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Namoune R, Djebbar A, Mekler R, McHugh M, Bekara MEA, Decano A, Holden MTG, Sebaihia M. Whole Genome Sequencing and Molecular Epidemiology of Clinical Isolates of Staphylococcus aureus from Algeria. Microorganisms 2023; 11:2047. [PMID: 37630607 PMCID: PMC10457831 DOI: 10.3390/microorganisms11082047] [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: 07/18/2023] [Revised: 08/02/2023] [Accepted: 08/06/2023] [Indexed: 08/27/2023] Open
Abstract
Staphylococcus aureus is an important pathogen responsible for various healthcare- and community-acquired infections. In this study, whole genome sequencing (WGS) was used to genotype S. aureus clinical isolates from two hospitals in Algeria and to characterize their genetic determinants of antimicrobial resistance. Seventeen S. aureus isolates were included in this study. WGS, single-nucleotide polymorphism (SNP)-based phylogenetic analysis, in silico multilocus sequence typing (MLST), spa and staphylococcal cassette chromosome mec (SCCmec) typing and in silico antimicrobial resistance profiling were performed. Phenotypic antibiotic susceptibility testing was performed using the Vitek 2 system and the disk diffusion method. The isolates were separated into sequence types (STs), with ST80 being predominant; five clonal complexes (CCs); four spa types (t044, t127, t368, t386); and two SCCmec types (IVc and IVa). Whole genome analysis revealed the presence of the resistance genes mecA, blaZ, ermC, fusB, fusC, tetK, aph(3')-IIIa and aad(6) and mutations conferring resistance in the genes parC and fusA. The rate of multidrug resistance (MDR) was 64%. This work provides a high-resolution characterization of methicillin-resistant S. aureus (MRSA) and methicillin-susceptible S. aureus (MSSA) isolates and emphasizes the importance of continuous surveillance to monitor the spread of S. aureus in healthcare settings in the country.
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Affiliation(s)
- Rachida Namoune
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Chlef 02000, Algeria; (R.N.); (A.D.)
| | - Abla Djebbar
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Chlef 02000, Algeria; (R.N.); (A.D.)
| | - Rebecca Mekler
- School of Medicine, University of St Andrews, St Andrews KY16 9TF, UK (M.T.G.H.)
| | - Martin McHugh
- School of Medicine, University of St Andrews, St Andrews KY16 9TF, UK (M.T.G.H.)
| | - Mohammed El Amine Bekara
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Chlef 02000, Algeria; (R.N.); (A.D.)
| | - Arun Decano
- School of Medicine, University of St Andrews, St Andrews KY16 9TF, UK (M.T.G.H.)
| | - Matthew T. G. Holden
- School of Medicine, University of St Andrews, St Andrews KY16 9TF, UK (M.T.G.H.)
| | - Mohammed Sebaihia
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Chlef 02000, Algeria; (R.N.); (A.D.)
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Bekara MEA, Djebbar A, Sebaihia M, Bouzeghti MEA, Badaoui L. Bayesian spatio-temporal analysis of the incidence of lung cancer in the North West of Algeria, 2014-2020. Spat Spatiotemporal Epidemiol 2023. [DOI: 10.1016/j.sste.2023.100583] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 03/13/2023]
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Boudjelal Y, Krutova M, Djebbar A, Sebaihia M, Bekara MEA, Rouabhia S, Couturier J, Syed-Zaidi R, Barbut F. Molecular epidemiology and antimicrobial resistance patterns of Clostridioides difficile isolates in Algerian hospitals. J Infect Dev Ctries 2022; 16:1055-1063. [PMID: 35797301 DOI: 10.3855/jidc.16056] [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: 11/11/2021] [Accepted: 02/15/2022] [Indexed: 10/31/2022] Open
Abstract
INTRODUCTION Clostridioides difficile is a major pathogen responsible for hospital-associated diarrhoea. This study investigated the molecular epidemiology and antibiotic resistance of C. difficile isolates in five Algerian hospitals. METHODOLOGY Between 2016 and 2019, faecal specimens were collected from in-patients and were cultured for C. difficile. Isolates were characterised by toxin genes detection, Polymerase Chain Reaction (PCR)-ribotyping, Multilocus Sequence Typing (MLST), antimicrobial susceptibility testing against a panel of antibiotics, and screened for antimicrobial resistance genes. RESULTS Out of 300 patient stools tested, 18 (6%) were positive for C. difficile by culture, and were found to belong to 11 different ribotypes (RT) and 12 sequence types (ST): RT 085/ST39, FR 248/ST259, FR 111/ST48, RT 017/ST37, RT 014/ST2, RT 014/ST14, FR 247/new ST, RT 005/ST6, RT 029/ST16, RT 039/ST26, RT 056/ST34 and RT 446/ST58. MLST analysis assigned the isolates to two clades, 1 and 4. Clade 4 was more homogeneous, as it mainly included non-toxigenic isolates. Three toxin gene profiles were detected, two toxigenic, A+B+CDT- (33.3%) and A-B+CDT- (11%); and one non-toxigenic, A-B-CDT- (55.5%). All C. difficile isolates were susceptible to metronidazole, vancomycin and moxifloxacin. CONCLUSIONS Overall prevalence of C. difficile in our healthcare settings was 6%. Antibiotic resistance rates ranged from 72.2% (clindamycin) to 16.6% (tetracycline). This study highlighted a relatively high genetic diversity in term of ribotypes, sequence types, toxin and antibiotic resistance patterns, in the C. difficile isolates. Further larger studies are needed to assess the true extent of C. difficile infections in Algeria.
