{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T15:23:51Z","timestamp":1778081031524,"version":"3.51.4"},"reference-count":49,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2023,12,11]],"date-time":"2023-12-11T00:00:00Z","timestamp":1702252800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2023,12,11]],"date-time":"2023-12-11T00:00:00Z","timestamp":1702252800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"DOI":"10.13039\/501100005009","name":"Stiftelsen Assar Gabrielssons Fond","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100005009","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100006285","name":"Magnus Bergvalls Stiftelse","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100006285","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003748","name":"Swedish Society for Medical Research","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100003748","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Nat Commun"],"abstract":"<jats:title>Abstract<\/jats:title><jats:p><jats:italic>Helicobacter pylori<\/jats:italic>, a dominant member of the gastric microbiota, shares co-evolutionary history with humans. This has led to the development of genetically distinct <jats:italic>H. pylori<\/jats:italic> subpopulations associated with the geographic origin of the host and with differential gastric disease risk. Here, we provide insights into <jats:italic>H. pylori<\/jats:italic> population structure as a part of the <jats:italic>Helicobacter pylori<\/jats:italic> Genome Project (<jats:italic>Hp<\/jats:italic>GP), a multi-disciplinary initiative aimed at elucidating <jats:italic>H. pylori<\/jats:italic> pathogenesis and identifying new therapeutic targets. We collected 1011 well-characterized clinical strains from 50 countries and generated high-quality genome sequences. We analysed core genome diversity and population structure of the <jats:italic>Hp<\/jats:italic>GP dataset and 255 worldwide reference genomes to outline the ancestral contribution to Eurasian, African, and American populations. We found evidence of substantial contribution of population hpNorthAsia and subpopulation hspUral in Northern European <jats:italic>H. pylori<\/jats:italic>. The genomes of <jats:italic>H. pylori<\/jats:italic> isolated from northern and southern Indigenous Americans differed in that bacteria isolated in northern Indigenous communities were more similar to North Asian <jats:italic>H. pylori<\/jats:italic> while the southern had higher relatedness to hpEastAsia. Notably, we also found a highly clonal yet geographically dispersed North American subpopulation, which is negative for the <jats:italic>cag<\/jats:italic> pathogenicity island, and present in 7% of sequenced US genomes. We expect the <jats:italic>Hp<\/jats:italic>GP dataset and the corresponding strains to become a major asset for <jats:italic>H. pylori<\/jats:italic> genomics.<\/jats:p>","DOI":"10.1038\/s41467-023-43562-y","type":"journal-article","created":{"date-parts":[[2023,12,11]],"date-time":"2023-12-11T07:02:26Z","timestamp":1702278146000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":60,"title":["The Helicobacter pylori Genome Project: insights into H. pylori population structure from analysis of a worldwide collection of complete genomes"],"prefix":"10.1038","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4447-8968","authenticated-orcid":false,"given":"Kaisa","family":"Thorell","sequence":"first","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8673-0191","authenticated-orcid":false,"given":"Zilia Y.","family":"Mu\u00f1oz-Ram\u00edrez","sequence":"additional","affiliation":[]},{"given":"Difei","family":"Wang","sequence":"additional","affiliation":[]},{"given":"Santiago","family":"Sandoval-Motta","sequence":"additional","affiliation":[]},{"given":"Rajiv","family":"Boscolo Agostini","sequence":"additional","affiliation":[]},{"given":"Silvia","family":"Ghirotto","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6990-9114","authenticated-orcid":false,"given":"Roberto C.","family":"Torres","sequence":"additional","affiliation":[]},{"name":"HpGP Research Network","sequence":"additional","affiliation":[]},{"given":"Judith","family":"Romero-Gallo","sequence":"additional","affiliation":[]},{"given":"Uma","family":"Krishna","sequence":"additional","affiliation":[]},{"suffix":"Jr","given":"Richard M.","family":"Peek","sequence":"additional","affiliation":[]},{"given":"M. Blanca","family":"Piazuelo","sequence":"additional","affiliation":[]},{"given":"Na\u00efma","family":"Raaf","sequence":"additional","affiliation":[]},{"given":"Federico","family":"Bentolila","sequence":"additional","affiliation":[]},{"given":"Hafeza","family":"Aftab","sequence":"additional","affiliation":[]},{"given":"Junko","family":"Akada","sequence":"additional","affiliation":[]},{"given":"Takashi","family":"Matsumoto","sequence":"additional","affiliation":[]},{"given":"Freddy","family":"Haesebrouck","sequence":"additional","affiliation":[]},{"given":"Rony P.","family":"Colanzi","sequence":"additional","affiliation":[]},{"given":"Thais F.","family":"Bartelli","sequence":"additional","affiliation":[]},{"given":"Diana Noronha","family":"Nunes","sequence":"additional","affiliation":[]},{"given":"Adriane","family":"Pelosof","sequence":"additional","affiliation":[]},{"given":"Claudia Zitron","family":"Sztokfisz","sequence":"additional","affiliation":[]},{"given":"Emmanuel","family":"Dias-Neto","sequence":"additional","affiliation":[]},{"given":"Paulo Pimentel","family":"Assump\u00e7\u00e3o","sequence":"additional","affiliation":[]},{"given":"Ivan","family":"Tishkov","sequence":"additional","affiliation":[]},{"given":"Laure