{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T13:12:52Z","timestamp":1790860372493,"version":"4.1.0"},"reference-count":43,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"published-print":{"date-parts":[[2010,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>\n              <jats:italic>elicobacter pylori<\/jats:italic> 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.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>A set of 254 <jats:italic>H. pylori<\/jats:italic> genes was used to perform array-based comparative genomic hybridization among 120 French <jats:italic>H. pylori<\/jats:italic> 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 <jats:italic>cag<\/jats:italic> PAI 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 <jats:italic>H. pylori<\/jats:italic> genomes (i.e. J99, 26695, HPAG1, P12, G27 and Shi470). B38 has the smallest <jats:italic>H. pylori<\/jats:italic> genome described thus far (1,576,758 base pairs containing 1,528 CDSs); it contains the <jats:italic>vacA<\/jats:italic> s2m2 allele and lacks the genes encoding the major virulence factors (absence of <jats:italic>cag<\/jats:italic> PAI, <jats:italic>bab<\/jats:italic> B, <jats:italic>bab<\/jats:italic> C, <jats:italic>sab<\/jats:italic> B, and <jats:italic>hom<\/jats:italic> B). 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 <jats:italic>H. pylori<\/jats:italic> sequenced genomes revealed an almost complete co-linearity, never seen before between the genomes of strain Shi470 (a Peruvian isolate) and B38.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusion<\/jats:title>\n            <jats:p>These isolates are deprived of the main <jats:italic>H. pylori<\/jats:italic> virulence factors characterized previously, but are nonetheless associated with gastric neoplasia.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2164-11-368","type":"journal-article","created":{"date-parts":[[2010,6,10]],"date-time":"2010-06-10T18:58:56Z","timestamp":1276196336000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":48,"title":["From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma"],"prefix":"10.1186","volume":"11","author":[{"given":"Jean-Michel","family":"Thiberge","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Caroline","family":"Boursaux-Eude","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philippe","family":"Lehours","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marie-Agn\u00e8s","family":"Dillies","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sophie","family":"Creno","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Yves","family":"Copp\u00e9e","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zo\u00e9","family":"Rouy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aur\u00e9lie","family":"Lajus","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laurence","family":"Ma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christophe","family":"Burucoa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne","family":"Ruskon\u00e9-Foumestraux","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne","family":"Courillon-Mallet","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hilde","family":"De Reuse","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ivo Gomperts","family":"Boneca","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dominique","family":"Lamarque","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Francis","family":"M\u00e9graud","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Charles","family":"Delchier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Claudine","family":"M\u00e9digue","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christiane","family":"Bouchier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Agn\u00e8s","family":"Labigne","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Josette","family":"Raymond","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2010,6,10]]},"reference":[{"key":"2962_CR1","doi-asserted-by":"publisher","first-page":"321","DOI":"10.1172\/JCI20925","volume":"113","author":"MJ Blaser","year":"2004","unstructured":"Blaser MJ, Atherton JC: Helicobacter pylori persistence: biology and disease. J Clin Invest. 