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Affiliation(s)
- Youcef Boudjelal
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Algeria
| | - Marcela Krutova
- Department of Medical Microbiology, Charles University, 2nd Faculty of Medicine and Motol University Hospital, Prague, Czech Republic
| | - Abla Djebbar
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Algeria
| | - Mohammed Sebaihia
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Algeria.
| | - Mohammed El Amine Bekara
- Laboratory of Molecular Biology, Genomics and Bioinformatics, Department of Biology, Faculty of Nature and Life Sciences, University Hassiba Benbouali of Chlef, Algeria
| | - Samir Rouabhia
- Department of Internal Medicine, University hospital Touhami Benflis, Batna, Algeria
| | - Jeanne Couturier
- National Reference Laboratory for C. difficile, Saint Antoine Hospital in Paris, AP-HP, France
| | - Rabab Syed-Zaidi
- National Reference Laboratory for C. difficile, Saint Antoine Hospital in Paris, AP-HP, France
| | - Frédéric Barbut
- European Society of Clinical Microbiology and Infectious Diseases (ESCMID) study group for Clostridioides difficile (ESGCD)
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Djebbar A, Boudouh S, Yahiaoui O, Rhezrane S, Heddane R. Covid-19 : les indicateurs péjoratifs de mortalité et de transferts en soins intensifs. Revue des Maladies Respiratoires Actualités 2022. [PMCID: PMC8709585 DOI: 10.1016/j.rmra.2021.11.224] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
Abstract
Introduction Méthodes Résultats Conclusion
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Djebaili R, Rezzoug L, Nemouchi A, Djebbar A. BPCO et qualité de vie. Rev Mal Respir 2019. [DOI: 10.1016/j.rmr.2018.10.132] [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: 11/29/2022]
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Djebbar A, Sebaihia M, Kuijper E, Harmanus C, Sanders I, Benbraham N, Hacène H. First molecular characterisation and PCR ribotyping of Clostridium difficile strains isolated in two Algerian Hospitals. J Infect Dev Ctries 2018; 12:15-21. [PMID: 31628829 DOI: 10.3855/jidc.9580] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2017] [Accepted: 12/16/2017] [Indexed: 10/31/2022] Open
Abstract
INTRODUCTION Clostridium difficile is the major etiological agent of nosocomial antibiotics associated diarrhoea. C. difficile infection is associated with considerable morbidity and mortality among hospitalized patients worldwide. Despite its known importance, there is no study on this important pathogen in Algeria. METHODOLOGY In this prospective study, undertaken between 2013 and 2015, faecal specimens were collected from 159 hospitalized patients with antibiotic-associated diarrhoea in two tertiary health care hospitals in Chlef, Algeria. Faecal samples were cultured on CLO plates Agar with cefoxitin, cycloserine antibiotics and sodium taurocholate. C. difficile suspected colonies were analysed by multiplex PCR for the detection of the toxin genes. C. difficile isolates were analysed by PCR ribotyping and multi-locus tandem repeat analysis. Antimicrobial susceptibility was determined by the E-test method, according to the Clinical and Laboratory Standards Institute protocol. RESULTS C. difficile was cultured from 11 of 159 stool specimen (6.9%). Seven strains were toxigenic, mainly represented by the 020 and 014 PCR ribotypes and four non toxigenic belong to PCR ribotype 084. All 11 isolates were susceptible to both vancomycin and metronidazole and resistant to ciprofloxacin. CONCLUSIONS This study, which reported for the first time C. difficile ribotypes circulating in Algerian health care facilities, could paves the way for further more comprehensive studies on this important pathogen, and could be useful to the local health authorities to implement a surveillance program of C. difficile in Algeria.
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Affiliation(s)
- Abla Djebbar
- University of Science and Technology Houari Boumediene, Bab Ezzouar, Algiers, Algeria.
| | | | - Ed Kuijper
- Leiden University Medical Center, Leiden, The Netherlands.
| | | | - Ingrid Sanders
- Leiden University Medical Center, Leiden, The Netherlands.
| | | | - Hocine Hacène
- University of Science and Technology Houari Boumediene, Bab Ezzouar, Algiers, Algeria.