Brigitte Kouitcheu","family":"Mabeku","sequence":"additional","affiliation":[]},{"given":"Karen J.","family":"Goodman","sequence":"additional","affiliation":[]},{"given":"Janis","family":"Geary","sequence":"additional","affiliation":[]},{"given":"Taylor J.","family":"Cromarty","sequence":"additional","affiliation":[]},{"given":"Nancy L.","family":"Price","sequence":"additional","affiliation":[]},{"given":"Douglas","family":"Quilty","sequence":"additional","affiliation":[]},{"given":"Alejandro H.","family":"Corvalan","sequence":"additional","affiliation":[]},{"given":"Carolina A.","family":"Serrano","sequence":"additional","affiliation":[]},{"given":"Robinson","family":"Gonzalez","sequence":"additional","affiliation":[]},{"given":"Arnoldo","family":"Riquelme","sequence":"additional","affiliation":[]},{"given":"Apolinaria","family":"Garc\u00eda-Cancino","sequence":"additional","affiliation":[]},{"given":"Cristian","family":"Parra-Sep\u00falveda","sequence":"additional","affiliation":[]},{"given":"Giuliano","family":"Bernal","sequence":"additional","affiliation":[]},{"given":"Francisco","family":"Castillo","sequence":"additional","affiliation":[]},{"given":"Alisa M.","family":"Goldstein","sequence":"additional","affiliation":[]},{"given":"Nan","family":"Hu","sequence":"additional","affiliation":[]},{"given":"Philip R.","family":"Taylor","sequence":"additional","affiliation":[]},{"given":"Maria Mercedes","family":"Bravo","sequence":"additional","affiliation":[]},{"given":"Alvaro","family":"Pazos","sequence":"additional","affiliation":[]},{"given":"Luis E.","family":"Bravo","sequence":"additional","affiliation":[]},{"given":"Keith T.","family":"Wilson","sequence":"additional","affiliation":[]},{"given":"James G.","family":"Fox","sequence":"additional","affiliation":[]},{"given":"Vanessa","family":"Ram\u00edrez-Mayorga","sequence":"additional","affiliation":[]},{"given":"Silvia","family":"Molina-Castro","sequence":"additional","affiliation":[]},{"given":"Sundry","family":"Dur\u00e1n-Berm\u00fadez","sequence":"additional","affiliation":[]},{"given":"Christian","family":"Campos-N\u00fa\u00f1ez","sequence":"additional","affiliation":[]},{"given":"Manuel","family":"Chaves-Cervantes","sequence":"additional","affiliation":[]},{"given":"Evariste","family":"Tshibangu-Kabamba","sequence":"additional","affiliation":[]},{"given":"Ghislain Disashi","family":"Tumba","sequence":"additional","affiliation":[]},{"given":"Antoine","family":"Tshimpi-Wola","sequence":"additional","affiliation":[]},{"given":"Patrick","family":"de Jesus Ngoma-Kisoko","sequence":"additional","affiliation":[]},{"given":"Dieudonn\u00e9 Mumba","family":"Ngoyi","sequence":"additional","affiliation":[]},{"given":"Modesto","family":"Cruz","sequence":"additional","affiliation":[]},{"given":"Celso","family":"Hosking","sequence":"additional","affiliation":[]},{"given":"Jos\u00e9 Jim\u00e9nez","family":"Abreu","sequence":"additional","affiliation":[]},{"given":"Christine","family":"Varon","sequence":"additional","affiliation":[]},{"given":"Lucie","family":"Benejat","sequence":"additional","affiliation":[]},{"given":"Ousman","family":"Secka","sequence":"additional","affiliation":[]},{"given":"Alexander","family":"Link","sequence":"additional","affiliation":[]},{"given":"Peter","family":"Malfertheiner","sequence":"additional","affiliation":[]},{"given":"Michael Buenor","family":"Adinortey","sequence":"additional","affiliation":[]},{"given":"Ansumana Sandy","family":"Bockarie","sequence":"additional","affiliation":[]},{"given":"Cynthia Ayefoumi","family":"Adinortey","sequence":"additional","affiliation":[]},{"given":"Eric Gyamerah","family":"Ofori","sequence":"additional","affiliation":[]},{"given":"Dionyssios N.","family":"Sgouras","sequence":"additional","affiliation":[]},{"given":"Beatriz","family":"Martinez-Gonzalez","sequence":"additional","affiliation":[]},{"given":"Spyridon","family":"Michopoulos","sequence":"additional","affiliation":[]},{"given":"Sotirios","family":"Georgopoulos","sequence":"additional","affiliation":[]},{"given":"Elisa","family":"Hernandez","sequence":"additional","affiliation":[]},{"given":"Braulio Volga","family":"Tacatic","sequence":"additional","affiliation":[]},{"given":"Mynor","family":"Aguilar","sequence":"additional","affiliation":[]},{"given":"Ricardo L.","family":"Dominguez","sequence":"additional","affiliation":[]},{"given":"Douglas R.","family":"Morgan","sequence":"additional","affiliation":[]},{"given":"Hj\u00f6rd\u00eds","family":"Har\u00f0ard\u00f3ttir","sequence":"additional","affiliation":[]},{"given":"Anna Ingibj\u00f6rg","family":"Gunnarsd\u00f3ttir","sequence":"additional","affiliation":[]},{"given":"Hallgr\u00edmur","family":"Gu\u00f0j\u00f3nsson","sequence":"additional","affiliation":[]},{"given":"J\u00f3n Gunnlaugur","family":"J\u00f3nasson","sequence":"additional","affiliation":[]},{"given":"Einar S.","family":"Bj\u00f6rnsson","sequence":"additional","affiliation":[]},{"given":"Mamatha","family":"Ballal","sequence":"additional","affiliation":[]},{"given":"Vignesh","family":"Shetty","sequence":"additional","affiliation":[]},{"given":"Muhammad","family":"Miftahussurur","sequence":"additional","affiliation":[]},{"given":"Titong","family":"Sugihartono","sequence":"additional","affiliation":[]},{"given":"Ricky Indra","family":"Alfaray","sequence":"additional","affiliation":[]},{"given":"Langgeng Agung","family":"Waskito","sequence":"additional","affiliation":[]},{"given":"Kartika Afrida","family":"Fauzia","sequence":"additional","affiliation":[]},{"given":"Ari