2004, 113: 321-333.","journal-title":"J Clin Invest"},{"key":"2962_CR2","doi-asserted-by":"publisher","first-page":"1302","DOI":"10.1136\/bmj.302.6788.1302","volume":"302","author":"D Forman","year":"1991","unstructured":"Forman D, Newell DG, Fullerton F, Yarnell JW, Stacey AR, Wald N, Sitas F: Association between infection with Helicobacter pylori and risk of gastric cancer: evidence from a prospective investigation. BMJ. 1991, 302: 1302-1305. 10.1136\/bmj.302.6788.1302.","journal-title":"BMJ"},{"key":"2962_CR3","doi-asserted-by":"publisher","first-page":"80","DOI":"10.1002\/1097-0142(19830101)51:1<80::AID-CNCR2820510118>3.0.CO;2-0","volume":"51","author":"P Isaacson","year":"1983","unstructured":"Isaacson P, Wright DH, Jones DB: Malignant lymphoma of true histiocytic (monocyte\/macrophage) origin. Cancer. 1983, 51: 80-91. 10.1002\/1097-0142(19830101)51:1<80::AID-CNCR2820510118>3.0.CO;2-0.","journal-title":"Cancer"},{"key":"2962_CR4","doi-asserted-by":"publisher","first-page":"784","DOI":"10.1056\/NEJMoa001999","volume":"345","author":"N Uemura","year":"2001","unstructured":"Uemura N, Okamoto S, Yamamoto S, Matsumura N, Yamaguchi S, Yamakido M, Taniyama K, Sasaki N, Schlemper RJ: Helicobacter pylori infection and the development of gastric cancer. N Engl J Med. 2001, 345: 784-789. 10.1056\/NEJMoa001999.","journal-title":"N Engl J Med"},{"issue":"Suppl 1","key":"2962_CR5","doi-asserted-by":"publisher","first-page":"17","DOI":"10.1046\/j.1523-5378.7.s1.3.x","volume":"7","author":"M Gerhard","year":"2002","unstructured":"Gerhard M, Rad R, Prinz C, Naumann M: Pathogenesis of Helicobacter pylori infection. Helicobacter. 2002, 7 (Suppl 1): 17-23. 10.1046\/j.1523-5378.7.s1.3.x.","journal-title":"Helicobacter"},{"key":"2962_CR6","doi-asserted-by":"publisher","first-page":"297","DOI":"10.1136\/gut.40.3.297","volume":"40","author":"J Parsonnet","year":"1997","unstructured":"Parsonnet J, Friedman GD, Orentreich N, Vogelman H: Risk for gastric cancer in people with CagA positive or CagA negative Helicobacter pylori infection. Gut. 1997, 40: 297-301.","journal-title":"Gut"},{"key":"2962_CR7","doi-asserted-by":"publisher","first-page":"93","DOI":"10.1099\/00222615-26-2-93","volume":"26","author":"RD Leunk","year":"1988","unstructured":"Leunk RD, Johnson PT, David BC, Kraft WG, Morgan DR: Cytotoxic activity in broth-culture filtrates of Campylobacter pylori. J Med Microbiol. 1988, 26: 93-99. 10.1099\/00222615-26-2-93.","journal-title":"J Med Microbiol"},{"key":"2962_CR8","doi-asserted-by":"publisher","first-page":"320","DOI":"10.1038\/nrmicro1095","volume":"3","author":"TL Cover","year":"2005","unstructured":"Cover TL, Blanke SR: Helicobacter pylori VacA, a paradigm for toxin multifunctionality. Nat Rev Microbiol. 2005, 3: 320-332. 10.1038\/nrmicro1095.","journal-title":"Nat Rev Microbiol"},{"key":"2962_CR9","doi-asserted-by":"publisher","first-page":"373","DOI":"10.1126\/science.279.5349.373","volume":"279","author":"D Ilver","year":"1998","unstructured":"Ilver D, Arnqvist A, Ogren J, Frick IM, Kersulyte D, Incecik ET, Berg DE, Covacci A, Engstrand L, Boren T: Helicobacter pylori adhesin binding fucosylated histo-blood group antigens revealed by retagging. Science. 1998, 279: 373-377. 10.1126\/science.279.5349.373.","journal-title":"Science"},{"key":"2962_CR10","doi-asserted-by":"publisher","first-page":"573","DOI":"10.1126\/science.1069076","volume":"297","author":"J Mahdavi","year":"2002","unstructured":"Mahdavi J, Sond\u00e9n B, Hurtig M, Olfat FO, Forsberg L, Roche N, Angstrom J, Larsson T, Teneberg S, Karlsson KA, Altraja S, Wadstr\u00f6m T, Kersulyte D, Berg DE, Dubois A, Petersson C, Magnusson KE, Norberg T, Lindh F, Lundskog BB, Arnqvist A, Hammarstr\u00f6m L, Bor\u00e9n T: Helicobacter pylori SabA adhesin in persistent infection and chronic inflammation. Science. 