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Assassi S, Hamoud S, Benedjai B, Djebaili R, Ailan H, Djebbar A. Le chylothorax à propos d’une série de 8 cas. Rev Mal Respir 2018. [DOI: 10.1016/j.rmr.2017.10.342] [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: 10/18/2022]
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Assassi S, Ouahchi A, Touari I, Deghou O, Djebbar A. Kystes hydatiques pulmonaires à propos d’une série de 56 patients. Rev Mal Respir 2018. [DOI: 10.1016/j.rmr.2017.10.551] [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: 10/18/2022]
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Benoudina D, Hamoud S, Djebbar A. La particularité du pneumothorax chez les silicotiques tailleurs de pierres. Rev Mal Respir 2018. [DOI: 10.1016/j.rmr.2017.10.538] [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: 11/24/2022]
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Djenfi T, Boudouh S, Direche R, Djebbar A. Association de miliaire tuberculeuse et tuberculomes cérébraux : à propos de 4 cas. Rev Mal Respir 2018. [DOI: 10.1016/j.rmr.2017.10.623] [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: 10/18/2022]
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Djebaili R, Benoudina D, Rahmoune M, Akakba A, Djebbar A. Intérêt de l’impédancemétrie corporelle chez les BPCO. Rev Mal Respir 2018. [DOI: 10.1016/j.rmr.2017.10.465] [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: 10/18/2022]
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Assassi S, Djebaili R, Djenfi T, Benoudina D, Djebbar A. Intérêt de la podométrie dans la pratique du TDM6. Rev Mal Respir 2017. [DOI: 10.1016/j.rmr.2016.10.399] [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: 11/25/2022]
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Touari I, Bouali M, Ouahchi A, Hamoud S, Djebbar A. Évolution des kystes hydatiques non opérés à propos de 39 cas. Rev Mal Respir 2015. [DOI: 10.1016/j.rmr.2014.10.133] [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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Ouahchi A, Hamdiken H, Choukha K, Romane A, Khellaf T, Hamoud S, Djebbar A. Le cancer bronchique primitif chez le sujet jeune : à propos d’une série de 61 patients. Rev Mal Respir 2012. [DOI: 10.1016/j.rmr.2011.10.756] [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: 11/17/2022]
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Hamoud S, Hadidi A, Remadna A, Kafi N, Chaouki F, Djebbar A. Place du test de marche de six minutes dans la BPCO : étude sur une série de 72 patients. Rev Mal Respir 2012. [DOI: 10.1016/j.rmr.2011.10.849] [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: 11/15/2022]
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Nadjet D, Hania B, Dina A, Nassima C, Djebbar A. Antioxidant activity of extracts of three Algerian medicinal plants: Clematis flammula, Populus nigra and Ulmus campestris. Comp Biochem Physiol A Mol Integr Physiol 2008. [DOI: 10.1016/j.cbpa.2008.04.488] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Djebbar A, Selmani M, Djebaïli R, Deba O, Zidani Z, Djenfi T. 470 Les manifestations pulmonaires de la maladie de Recklinghausen : à propos de 3 cas. Rev Mal Respir 2007. [DOI: 10.1016/s0761-8425(07)72846-2] [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: 11/27/2022]
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Chaouki F, Djebbar A. 371 Étude personnalisée de la transmission de la tuberculose : importance du vecteur. Rev Mal Respir 2007. [DOI: 10.1016/s0761-8425(07)72747-x] [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: 11/16/2022]
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Ahmed Fouatih Z, Khaldi H, Madouri R, Djebbari S, Djebbar A, Mohamed Khodja M, Midoun N, Mokhtari L, Dali Youcef A, Chenal C. P2-7 Caractéristiques cliniques et épidémiologiques du cancer du cavum dans l’Ouest Algérien. Analyse de la survie. Rev Epidemiol Sante Publique 2004. [DOI: 10.1016/s0398-7620(04)99229-2] [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: 11/27/2022] Open
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Djebbar A, Chaouki F, Hammoud S, Deba O, Hamidi A, Djebaïli R. 144 Le diverticule de Kommerell : une image médiastinale rare. A propos d’un cas et revue de la littérature. Rev Mal Respir 2004. [DOI: 10.1016/s0761-8425(04)71770-2] [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: 10/22/2022]
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Abbas M, Hidra M, Belhadi S, Djebbar A, Benali R, Bouzakoula Z, Djimli O. [Tuberculosis contagion. Results of a personalized epidemiologic study]. Tunis Med 1985; 63:623-6. [PMID: 3835739] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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Labrousse J, Coulaud JM, Djebbar A, Massart JD, Lissac J, Lesavre P. [Role of complement C5 fraction in the adult respiratory distress syndrome]. Presse Med 1985; 14:1098. [PMID: 3158972] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
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Martin-Lalande J, Jaubertie R, Djebbar A. [Ethambutol, rifampicin: major tuberculostatics? (Review of the literature and 130 personal cases)]. Rev Tuberc Pneumol (Paris) 1969; 33:95-111. [PMID: 4901713] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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Martin-Lelande J, Jaubertie R, Djebbar A. [Note on the clinical trial of ethambutol in sanatorial practice]. Rev Tuberc Pneumol (Paris) 1968; 32:116-8. [PMID: 5758989] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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Martin-Lalande J, Carraud J, Djebbar A, Jaubertie R. [Aspergillosis and suppuration: intra-cavitary superacute pyogenic episode after Aspergillus degeneration and death in situ]. J Fr Med Chir Thorac 1965; 19:569-589. [PMID: 5838989] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
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