Fahrial","family":"Syam","sequence":"additional","affiliation":[]},{"given":"Hasan","family":"Maulahela","sequence":"additional","affiliation":[]},{"given":"Reza","family":"Malekzadeh","sequence":"additional","affiliation":[]},{"given":"Masoud","family":"Sotoudeh","sequence":"additional","affiliation":[]},{"given":"Avi","family":"Peretz","sequence":"additional","affiliation":[]},{"given":"Maya","family":"Azrad","sequence":"additional","affiliation":[]},{"given":"Avi","family":"On","sequence":"additional","affiliation":[]},{"given":"Valli","family":"De Re","sequence":"additional","affiliation":[]},{"given":"Stefania","family":"Zanussi","sequence":"additional","affiliation":[]},{"given":"Renato","family":"Cannizzaro","sequence":"additional","affiliation":[]},{"given":"Vincenzo","family":"Canzonieri","sequence":"additional","affiliation":[]},{"given":"Takaya","family":"Shimura","sequence":"additional","affiliation":[]},{"given":"Kengo","family":"Tokunaga","sequence":"additional","affiliation":[]},{"given":"Takako","family":"Osaki","sequence":"additional","affiliation":[]},{"given":"Shigeru","family":"Kamiya","sequence":"additional","affiliation":[]},{"given":"Khaled","family":"Jadallah","sequence":"additional","affiliation":[]},{"given":"Ismail","family":"Matalka","sequence":"additional","affiliation":[]},{"given":"Nurbek","family":"Igissinov","sequence":"additional","affiliation":[]},{"given":"Mariia Satarovna","family":"Moldobaeva","sequence":"additional","affiliation":[]},{"given":"Attokurova","family":"Rakhat","sequence":"additional","affiliation":[]},{"given":"Il Ju","family":"Choi","sequence":"additional","affiliation":[]},{"given":"Jae Gyu","family":"Kim","sequence":"additional","affiliation":[]},{"given":"Nayoung","family":"Kim","sequence":"additional","affiliation":[]},{"given":"Minkyo","family":"Song","sequence":"additional","affiliation":[]},{"given":"M\u0101rcis","family":"Leja","sequence":"additional","affiliation":[]},{"given":"Reinis","family":"Vangravs","sequence":"additional","affiliation":[]},{"given":"\u0122irts","family":"\u0160\u0137enders","sequence":"additional","affiliation":[]},{"given":"Dace","family":"Rudz\u012bte","sequence":"additional","affiliation":[]},{"given":"Aiga","family":"R\u016bdule","sequence":"additional","affiliation":[]},{"given":"Aigars","family":"Vanags","sequence":"additional","affiliation":[]},{"given":"Ilze","family":"Kikuste","sequence":"additional","affiliation":[]},{"given":"Juozas","family":"Kupcinskas","sequence":"additional","affiliation":[]},{"given":"Jurgita","family":"Skieceviciene","sequence":"additional","affiliation":[]},{"given":"Laimas","family":"Jonaitis","sequence":"additional","affiliation":[]},{"given":"Gediminas","family":"Kiudelis","sequence":"additional","affiliation":[]},{"given":"Paulius","family":"Jonaitis","sequence":"additional","affiliation":[]},{"given":"Vytautas","family":"Kiudelis","sequence":"additional","affiliation":[]},{"given":"Greta","family":"Varkalaite","sequence":"additional","affiliation":[]},{"given":"Jamuna","family":"Vadivelu","sequence":"additional","affiliation":[]},{"given":"Mun Fai","family":"Loke","sequence":"additional","affiliation":[]},{"given":"Kumutha Malar","family":"Vellasamy","sequence":"additional","affiliation":[]},{"given":"Roberto","family":"Herrera-Goepfert","sequence":"additional","affiliation":[]},{"given":"Juan Octavio","family":"Alonso-Larraga","sequence":"additional","affiliation":[]},{"given":"Than Than","family":"Yee","sequence":"additional","affiliation":[]},{"given":"Kyaw","family":"Htet","sequence":"additional","affiliation":[]},{"given":"Takeshi","family":"Matsuhisa","sequence":"additional","affiliation":[]},{"given":"Pradeep Krishna","family":"Shrestha","sequence":"additional","affiliation":[]},{"given":"Shamshul","family":"Ansari","sequence":"additional","affiliation":[]},{"given":"Olumide","family":"Abiodun","sequence":"additional","affiliation":[]},{"given":"Christopher","family":"Jemilohun","sequence":"additional","affiliation":[]},{"given":"Kolawole Oluseyi","family":"Akande","sequence":"additional","affiliation":[]},{"given":"Oluwatosin","family":"Olu-Abiodun","sequence":"additional","affiliation":[]},{"given":"Francis Ajang","family":"Magaji","sequence":"additional","affiliation":[]},{"given":"Ayodele","family":"Omotoso","sequence":"additional","affiliation":[]},{"given":"Chukwuemeka Chukwunwendu","family":"Osuagwu","sequence":"additional","affiliation":[]},{"given":"Uchenna","family":"Okonkwo","sequence":"additional","affiliation":[]},{"given":"Opeyemi O.","family":"Owoseni","sequence":"additional","affiliation":[]},{"given":"Carlos","family":"Castaneda","sequence":"additional","affiliation":[]},{"given":"Miluska","family":"Castillo","sequence":"additional","affiliation":[]},{"given":"Billie","family":"Velapatino","sequence":"additional","affiliation":[]},{"given":"Robert H.","family":"Gilman","sequence":"additional","affiliation":[]},{"given":"Pawe\u0142","family":"Krzy\u017cek","sequence":"additional","affiliation":[]},{"given":"Gra\u017cyna","family":"Go\u015bciniak","sequence":"additional","affiliation":[]},{"given":"Dorota","family":"Pawe\u0142ka","sequence":"additional","affiliation":[]},{"given":"Izabela","family":"Korona-Glowniak","sequence":"additional","affiliation":[]},{"given":"Halina","family":"Cichoz-Lach","sequence":"additional","affiliation":[]},{"given":"Monica","family":"Oleastro","sequence":"additional","affiliation":[]},{"given":"Ceu","family":"Figueiredo","sequence":"additional","affiliation":[]},{"given":"Jose C.","family":"Machado","sequence":"additional","affiliation":[]},{"given":"Rui