2002, 297: 573-578. 10.1126\/science.1069076.","journal-title":"Science"},{"key":"2962_CR11","first-page":"869","volume":"22","author":"Y Bai","year":"2002","unstructured":"Bai Y, Zhang YL, Wang JD, Lin HJ, Zhang ZS, Zhou DY: Conservative region of the genes encoding four adhesins of Helicobacter pylori: cloning, sequence analysis and biological information analysis. Di Yi Jun Yi Da Xue Xue Bao. 2002, 22: 869-871.","journal-title":"Di Yi Jun Yi Da Xue Xue Bao"},{"key":"2962_CR12","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1186\/1757-4749-1-12","volume":"1","author":"M Oleastro","year":"2009","unstructured":"Oleastro M, Cordeiro R, Yamaoka Y, Queiroz D, Megraud F, Monteiro L, Menard A: Disease association with two Helicobacter pylori duplicate outer membrane protein genes, homB and homA. Gut Pathog. 2009, 1: 12-10.1186\/1757-4749-1-12.","journal-title":"Gut Pathog"},{"key":"2962_CR13","doi-asserted-by":"publisher","first-page":"700","DOI":"10.1093\/glycob\/cwi049","volume":"15","author":"A Walz","year":"2005","unstructured":"Walz A, Odenbreit S, Mahdavi J, Boren T, Ruhl S: Identification and characterization of binding properties of Helicobacter pylori by glycoconjugate arrays. Glycobiology. 2005, 15: 700-708. 10.1093\/glycob\/cwi049.","journal-title":"Glycobiology"},{"key":"2962_CR14","doi-asserted-by":"publisher","first-page":"16923","DOI":"10.1073\/pnas.0404817101","volume":"101","author":"A Backstrom","year":"2004","unstructured":"Backstrom A, Lundberg C, Kersulyte D, Berg DE, Boren T, Arnqvist A: Metastability of Helicobacter pylori bab adhesin genes and dynamics in Lewis b antigen binding. Proc Natl Acad Sci USA. 2004, 101: 16923-16928. 10.1073\/pnas.0404817101.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR15","doi-asserted-by":"publisher","first-page":"10646","DOI":"10.1073\/pnas.0504927102","volume":"102","author":"AT Franco","year":"2005","unstructured":"Franco AT, Israel DA, Washington MK, Krishna U, Fox JG, Rogers AB, Neish AS, Collier-Hyams L, Perez-Perez GI, Hatakeyama M, Whitehead R, Gaus IC, O'Brien DP, Romero-Gallo J, Peek RM: Activation of beta-catenin by carcinogenic Helicobacter pylori. Proc Natl Acad Sci USA. 2005, 102: 10646-10651. 10.1073\/pnas.0504927102.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR16","doi-asserted-by":"publisher","first-page":"503","DOI":"10.1086\/339016","volume":"185","author":"N Broutet","year":"2002","unstructured":"Broutet N, Moran A, Hynes S, Sakarovitch C, Megraud F: Lewis antigen expression and other pathogenic factors in the presence of atrophic chronic gastritis in a European population. J Infect Dis. 2002, 185: 503-512. 10.1086\/339016.","journal-title":"J Infect Dis"},{"key":"2962_CR17","doi-asserted-by":"publisher","first-page":"36","DOI":"10.1136\/mp.56.1.36","volume":"56","author":"CI Koehler","year":"2003","unstructured":"Koehler CI, Mues MB, Dienes HP, Kriegsmann J, Schirmacher P, Odenthal M: Helicobacter pylori genotyping in gastric adenocarcinoma and MALT lymphoma by multiplex PCR analyses of paraffin wax embedded tissues. Mol Pathol. 2003, 56: 36-42. 10.1136\/mp.56.1.36.","journal-title":"Mol Pathol"},{"key":"2962_CR18","doi-asserted-by":"publisher","first-page":"880","DOI":"10.1128\/IAI.72.2.880-888.2004","volume":"72","author":"P Lehours","year":"2004","unstructured":"Lehours P, Menard A, Dupouy S, Bergey B, Richy F, Zerbib F, Ruskone-Fourmestraux A, Delchier JC, Megraud F: Evaluation of the association of nine Helicobacter pylori virulence factors with strains involved in low-grade gastric mucosa-associated lymphoid tissue lymphoma. Infect Immun. 2004, 72: 880-888. 