ, Sprong H, Boye Pihl TP, Klitgaard K, Bødker R, Fach P, Moutailler S. Multiple detection of pathogens in ticks: development of a high throughput real time PCR chip used as a new epidemiologic investigative tool. Parasit Vectors 2014. [PMCID: PMC4092299 DOI: 10.1186/1756-3305-7-s1-o12] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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Sevenier V, Delannoy S, André S, Fach P, Remize F. Prevalence of Clostridium botulinum and thermophilic heat-resistant spores in raw carrots and green beans used in French canning industry. Int J Food Microbiol 2012; 155:263-8. [DOI: 10.1016/j.ijfoodmicro.2012.02.009] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2011] [Revised: 02/13/2012] [Accepted: 02/16/2012] [Indexed: 10/28/2022]
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Laudet V, Delannoy S. Comment mettre en route un récepteur nucléaire ? Apport des données structurales. Med Sci (Paris) 1996. [DOI: 10.4267/10608/776] [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: 11/30/2022] Open
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