M.","family":"Ferreira","sequence":"additional","affiliation":[]},{"given":"Dmitry S.","family":"Bordin","sequence":"additional","affiliation":[]},{"given":"Maria A.","family":"Livzan","sequence":"additional","affiliation":[]},{"given":"Vladislav V.","family":"Tsukanov","sequence":"additional","affiliation":[]},{"given":"Patrick","family":"Tan","sequence":"additional","affiliation":[]},{"given":"Khay Guan","family":"Yeoh","sequence":"additional","affiliation":[]},{"given":"Feng","family":"Zhu","sequence":"additional","affiliation":[]},{"given":"Reid","family":"Ally","sequence":"additional","affiliation":[]},{"given":"Rainer","family":"Haas","sequence":"additional","affiliation":[]},{"given":"Milagrosa","family":"Montes","sequence":"additional","affiliation":[]},{"given":"Mar\u00eda","family":"Fern\u00e1ndez-Reyes","sequence":"additional","affiliation":[]},{"given":"Esther","family":"Tamayo","sequence":"additional","affiliation":[]},{"given":"Jacobo","family":"Lizasoain","sequence":"additional","affiliation":[]},{"given":"Luis","family":"Bujanda","sequence":"additional","affiliation":[]},{"given":"Sergio","family":"Lario","sequence":"additional","affiliation":[]},{"given":"Mar\u00eda Jos\u00e9","family":"Ram\u00edrez-L\u00e1zaro","sequence":"additional","affiliation":[]},{"given":"Xavier","family":"Calvet","sequence":"additional","affiliation":[]},{"given":"Eduard","family":"Brunet-Mas","sequence":"additional","affiliation":[]},{"given":"Mar\u00eda Jos\u00e9","family":"Domper-Arnal","sequence":"additional","affiliation":[]},{"given":"Sandra","family":"Garc\u00eda-Mateo","sequence":"additional","affiliation":[]},{"given":"Daniel","family":"Abad-Baroja","sequence":"additional","affiliation":[]},{"given":"Pedro","family":"Delgado-Guillena","sequence":"additional","affiliation":[]},{"given":"Leticia","family":"Moreira","sequence":"additional","affiliation":[]},{"given":"Josep","family":"Botargues","sequence":"additional","affiliation":[]},{"given":"Isabel","family":"P\u00e9rez-Mart\u00ednez","sequence":"additional","affiliation":[]},{"given":"Eva","family":"Barreiro-Alonso","sequence":"additional","affiliation":[]},{"given":"Virginia","family":"Flores","sequence":"additional","affiliation":[]},{"given":"Javier P.","family":"Gisbert","sequence":"additional","affiliation":[]},{"given":"Edurne Amorena","family":"Muro","sequence":"additional","affiliation":[]},{"given":"Pedro","family":"Linares","sequence":"additional","affiliation":[]},{"given":"Vicente","family":"Martin","sequence":"additional","affiliation":[]},{"given":"Laura","family":"Alcoba","sequence":"additional","affiliation":[]},{"given":"Tania","family":"Fleitas-Kanonnikoff","sequence":"additional","affiliation":[]},{"given":"Hisham N.","family":"Altayeb","sequence":"additional","affiliation":[]},{"given":"Lars","family":"Engstrand","sequence":"additional","affiliation":[]},{"given":"Helena","family":"Enroth","sequence":"additional","affiliation":[]},{"given":"Peter M.","family":"Keller","sequence":"additional","affiliation":[]},{"given":"Karoline","family":"Wagner","sequence":"additional","affiliation":[]},{"given":"Daniel","family":"Pohl","sequence":"additional","affiliation":[]},{"given":"Yi-Chia","family":"Lee","sequence":"additional","affiliation":[]},{"given":"Jyh-Ming","family":"Liou","sequence":"additional","affiliation":[]},{"given":"Ming-Shiang","family":"Wu","sequence":"additional","affiliation":[]},{"given":"Bekir","family":"Kocazeybek","sequence":"additional","affiliation":[]},{"given":"Suat","family":"Sar\u0131bas","sequence":"additional","affiliation":[]},{"given":"\u0130hsan","family":"Tas\u00e7\u0131","sequence":"additional","affiliation":[]},{"given":"S\u00fcleyman","family":"Demiryas","sequence":"additional","affiliation":[]},{"given":"Nuray","family":"Kepil","sequence":"additional","affiliation":[]},{"given":"Luis","family":"Quiel","sequence":"additional","affiliation":[]},{"given":"Miguel","family":"Villagra","sequence":"additional","affiliation":[]},{"given":"Morgan","family":"Norton","sequence":"additional","affiliation":[]},{"given":"Deborah","family":"Johnson","sequence":"additional","affiliation":[]},{"given":"Robert J.","family":"Huang","sequence":"additional","affiliation":[]},{"given":"Joo Ha","family":"Hwang","sequence":"additional","affiliation":[]},{"given":"Wendy","family":"Szymczak","sequence":"additional","affiliation":[]},{"given":"Saranathan","family":"Rajagopalan","sequence":"additional","affiliation":[]},{"given":"Emmanuel","family":"Asare","sequence":"additional","affiliation":[]},{"given":"William R.","family":"Jacobs","sequence":"additional","affiliation":[]},{"given":"Haejin","family":"In","sequence":"additional","affiliation":[]},{"given":"Roni","family":"Bollag","sequence":"additional","affiliation":[]},{"given":"Aileen","family":"Lopez","sequence":"additional","affiliation":[]},{"given":"Edward J.","family":"Kruse","sequence":"additional","affiliation":[]},{"given":"Joseph","family":"White","sequence":"additional","affiliation":[]},{"given":"David Y.","family":"Graham","sequence":"additional","affiliation":[]},{"given":"Charlotte","family":"Lane","sequence":"additional","affiliation":[]},{"given":"Yang","family":"Gao","sequence":"additional","affiliation":[]},{"given":"Patricia I.","family":"Fields","sequence":"additional","affiliation":[]},{"given":"Benjamin D.","family":"Gold","sequence":"additional","affiliation":[]},{"given":"Marcia","family":"Cruz-Correa","sequence":"additional","affiliation":[]},{"given":"Mar\u00eda","family":"Gonz\u00e1lez-Pons","sequence":"additional","affiliation":[]},{"given":"Luz