10.1128\/IAI.72.2.880-888.2004.","journal-title":"Infect Immun"},{"key":"2962_CR19","doi-asserted-by":"publisher","first-page":"e7297","DOI":"10.1371\/journal.pone.0007297","volume":"4","author":"P Lehours","year":"2009","unstructured":"Lehours P, Zheng Z, Skoglund A, Megraud F, Engstrand L: Is there a link between the lipopolysaccharide of Helicobacter pylori gastric MALT lymphoma associated strains and lymphoma pathogenesis?. PLoS One. 2009, 4: e7297-10.1371\/journal.pone.0007297.","journal-title":"PLoS One"},{"key":"2962_CR20","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1038\/41483","volume":"388","author":"JF Tomb","year":"1997","unstructured":"Tomb JF, White O, Kerlavage AR, Clayton RA, Sutton GG, Fleischmann RD, Ketchum KA, Klenk HP, Gill S, Dougherty BA, Nelson K, Quackenbush J, Zhou L, Kirkness EF, Peterson S, Loftus B, Richardson D, Dodson R, Khalak HG, Glodek A, McKenney K, Fitzegerald LM, Lee N, Adams MD, Hickey EK, Berg DE, Gocayne JD, Utterback TR, Peterson JD, Kelley JM: The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature. 1997, 388: 539-547. 10.1038\/41483.","journal-title":"Nature"},{"key":"2962_CR21","doi-asserted-by":"publisher","first-page":"9999","DOI":"10.1073\/pnas.0603784103","volume":"103","author":"JD Oh","year":"2006","unstructured":"Oh JD, Kling-Backhed H, Giannakis M, Xu J, Fulton RS, Fulton LA, Cordum HS, Wang C, Elliott G, Edwards J, Mardis ER, Engstrand LG, Gordon JI: The complete genome sequence of a chronic atrophic gastritis Helicobacter pylori strain: evolution during disease progression. Proc Natl Acad Sci USA. 2006, 103: 9999-10004. 10.1073\/pnas.0603784103.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR22","doi-asserted-by":"publisher","first-page":"447","DOI":"10.1128\/JB.01416-08","volume":"191","author":"DA Baltrus","year":"2009","unstructured":"Baltrus DA, Amieva MR, Covacci A, Lowe TM, Merrell DS, Ottemann KM, Stein M, Salama NR, Guillemin K: The complete genome sequence of Helicobacter pylori strain G27. J Bacteriol. 2009, 191: 447-448. 10.1128\/JB.01416-08.","journal-title":"J Bacteriol"},{"key":"2962_CR23","doi-asserted-by":"publisher","first-page":"14668","DOI":"10.1073\/pnas.97.26.14668","volume":"97","author":"N Salama","year":"2000","unstructured":"Salama N, Guillemin K, McDaniel TK, Sherlock G, Tompkins L, Falkow S: A whole-genome microarray reveals genetic diversity among Helicobacter pylori strains. Proc Natl Acad Sci USA. 2000, 97: 14668-14673. 10.1073\/pnas.97.26.14668.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR24","doi-asserted-by":"publisher","first-page":"e43","DOI":"10.1371\/journal.pgen.0010043","volume":"1","author":"H Gressmann","year":"2005","unstructured":"Gressmann H, Linz B, Ghai R, Pleissner KP, Schlapbach R, Yamaoka Y, Kraft C, Suerbaum S, Meyer TF, Achtman M: Gain and loss of multiple genes during the evolution of Helicobacter pylori. PLoS Genet. 2005, 1: e43-10.1371\/journal.pgen.0010043.","journal-title":"PLoS Genet"},{"key":"2962_CR25","doi-asserted-by":"publisher","first-page":"e2259","DOI":"10.1371\/journal.pone.0002259","volume":"3","author":"J Raymond","year":"2008","unstructured":"Raymond J, Thiberge JM, Kalach N, Bergeret M, Dupont C, Labigne A, Dauga C: Using macro-arrays to study routes of infection of Helicobacter pylori in three families. PLoS One. 2008, 3: e2259-10.1371\/journal.pone.0002259.","journal-title":"PLoS One"},{"key":"2962_CR26","doi-asserted-by":"publisher","first-page":"6573","DOI":"10.1128\/IAI.71.11.6573-6581.2003","volume":"71","author":"C Nilsson","year":"2003","unstructured":"Nilsson C, Sillen A, Eriksson L, Strand ML, Enroth H, Normark S, Falk P, Engstrand L: Correlation between cag pathogenicity island composition and Helicobacter pylori-associated gastroduodenal disease. Infect Immun. 2003, 71: 6573-6581. 