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Contacts:
Antoine Talarmin (atalarmin@pasteur-guadeloupe.fr)
Stéphanie Guyomard (sguyomard@pasteur-guadeloupe.fr)
Address:
TB & Mycobacteria Unit,
Instit
ut Pasteur de la Guadeloupe,
Morne Joliviere, BP 484,
97183-Abymes, Guadeloupe
France
Supranational TB Reference Laboratory in Abymes, Guadeloupe
Description
The SRL Guadeloupe has developed a comprehensive research approach at local, regional, and global level. It deals with routine and molecular diagnostics of M. tuberculosis and other mycobacterial species, drug-resistance surveillance, and development of rapid molecular methods useful for diagnostics, epidemiological and population-based studies. The Unit is organized around 4 major axes: (1) Training, teaching, and research (2) Diagnostics and WHO reference activity in TB and mycobacterial infections (3) Research in public health & epidemiology (4) Study of global TB transmission due to predominant and emerging TB clones & Geo-localization thanks to coordination of an International TB genotyping database.
Structure and organization
The TB and Mycobacteria Unit in Guadeloupe was established by Dr. Nalin RASTOGI in 1993 (nominated SRL in 2009). The Unit today is currently organized around 2 axes: (i) diagnostics and reference activity co-supervised by N. RASTOGI with 2 biologists (Dr. Antoine TALARMIN, Dr. Stéphanie GUYOMARD), with the help of 2 senior technicians (Mylène BERCHEL, Michel PIOCHE); (ii) Global TB transmission & Geo-localization supervised by N. RASTOGI with 2 full-time researchers (Dr. Thierry ZOZIO, Dr. Yann Reynaud) and various trainees and visiting scientists; and (iii) New Generation Sequencing (NGS) bioinformatics and Bayesian analyses, currently under development by Dr. Yann Reynaud.
Services provided by the SRL
(1) Reference and research activity for the 3 French departments of the Americas (Guadeloupe, Martinique, and French Guyana) performing culture, 1st and 2nd-line DST, and universal genotyping of all isolates.
(2) Epidemiological surveillance and monitoring of antibiotic resistance of M. tuberculosis and non-tuberculous mycobacteria in the French Departments of America and the Caribbean: epidemiological aspects and transmission studies.
(3) Development and implementation of a global databases of circulating genotypes of tubercle bacilli: molecular methods and web-based tools for mapping, understanding and controlling the epidemic at local, regional, and global level.
TB diagnostic methods available in the laboratory:
Microscopy
Liquid culture (MGIT960) followed by rapid discrimination between M. tuberculosis complex and MOTT bacilli by SD BIOLINE TB Ag MPT64 immunochromatographic test
1st and 2nd-line Drug Susceptibility Testing in liquid (MGIT960) and solid (7H11 agar) medium.
Molecular identification of mycobacterial species by DNA-Strip technology (GenoType MTBC, HAIN GenoTypeCM/AS)
Detection of mutations conferring anti-tuberculosis drug resistance to rifampicin and/or isoniazid (GenoType MTBDRplus), and to fluoroquinolones, aminoglycosides/cyclic peptides and/or ethambutol (GenoType MTBDRsl)
Genotyping of M. tuberculosis isolates by spoligotyping, and MIRU-VNTRs minisatellites (and punctually by LSPs and SNPs)
SRL Guadeloupe participated in the multicentric evaluation of the TB-LAMP test (Loop Mediated Isothermal Amplification, Eiken Chemical Co., Japan) allowing detection of the M. tuberculosis complex in less than 2 hours directly from pulmonary sampling. The test was officially endorsed by WHO in 2016.
Current links and partnerships outside of SRLN
Recognized as a center of excellence, the laboratory has a large network of partners:
(i) Trainees received since 2009: South Africa, Russia, Bulgaria, Colombia, Brazil, Nigeria, Morocco, France, Austria, and China.
(ii) Published collaborations on circulating M. tuberculosis genotypes since 2009:
Africa: Gambia, Guinea-Bissau, Equatorial Guinea, Ethiopia, Mozambique, Nigeria, South-Africa, Tanzania, Uganda.
Europe: France, Spain, Italy, Russia, Bulgaria, Poland, Turkey, Sweden, Finland.
Asia: India, China, Kyrgyzstan, Japan, Malaysia.
North Africa & Middle East: Morocco, Egypt, Saudi Arabia, Palestinian Territories, Iraq.
Americas: Colombia, Brazil, Chile, Peru, Mexico, Honduras, USA, Trinidad and Tobago, Haiti, Guadeloupe, Martinique, French Guiana, Guyana, Suriname.
Additional information:Page
Research activities
Research is currently focused on molecular methods and web-based tools for mapping, understanding and controlling the TB epidemic at local, regional, and global level (see list of publications)
Publications
Since its nomination as SRL in 2009, the laboratory has co-authored more than 125 publications references in PubMed. Below are 5 recent publications in high impact-factor journals for the year 2015-2016:
1. Merker M, Blin C, Mona S, Duforet-Frebourg N, Lecher S, Willery E, Blum MG, Rüsch-Gerdes S, Mokrousov I, Aleksic E, Allix-Béguec C, Antierens A, Augustynowicz-Kopeć E, Ballif M, Barletta F, Beck HP, Barry CE 3rd, Bonnet M, Borroni E, Campos-Herrero I, Cirillo D, Cox H, Crowe S, Crudu V, Diel R, Drobniewski F, Fauville-Dufaux M, Gagneux S, Ghebremichael S, Hanekom M, Hoffner S, Jiao WW, Kalon S, Kohl TA, Kontsevaya I, Lillebæk T, Maeda S, Nikolayevskyy V, Rasmussen M, Rastogi N, Samper S, Sanchez-Padilla E, Savic B, Shamputa IC, Shen A, Sng LH, Stakenas P, Toit K, Varaine F, Vukovic D, Wahl C, Warren R, Supply P, Niemann S, Wirth T. Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage. Nat Genet. 2015 Mar;47(3):242-9. doi: 10.1038/ng.3195.
2. Jagielski T, Minias A, van Ingen J, Rastogi N, Brzostek A, Żaczek A, Dziadek J. Methodological and clinical aspects of the molecular epidemiology of Mycobacterium tuberculosis and other mycobacteria. Clin Microbiol Rev. 2016 Apr;29(2):239-90. doi: 10.1128/CMR.00055-15
3. Mbugi EV, Katale BZ, Streicher EM, Keyyu JD, Kendall SL, Dockrell HM, Michel AL, Rweyemamu MM, Warren RM, Matee MI, van Helden PD, Couvin D, Rastogi N. Mapping of Mycobacterium tuberculosis complex genetic diversity profiles in Tanzania, and other African countries. PLoS One. 2016 May 5;11(5):e0154571. doi: 10.1371/journal.pone.0154571
4. Pichat C, Couvin D, Carret G, Frédénucci I, Jacomo V, Carricajo A, Boisset S, Dumitrescu O, Flandrois JP, Lina G, Rastogi N. Combined genotypic, phylogenetic, and epidemiologic analyses of Mycobacterium tuberculosis genetic diversity in the Rhône-Alpes region, France. PLoS One. 2016 Apr 29;11(4):e0153580. doi: 10.1371/journal.pone.0153580
5. Reynaud Y, Rastogi N. New Mycobacterium tuberculosis LAM sublineage with geographical specificity for the Old World revealed by phylogenetical and Bayesian analyses. Tuberculosis (Edinb). 2016 Dec;101:62-66. doi: 10.1016/j.tube.2016.07.014
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