M.","family":"Rodriguez","sequence":"additional","affiliation":[]},{"given":"Vo Phuoc","family":"Tuan","sequence":"additional","affiliation":[]},{"given":"Ho Dang Quy","family":"Dung","sequence":"additional","affiliation":[]},{"given":"Tran Thanh","family":"Binh","sequence":"additional","affiliation":[]},{"given":"Tran Thi Huyen","family":"Trang","sequence":"additional","affiliation":[]},{"given":"Vu","family":"Van Khien","sequence":"additional","affiliation":[]},{"given":"Xiongfong","family":"Chen","sequence":"additional","affiliation":[]},{"given":"Castle","family":"Raley","sequence":"additional","affiliation":[]},{"given":"Bailey","family":"Kessing","sequence":"additional","affiliation":[]},{"given":"Yongmei","family":"Zhao","sequence":"additional","affiliation":[]},{"given":"Bao","family":"Tran","sequence":"additional","affiliation":[]},{"given":"Andr\u00e9s J.","family":"Guti\u00e9rrez-Escobar","sequence":"additional","affiliation":[]},{"given":"Yunhu","family":"Wan","sequence":"additional","affiliation":[]},{"given":"Belynda","family":"Hicks","sequence":"additional","affiliation":[]},{"given":"Bin","family":"Zhu","sequence":"additional","affiliation":[]},{"given":"Kai","family":"Yu","sequence":"additional","affiliation":[]},{"given":"Bin","family":"Zhu","sequence":"additional","affiliation":[]},{"given":"Meredith","family":"Yeager","sequence":"additional","affiliation":[]},{"given":"Amy","family":"Hutchinson","sequence":"additional","affiliation":[]},{"given":"Kedest","family":"Teshome","sequence":"additional","affiliation":[]},{"given":"Kristie","family":"Jones","sequence":"additional","affiliation":[]},{"given":"Wen","family":"Luo","sequence":"additional","affiliation":[]},{"given":"Quentin","family":"Jehanne","sequence":"additional","affiliation":[]},{"given":"Yukako","family":"Katsura","sequence":"additional","affiliation":[]},{"given":"Patricio","family":"Gonzalez-Hormazabal","sequence":"additional","affiliation":[]},{"given":"Xavier","family":"Didelot","sequence":"additional","affiliation":[]},{"given":"Sam","family":"Sheppard","sequence":"additional","affiliation":[]},{"given":"Eduardo","family":"Tarazona-Santos","sequence":"additional","affiliation":[]},{"given":"Leonardo","family":"Mari\u00f1o-Ram\u00edrez","sequence":"additional","affiliation":[]},{"given":"John T.","family":"Loh","sequence":"additional","affiliation":[]},{"given":"Steffen","family":"Backert","sequence":"additional","affiliation":[]},{"given":"Michael","family":"Naumann","sequence":"additional","affiliation":[]},{"given":"Christian C.","family":"Abnet","sequence":"additional","affiliation":[]},{"given":"Annemieke","family":"Smet","sequence":"additional","affiliation":[]},{"given":"Douglas E.","family":"Berg","sequence":"additional","affiliation":[]},{"given":"\u00c1lvaro","family":"Chiner-Oms","sequence":"additional","affiliation":[]},{"given":"I\u00f1aki","family":"Comas","sequence":"additional","affiliation":[]},{"given":"Francisco Jos\u00e9","family":"Mart\u00ednez-Mart\u00ednez","sequence":"additional","affiliation":[]},{"given":"Roxana","family":"Zamudio","sequence":"additional","affiliation":[]},{"given":"Philippe","family":"Lehours","sequence":"additional","affiliation":[]},{"given":"Francis","family":"Megraud","sequence":"additional","affiliation":[]},{"given":"Koji","family":"Yahara","sequence":"additional","affiliation":[]},{"given":"Martin J.","family":"Blaser","sequence":"additional","affiliation":[]},{"given":"Tamas","family":"Vincze","sequence":"additional","affiliation":[]},{"given":"Richard D.","family":"Morgan","sequence":"additional","affiliation":[]},{"given":"Richard J.","family":"Roberts","sequence":"additional","affiliation":[]},{"given":"Stephen J.","family":"Chanock","sequence":"additional","affiliation":[]},{"given":"John P.","family":"Dekker","sequence":"additional","affiliation":[]},{"given":"Javier","family":"Torres","sequence":"additional","affiliation":[]},{"given":"Timothy L.","family":"Cover","sequence":"additional","affiliation":[]},{"given":"Mehwish","family":"Noureen","sequence":"additional","affiliation":[]},{"given":"Wolfgang","family":"Fischer","sequence":"additional","affiliation":[]},{"given":"Filipa F.","family":"Vale","sequence":"additional","affiliation":[]},{"given":"Joshua L.","family":"Cherry","sequence":"additional","affiliation":[]},{"given":"Naoki","family":"Osada","sequence":"additional","affiliation":[]},{"given":"Masaki","family":"Fukuyo","sequence":"additional","affiliation":[]},{"given":"Masanori","family":"Arita","sequence":"additional","affiliation":[]},{"given":"Yoshio","family":"Yamaoka","sequence":"additional","affiliation":[]},{"given":"Ichizo","family":"Kobayashi","sequence":"additional","affiliation":[]},{"given":"Ikuo","family":"Uchiyama","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2956-0795","authenticated-orcid":false,"given":"Daniel","family":"Falush","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1065-2198","authenticated-orcid":false,"given":"M. Constanza","family":"Camargo","sequence":"additional","affiliation":[]},{"given":"Charles S.","family":"Rabkin","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2023,12,11]]},"reference":[{"key":"43562_CR1","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1172\/JCI30111","volume":"117","author":"JG Fox","year":"2007","unstructured":"Fox, J. G. & Wang, T. C. Inflammation, atrophy, and gastric cancer. J. Clin. Investig. 117, 60\u201369 (2007).","journal-title":"J. Clin. Investig."