10.1128\/IAI.71.11.6573-6581.2003.","journal-title":"Infect Immun"},{"key":"2962_CR27","doi-asserted-by":"publisher","first-page":"6815","DOI":"10.3748\/wjg.v11.i43.6815","volume":"11","author":"M Ali","year":"2005","unstructured":"Ali M, Khan AA, Tiwari SK, Ahmed N, Rao LV, Habibullah CM: Association between cag-pathogenicity island in Helicobacter pylori isolates from peptic ulcer, gastric carcinoma, and non-ulcer dyspepsia subjects with histological changes. World J Gastroenterol. 2005, 11: 6815-6822.","journal-title":"World J Gastroenterol"},{"key":"2962_CR28","doi-asserted-by":"publisher","first-page":"53","DOI":"10.1093\/nar\/gkj406","volume":"34","author":"D Vallenet","year":"2006","unstructured":"Vallenet D, Labarre L, Rouy Z, Barbe V, Bocs S, Cruveiller S, Lajus A, Pascal G, Scarpelli C, Medigue C: MaGe: a microbial genome annotation system supported by synteny results. Nucleic Acids Res. 2006, 34: 53-65. 10.1093\/nar\/gkj406.","journal-title":"Nucleic Acids Res"},{"key":"2962_CR29","doi-asserted-by":"publisher","first-page":"9671","DOI":"10.1073\/pnas.97.17.9671","volume":"97","author":"Q Xu","year":"2000","unstructured":"Xu Q, Morgan RD, Roberts RJ, Blaser MJ: Identification of type II restriction and modification systems in Helicobacter pylori reveals their substantial diversity among strains. Proc Natl Acad Sci USA. 2000, 97: 9671-9676. 10.1073\/pnas.97.17.9671.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR30","doi-asserted-by":"publisher","first-page":"2740","DOI":"10.1073\/pnas.051612298","volume":"98","author":"LF Lin","year":"2001","unstructured":"Lin LF, Posfai J, Roberts RJ, Kong H: Comparative genomics of the restriction-modification systems in Helicobacter pylori. Proc Natl Acad Sci USA. 2001, 98: 2740-2745. 10.1073\/pnas.051612298.","journal-title":"Proc Natl Acad Sci USA"},{"key":"2962_CR31","doi-asserted-by":"publisher","first-page":"7521","DOI":"10.1128\/JB.186.22.7521-7528.2004","volume":"186","author":"D Kersulyte","year":"2004","unstructured":"Kersulyte D, Kalia A, Zhang M, Lee HK, Subramaniam D, Kiuduliene L, Chalkauskas H, Berg DE: Sequence organization and insertion specificity of the novel chimeric ISHp609 transposable element of Helicobacter pylori. J Bacteriol. 2004, 186: 7521-7528. 10.1128\/JB.186.22.7521-7528.2004.","journal-title":"J Bacteriol"},{"key":"2962_CR32","doi-asserted-by":"publisher","first-page":"4375","DOI":"10.1128\/IAI.00485-06","volume":"74","author":"JC Colbeck","year":"2006","unstructured":"Colbeck JC, Hansen LM, Fong JM, Solnick JV: Genotypic profile of the outer membrane proteins BabA and BabB in clinical isolates of Helicobacter pylori. Infect Immun. 2006, 74: 4375-4378. 10.1128\/IAI.00485-06.","journal-title":"Infect Immun"},{"key":"2962_CR33","doi-asserted-by":"publisher","first-page":"834","DOI":"10.1007\/s001099900067","volume":"77","author":"RA Alm","year":"1999","unstructured":"Alm RA, Trust TJ: Analysis of the genetic diversity of Helicobacter pylori: the tale of two genomes. J Mol Med. 1999, 77: 834-846. 10.1007\/s001099900067.","journal-title":"J Mol Med"},{"key":"2962_CR34","doi-asserted-by":"publisher","first-page":"e120","DOI":"10.1371\/journal.pgen.0020120","volume":"2","author":"M Eppinger","year":"2006","unstructured":"Eppinger M, Baar C, Linz B, Raddatz G, Lanz C, Keller H, Morelli G, Gressmann H, Achtman M, Schuster SC: Who ate whom? Adaptive Helicobacter genomic changes that accompanied a host jump from early humans to large felines. PLoS Genet. 2006, 2: e120-10.1371\/journal.pgen.0020120.","journal-title":"PLoS Genet"},{"key":"2962_CR35","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1186\/1471-2164-10-3","volume":"10","author":"MS McClain","year":"2009","unstructured":"McClain MS, Shaffer CL, Israel DA, Peek RM, Cover TL: Genome sequence analysis of Helicobacter pylori strains associated with gastric ulceration and gastric cancer. BMC Genomics. 