| PMID : |
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 (20537153) |
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| titre : |
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From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma. |
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| auteur(s) : |
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Jean-Michel Thiberge1, Caroline Boursaux-Eude2, Philippe Lehours3, Marie-Agnès Dillies4, Sophie Creno5, Jean-Yves Coppée4, Zoé Rouy6, Aurélie Lajus6, Laurence Ma5, Christophe Burucoa7, Anne Ruskoné-Foumestraux8, Anne Courillon-Mallet9, Hilde De Reuse10, Ivo Boneca11, 12, Dominique Lamarque13, Francis Mégraud3, Jean-Charles Delchier14, Claudine Médigue6, Christiane Bouchier5, Agnès Labigne10, Josette Raymond ( ) 10, 15 |
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| laboratoire : |
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| 1 : |
PF8 - Génotypage des Pathogènes et Santé Publique (Plate-forme) |
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| Institut Pasteur de Paris |
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| 25-28 rue du Docteur Roux, F-75724 Paris Cedex 15 |
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| France |
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| 2 : |
PF4 - Analyse et intégration génomiques |
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| Institut Pasteur de Paris |
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| 28, rue du Docteur Roux, Paris |
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| France |
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| 3 : |
Infection à helicobacter, inflammation et cancer |
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| INSERM : U853 – Université Victor Segalen - Bordeaux II |
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| 146, rue leo saignat 33076 Bordeaux cedex |
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| France |
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| 4 : |
Puces à ADN (Plate-Forme) |
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| Institut Pasteur de Paris |
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| 25-28 rue du Docteur Roux 75724 Paris Cedex 15 |
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| France |
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| 5 : |
Génomique (Plate-Forme) |
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| Institut Pasteur de Paris |
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| 28 rue du Docteur Roux, 75724 Paris Cedex 15 |
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| France |
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| 6 : |
UMR 8030 - Génomique métabolique |
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| http://www.genoscope.cns.fr/spip/UMR-8030-de-Genomique-metabolique.html |
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| CNRS : UMR8030 – CEA : DSV/IG – Université d'Evry-Val d'Essonne |
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| 2 rue Gaston Crémieux 91057 Evry Cedex |
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| France |
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| 7 : |
LITEC - Bactériologie |
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| CHU Poitiers |
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| CHU de Poitiers, EA4331, Poitiers |
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| France |
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| 8 : |
CIC AP-HP (saint Antoine)/inserm |
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| http:// http://www.b3e.jussieu.fr/cic/ |
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| INSERM : CIC9304 – Université Pierre et Marie Curie [UPMC] - Paris VI |
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| Hopital Saint-Antoine PARIS VI 184, Rue du Faubourg Saint-Antoine 75571 PARIS CEDEX 12 |
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| France |
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| 9 : |
Hôpital Villeneuve Saint Georges |
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| Assistance publique - Hôpitaux de Paris (AP-HP) |
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| Villeneuve Saint Georges |
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| France |
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| 10 : |
Pathogenèse de Helicobacter |
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| Institut Pasteur de Paris |
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| 28, rue du Docteur Roux 75724 Paris Cedex 15 |
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| France |
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| 11 : |
The Role of Peptidoglycan in Bacterial Cell Physiology: Morphology, Resistance to B-Lactams and Host-microbe Interactions |
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| INSERM : AVENIR |
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| Paris |
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| France |
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| 12 : |
Biologie et Génétique de la Paroi bactérienne |
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| Institut Pasteur de Paris |
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| 28, rue du Docteur Roux 75724 Paris Cedex 15 |
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| France |
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| 13 : |
Hôpital Hôtel Dieu |
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| Assistance publique - Hôpitaux de Paris (AP-HP) |
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| Paris |
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| France |
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| 14 : |
Hôpital Henri Mondor |
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| Assistance publique - Hôpitaux de Paris (AP-HP) – Hôpital Henri Mondor – Université Paris-Est Créteil Val-de-Marne (UPEC) |
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| Créteil |
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| France |
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| 15 : |
Hôpital Cochin |
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| Assistance publique - Hôpitaux de Paris (AP-HP) – Hôpital Cochin – Université Paris V - Paris Descartes |
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| Paris |
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| France |
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| résumé : |
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BACKGROUND: Helicobacter pylori infection is associated with several gastro-duodenal inflammatory diseases of various levels of severity. To determine whether certain combinations of genetic markers can be used to predict the clinical source of the infection, we analyzed well documented and geographically homogenous clinical isolates using a comparative genomics approach. RESULTS: A set of 254 H. pylori genes was used to perform array-based comparative genomic hybridization among 120 French H. pylori strains associated with chronic gastritis (n = 33), duodenal ulcers (n = 27), intestinal metaplasia (n = 17) or gastric extra-nodal marginal zone B-cell MALT lymphoma (n = 43). Hierarchical cluster analyses of the DNA hybridization values allowed us to identify a homogeneous subpopulation of strains that clustered exclusively with cagPAI minus MALT lymphoma isolates. The genome sequence of B38, a representative of this MALT lymphoma strain-cluster, was completed, fully annotated, and compared with the six previously released H. pylori genomes (i.e. J99, 26695, HPAG1, P12, G27 and Shi470). B38 has the smallest H. pylori genome described thus far (1,576,758 base pairs containing 1,528 CDSs); it contains the vacAs2m2 allele and lacks the genes encoding the major virulence factors (absence of cagPAI, babB, babC, sabB, and homB). Comparative genomics led to the identification of very few sequences that are unique to the B38 strain (9 intact CDSs and 7 pseudogenes). Pair-wise genomic synteny comparisons between B38 and the 6 H. pylori sequenced genomes revealed an almost complete co-linearity, never seen before between the genomes of strain Shi470 (a Peruvian isolate) and B38. CONCLUSION: These isolates are deprived of the main H. pylori virulence factors characterized previously, but are nonetheless associated with gastric neoplasia. |
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| domaine : |
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Sciences du Vivant/Biochimie, Biologie Moléculaire/Génomique, Transcriptomique et Protéomique
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langue du texte
intégral : |
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Anglais |
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| ISSN : |
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1471-2164 |
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| type de publication : |
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Articles dans des revues avec comité de lecture |
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| DOI : |
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10.1186/1471-2164-11-368 |
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| journal : |
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| Audience : |
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internationale |
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| date de publication : |
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2010 |
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date de publication
électronique : |
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10/06/2010 |
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| volume : |
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11 |
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| numéro : |
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1 |
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| page, identifiant, ... : |
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368 |
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| Descripteur(s) MeSH : |
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Bacterial Proteins – Cluster Analysis – Duodenal Ulcer – Evolution – Molecular – Gastritis – Gene Expression Profiling – Genome – Bacterial – Genomic Islands – Helicobacter pylori – Humans – Intestinal Diseases – Lymphoma – B-Cell – Marginal Zone – Nucleic Acid Hybridization – Oligonucleotide Array Sequence Analysis – Phylogeny – Species Specificity |
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