},{"key":"43562_CR2","doi-asserted-by":"publisher","first-page":"5","DOI":"10.3892\/ijo.2012.1701","volume":"42","author":"V Conteduca","year":"2013","unstructured":"Conteduca, V. et al. H. pylori infection and gastric cancer: state of the art (review). Int. J. Oncol. 42, 5\u201318 (2013).","journal-title":"Int. J. Oncol."},{"key":"43562_CR3","doi-asserted-by":"publisher","first-page":"1582","DOI":"10.1126\/science.1080857","volume":"299","author":"D Falush","year":"2003","unstructured":"Falush, D. et al. Traces of human migrations in Helicobacter pylori populations. Science 299, 1582\u20131585 (2003).","journal-title":"Science"},{"key":"43562_CR4","doi-asserted-by":"publisher","first-page":"915","DOI":"10.1038\/nature05562","volume":"445","author":"B Linz","year":"2007","unstructured":"Linz, B. et al. An African origin for the intimate association between humans and Helicobacter pylori. Nature 445, 915\u2013918 (2007).","journal-title":"Nature"},{"key":"43562_CR5","doi-asserted-by":"publisher","first-page":"e1002693","DOI":"10.1371\/journal.ppat.1002693","volume":"8","author":"Y Moodley","year":"2012","unstructured":"Moodley, Y. et al. Age of the association between Helicobacter pylori and man. PLoS Pathog. 8, e1002693 (2012).","journal-title":"PLoS Pathog."},{"key":"43562_CR6","doi-asserted-by":"publisher","first-page":"829","DOI":"10.1111\/j.1469-0691.2009.02967.x","volume":"15","author":"Y Yamaoka","year":"2009","unstructured":"Yamaoka, Y. Helicobacter pylori typing as a tool for tracking human migration. Clin. Microbiol. Infect. 15, 829\u2013834 (2009).","journal-title":"Clin. Microbiol. Infect."},{"key":"43562_CR7","doi-asserted-by":"publisher","first-page":"209","DOI":"10.3322\/caac.21660","volume":"71","author":"H Sung","year":"2021","unstructured":"Sung, H. et al. Global Cancer Statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J. Clin. 71, 209\u2013249 (2021).","journal-title":"CA Cancer J. Clin."},{"key":"43562_CR8","doi-asserted-by":"publisher","first-page":"78","DOI":"10.1038\/s41396-020-00758-0","volume":"15","author":"ZY Munoz-Ramirez","year":"2021","unstructured":"Munoz-Ramirez, Z. Y. et al. A 500-year tale of co-evolution, adaptation, and virulence: Helicobacter pylori in the Americas. ISME J. 15, 78\u201392 (2021).","journal-title":"ISME J."},{"key":"43562_CR9","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2156-11-94","volume":"11","author":"T Jombart","year":"2010","unstructured":"Jombart, T., Devillard, S. & Balloux, F. Discriminant analysis of principal components: a new method for the analysis of genetically structured populations. BMC Genet 11, 94 (2010).","journal-title":"BMC Genet"},{"key":"43562_CR10","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-34475-3","volume":"13","author":"HA Thorpe","year":"2022","unstructured":"Thorpe, H. A. et al. Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations. Nat. Commun. 13, 6842 (2022).","journal-title":"Nat. Commun."},{"key":"43562_CR11","doi-asserted-by":"publisher","first-page":"e1006546","DOI":"10.1371\/journal.pgen.1006546","volume":"13","author":"K Thorell","year":"2017","unstructured":"Thorell, K. et al. Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas. PLoS Genet. 13, e1006546 (2017).","journal-title":"PLoS Genet."},{"key":"43562_CR12","doi-asserted-by":"publisher","DOI":"10.1186\/s12915-018-0550-3","volume":"16","author":"E Berthenet","year":"2018","unstructured":"Berthenet, E. et al. A GWAS on Helicobacter pylori strains points to genetic variants associated with gastric cancer risk. BMC Biol. 16, 84 (2018).","journal-title":"BMC Biol."},{"key":"43562_CR13","doi-asserted-by":"publisher","unstructured":"You, Y. et al. Genomic differentiation within East Asian Helicobacter pylori. Microb. Genom. https:\/\/doi.org\/10.1099\/mgen.0.000676 (2022).","DOI":"10.1099\/mgen.0.000676"},{"key":"43562_CR14","doi-asserted-by":"publisher","unstructured":"Moodley, Y. et al. Helicobacter pylori\u2019s historical journey through Siberia and the Americas. Proc. Natl Acad. Sci. USA. https:\/\/doi.org\/10.1073\/pnas.2015523118 (2021).","DOI":"10.1073\/pnas.2015523118"},{"key":"43562_CR15","doi-asserted-by":"publisher","first-page":"104477","DOI":"10.1016\/j.isci.2022.104477","volume":"25","author":"R Suzuki","year":"2022","unstructured":"Suzuki, R. et al. Helicobacter pylori genomes reveal Paleolithic human migration to the east end of Asia. iScience 25, 104477 (2022).","journal-title":"iScience"},{"key":"43562_CR16","doi-asserted-by":"publisher","first-page":"13880","DOI":"10.1073\/pnas.1304681110","volume":"110","author":"X Didelot","year":"2013","unstructured":"Didelot, X. et al. Genomic evolution and transmission of Helicobacter pylori in two South African families. Proc. Natl Acad. Sci. USA. 110, 13880\u201313885 (2013).","journal-title":"Proc. Natl Acad. Sci. USA."},{"key":"43562_CR17","doi-asserted-by":"publisher","first-page":"62","DOI":"10.1159\/000235763","volume":"6","author":"Y Moodley","year":"2009","unstructured":"Moodley, Y. & Linz, B. Helicobacter pylori sequences reflect past human migrations. Genome Dyn. 6, 62\u201374 (2009).","journal-title":"Genome Dyn."},{"key":"43562_CR18","doi-asserted-by":"publisher","unstructured":"Kumar, N., Albert, M. J., Al Abkal, H., Siddique, I. & Ahmed, N. What constitutes an Arabian Helicobacter pylori? Lessons from comparative genomics. Helicobacter. https:\/\/doi.org\/10.1111\/hel.12323 (2017).","DOI":"10.1111\/hel.12323"},{"key":"43562_CR19","doi-asserted-by":"publisher","first-page":"324","DOI":"10.1093\/nar\/gku1271","volume":"43","author":"N Kumar","year":"2015","unstructured":"Kumar, N. et al. Comparative genomic analysis of Helicobacter pylori from Malaysia identifies three distinct lineages suggestive of differential evolution. Nucleic Acids Res. 43, 324\u2013335 (2015).","journal-title":"Nucleic Acids Res."