2009, 10: 3-10.1186\/1471-2164-10-3.","journal-title":"BMC Genomics"},{"key":"2962_CR36","doi-asserted-by":"publisher","first-page":"661","DOI":"10.1016\/0923-2508(96)84023-X","volume":"147","author":"I Kansau","year":"1996","unstructured":"Kansau I, Raymond J, Bingen E, Courcoux P, Kalach N, Bergeret M, Braimi N, Dupont C, Labigne A: Genotyping of Helicobacter pylori isolates by sequencing of PCR products and comparison with the RAPD technique. Res Microbiol. 1996, 147: 661-669. 10.1016\/0923-2508(96)84023-X.","journal-title":"Res Microbiol"},{"key":"2962_CR37","doi-asserted-by":"publisher","first-page":"292","DOI":"10.1111\/j.1572-0241.2002.05460.x","volume":"97","author":"M Levy","year":"2002","unstructured":"Levy M, Copie-Bergman C, Traulle C, Lavergne-Slove A, Brousse N, Flejou JF, de Mascarel A, Hemery F, Gaulard P, Delchier JC: Conservative treatment of primary gastric low-grade B-cell lymphoma of mucosa-associated lymphoid tissue: predictive factors of response and outcome. Am J Gastroenterol. 2002, 97: 292-297. 10.1111\/j.1572-0241.2002.05460.x.","journal-title":"Am J Gastroenterol"},{"key":"2962_CR38","doi-asserted-by":"publisher","first-page":"931","DOI":"10.1136\/gut.2003.028811","volume":"53","author":"P Lehours","year":"2004","unstructured":"Lehours P, Dupouy S, Bergey B, Ruskone-Foumestraux A, Delchier JC, Rad R, Richy F, Tankovic J, Zerbib F, Megraud F, Menard A: Identification of a genetic marker of Helicobacter pylori strains involved in gastric extranodal marginal zone B cell lymphoma of the MALT-type. Gut. 2004, 53: 931-937. 10.1136\/gut.2003.028811.","journal-title":"Gut"},{"key":"2962_CR39","doi-asserted-by":"publisher","first-page":"1816","DOI":"10.3201\/eid1010.040042","volume":"10","author":"J Raymond","year":"2004","unstructured":"Raymond J, Thiberge JM, Chevalier C, Kalach N, Bergeret M, Labigne A, Dauga C: Genetic and transmission analysis of Helicobacter pylori strains within a family. Emerg Infect Dis. 2004, 10: 1816-1821.","journal-title":"Emerg Infect Dis"},{"key":"2962_CR40","doi-asserted-by":"publisher","first-page":"186","DOI":"10.1101\/gr.8.3.186","volume":"8","author":"B Ewing","year":"1998","unstructured":"Ewing B, Green P: Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 1998, 8: 186-194.","journal-title":"Genome Res"},{"key":"2962_CR41","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1101\/gr.8.3.195","volume":"8","author":"D Gordon","year":"1998","unstructured":"Gordon D, Abajian C, Green P: Consed: a graphical tool for sequence finishing. Genome Res. 1998, 8: 195-202.","journal-title":"Genome Res"},{"key":"2962_CR42","doi-asserted-by":"publisher","first-page":"614","DOI":"10.1101\/gr.171401","volume":"11","author":"D Gordon","year":"2001","unstructured":"Gordon D, Desmarais C, Green P: Automated finishing with autofinish. Genome Res. 2001, 11: 614-625. 10.1101\/gr.171401.","journal-title":"Genome Res"},{"key":"2962_CR43","doi-asserted-by":"publisher","first-page":"3723","DOI":"10.1093\/nar\/gkg590","volume":"31","author":"S Bocs","year":"2003","unstructured":"Bocs S, Cruveiller S, Vallenet D, Nuel G, Medigue C: AMIGene: Annotation of MIcrobial Genes. Nucleic Acids Res. 2003, 31: 3723-3726. 10.1093\/nar\/gkg590.","journal-title":"Nucleic Acids Res"}],"container-title":["BMC Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2164-11-368.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T12:45:07Z","timestamp":1630500307000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcgenomics.biomedcentral.com\/articles\/10.1186\/1471-2164-11-368"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,6,10]]},"references-count":43,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2010,12]]}},"alternative-id":["2962"],"URL":"https:\/\/doi.org\/10.1186\/1471-2164-11-368","relation":{},"ISSN":["1471-2164"],"issn-type":[{"value":"1471-2164","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,6,10]]},"assertion":[{"value":"26 February 2010","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 June 2010","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 June 2010","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"368"}}