},{"key":"43562_CR20","doi-asserted-by":"publisher","unstructured":"Oleastro, M., Rocha, R. & Vale, F. F. Population genetic structure of Helicobacter pylori strains from Portuguese-speaking countries. Helicobacter. https:\/\/doi.org\/10.1111\/hel.12382 (2017).","DOI":"10.1111\/hel.12382"},{"key":"43562_CR21","doi-asserted-by":"publisher","first-page":"553","DOI":"10.1016\/S2468-1253(23)00070-5","volume":"8","author":"Y Li","year":"2023","unstructured":"Li, Y. et al. Global prevalence of Helicobacter pylori infection between 1980 and 2022: a systematic review and meta-analysis. Lancet Gastroenterol. Hepatol. 8, 553\u2013564 (2023).","journal-title":"Lancet Gastroenterol. Hepatol."},{"key":"43562_CR22","doi-asserted-by":"publisher","first-page":"1327","DOI":"10.1093\/ije\/dym201","volume":"36","author":"AC Ford","year":"2007","unstructured":"Ford, A. C. et al. Effect of sibling number in the household and birth order on prevalence of Helicobacter pylori: a cross-sectional study. Int. J. Epidemiol. 36, 1327\u20131333 (2007).","journal-title":"Int. J. Epidemiol."},{"key":"43562_CR23","doi-asserted-by":"publisher","first-page":"358","DOI":"10.1016\/S0140-6736(99)05273-3","volume":"355","author":"KJ Goodman","year":"2000","unstructured":"Goodman, K. J. & Correa, P. Transmission of Helicobacter pylori among siblings. Lancet 355, 358\u2013362 (2000).","journal-title":"Lancet"},{"key":"43562_CR24","doi-asserted-by":"publisher","first-page":"170","DOI":"10.1038\/s41592-020-01056-5","volume":"18","author":"H Cheng","year":"2021","unstructured":"Cheng, H., Concepcion, G. T., Feng, X., Zhang, H. & Li, H. Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm. Nat. Methods 18, 170\u2013175 (2021).","journal-title":"Nat. Methods"},{"key":"43562_CR25","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-015-0849-0","volume":"16","author":"M Hunt","year":"2015","unstructured":"Hunt, M. et al. Circlator: automated circularization of genome assemblies using long sequencing reads. Genome Biol. 16, 294 (2015).","journal-title":"Genome Biol."},{"key":"43562_CR26","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2004-5-2-r12","volume":"5","author":"S Kurtz","year":"2004","unstructured":"Kurtz, S. et al. Versatile and open software for comparing large genomes. Genome Biol. 5, R12 (2004).","journal-title":"Genome Biol."},{"key":"43562_CR27","doi-asserted-by":"publisher","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","volume":"30","author":"T Seemann","year":"2014","unstructured":"Seemann, T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30, 2068\u20132069 (2014).","journal-title":"Bioinformatics"},{"key":"43562_CR28","doi-asserted-by":"publisher","first-page":"4647","DOI":"10.1093\/molbev\/msab199","volume":"38","author":"M Manni","year":"2021","unstructured":"Manni, M., Berkeley, M. R., Seppey, M., Simao, F. A. & Zdobnov, E. M. BUSCO Update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes. Mol. Biol. Evol. 38, 4647\u20134654 (2021).","journal-title":"Mol. Biol. Evol."},{"key":"43562_CR29","doi-asserted-by":"publisher","first-page":"D1020","DOI":"10.1093\/nar\/gkaa1105","volume":"49","author":"W Li","year":"2021","unstructured":"Li, W. et al. RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation. Nucleic Acids Res. 49, D1020\u2013D1028 (2021).","journal-title":"Nucleic Acids Res."},{"key":"43562_CR30","doi-asserted-by":"publisher","first-page":"D851","DOI":"10.1093\/nar\/gkx1068","volume":"46","author":"DH Haft","year":"2018","unstructured":"Haft, D. H. et al. RefSeq: an update on prokaryotic genome annotation and curation. Nucleic Acids Res. 46, D851\u2013D860 (2018).","journal-title":"Nucleic Acids Res."},{"key":"43562_CR31","doi-asserted-by":"publisher","first-page":"6614","DOI":"10.1093\/nar\/gkw569","volume":"44","author":"T Tatusova","year":"2016","unstructured":"Tatusova, T. et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 44, 6614\u20136624 (2016).","journal-title":"Nucleic Acids Res."},{"key":"43562_CR32","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-020-02090-4","volume":"21","author":"G Tonkin-Hill","year":"2020","unstructured":"Tonkin-Hill, G. et al. Producing polished prokaryotic pangenomes with the Panaroo pipeline. Genome Biol. 21, 180 (2020).","journal-title":"Genome Biol."},{"key":"43562_CR33","doi-asserted-by":"publisher","first-page":"1593","DOI":"10.1093\/molbev\/msu082","volume":"31","author":"K Yahara","year":"2014","unstructured":"Yahara, K., Didelot, X., Ansari, M. A., Sheppard, S. K. & Falush, D. Efficient inference of recombination hot regions in bacterial genomes. Mol. Biol. Evol. 31, 1593\u20131605 (2014).","journal-title":"Mol. Biol. Evol."},{"key":"43562_CR34","doi-asserted-by":"publisher","first-page":"210","DOI":"10.1016\/j.ajhg.2009.01.005","volume":"84","author":"BL Browning","year":"2009","unstructured":"Browning, B. L. & Browning, S. R. A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. Am. J. Hum. Genet. 84, 210\u2013223 (2009).","journal-title":"Am. J. Hum. Genet."},{"key":"43562_CR35","doi-asserted-by":"publisher","first-page":"e1002453","DOI":"10.1371\/journal.pgen.1002453","volume":"8","author":"DJ Lawson","year":"2012","unstructured":"Lawson, D. J., Hellenthal, G., Myers, S. & Falush, D. Inference of population structure using dense haplotype data. PLoS Genet. 8, e1002453 (2012).","journal-title":"PLoS Genet."},{"key":"43562_CR36","doi-asserted-by":"publisher","first-page":"1454","DOI":"10.1093\/molbev\/mst055","volume":"30","author":"K Yahara","year":"2013","unstructured":"Yahara, K. et al. Chromosome painting in silico in a bacterial species reveals fine population structure. Mol. Biol. Evol. 30, 1454\u20131464 (2013).","journal-title":"Mol. Biol. Evol."},{"key":"43562_CR37","doi-asserted-by":"publisher","unstructured":"Page, A. J. et al. SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments. Microbial. Genomics. https:\/\/doi.org\/10.1099\/mgen.0.000056 (2016).","DOI":"10.1099\/mgen.0.000056"},{"key":"43562_CR38","doi-asserted-by":"publisher","unstructured":"Wilgenbusch, J. C. & Swofford, D. Inferring evolutionary trees with PAUP*. Curr. Protoc. Bioinformatics Chapter 6, Unit 6.4. https:\/\/doi.org\/10.1002\/0471250953.bi0604s00 (2003).","DOI":"10.1002\/0471250953.bi0604s00"},{"key":"43562_CR39","doi-asserted-by":"publisher","unstructured":"Silva, M. et al. chewBBACA: a complete suite for gene-by-gene schema creation and strain identification. Microb. Genom. https:\/\/doi.org\/10.1099\/mgen.0.000166 (2018).","DOI":"10.1099\/mgen.0.000166"},{"key":"43562_CR40","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-6-2","volume":"6","author":"DA Rasko","year":"2005","unstructured":"Rasko, D. A., Myers, G. S. & Ravel, J. Visualization of comparative genomic analyses by BLAST score ratio. BMC Bioinforma. 6, 2 (2005).","journal-title":"BMC Bioinforma."},{"key":"43562_CR41","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-119","volume":"11","author":"D Hyatt","year":"2010","unstructured":"Hyatt, D. et al. Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinforma. 11, 119 (2010).","journal-title":"BMC Bioinforma."},{"key":"43562_CR42","doi-asserted-by":"publisher","first-page":"1395","DOI":"10.1101\/gr.232397.117","volume":"28","author":"Z Zhou","year":"2018","unstructured":"Zhou, Z. et al. GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Res. 28, 1395\u20131404 (2018).","journal-title":"Genome Res."},{"key":"43562_CR43","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-016-0997-x","volume":"17","author":"BD Ondov","year":"2016","unstructured":"Ondov, B. D. et al. Mash: fast genome and metagenome distance estimation using MinHash. Genome Biol. 17, 132 (2016).","journal-title":"Genome Biol."},{"key":"43562_CR44","doi-asserted-by":"publisher","first-page":"113","DOI":"10.1007\/978-1-59745-251-9_6","volume":"537","author":"S Guindon","year":"2009","unstructured":"Guindon, S., Delsuc, F., Dufayard, J. F. & Gascuel, O. Estimating maximum likelihood phylogenies with PhyML. Methods Mol. Biol. 537, 113\u2013137 (2009).","journal-title":"Methods Mol. Biol."},{"key":"43562_CR45","doi-asserted-by":"publisher","first-page":"e1004041","DOI":"10.1371\/journal.pcbi.1004041","volume":"11","author":"X Didelot","year":"2015","unstructured":"Didelot, X. & Wilson, D. J. ClonalFrameML: efficient inference of recombination in whole bacterial genomes. PLoS Comput. Biol. 11, e1004041 (2015).","journal-title":"PLoS Comput. Biol."},{"key":"43562_CR46","doi-asserted-by":"publisher","first-page":"e134","DOI":"10.1093\/nar\/gky783","volume":"46","author":"X Didelot","year":"2018","unstructured":"Didelot, X., Croucher, N. J., Bentley, S. D., Harris, S. R. & Wilson, D. J. Bayesian inference of ancestral dates on bacterial phylogenetic trees. Nucleic Acids Res. 46, e134 (2018).","journal-title":"Nucleic Acids Res."},{"key":"43562_CR47","doi-asserted-by":"crossref","unstructured":"Wickham, H. ggplot2: Elegant Graphics for Data Analysis (Springer-Verlag New York). https:\/\/ggplot2.tidyverse.org (2016).","DOI":"10.1007\/978-3-319-24277-4"},{"key":"43562_CR48","doi-asserted-by":"publisher","first-page":"144","DOI":"10.32614\/RJ-2013-014","volume":"5","author":"DW Kahle","year":"2013","unstructured":"Kahle, D. W. H. ggmap: spatial visualization with ggplot2. R. J. 5, 144\u2013161 (2013).","journal-title":"R. J."},{"key":"43562_CR49","unstructured":"Collaborative Data Science (Plotly Technologies Inc., Montr\u00e9al, QC, 2015)."}],"container-title":["Nature Communications"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41467-023-43562-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41467-023-43562-y","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41467-023-43562-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,12,11]],"date-time":"2023-12-11T19:03:14Z","timestamp":1702321394000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41467-023-43562-y"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,12,11]]},"references-count":49,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2023,12]]}},"alternative-id":["43562"],"URL":"https:\/\/doi.org\/10.1038\/s41467-023-43562-y","relation":{},"ISSN":["2041-1723"],"issn-type":[{"value":"2041-1723","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,12,11]]},"assertion":[{"value":"5 September 2023","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"13 November 2023","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 December 2023","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"J.P.G. has served as a speaker, consultant, and advisory member for or has received research funding from Mayoly, Allergan, Diasorin, Gebro Pharma, and Richen. E.B.-M. has served as a speaker and consultant for Janssen, Chiesi, Kern and Takeda. R.M.F., J.C.M., and C.F. own patent WO\/2018\/169423 on microbiome markers for gastric cancer, and R.J.R. works for New England Biolabs, a company that sells research reagents, including restriction enzymes and DNA methyltransferases, to the scientific community. The remaining authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"8184"}}