{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T17:30:17Z","timestamp":1787074217640,"version":"build-2736575974"},"reference-count":59,"publisher":"Informa UK Limited","issue":"1","license":[{"start":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T00:00:00Z","timestamp":1787011200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T00:00:00Z","timestamp":1787011200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/doi.org\/10.1080\/policies-text-data-mining"}],"funder":[{"DOI":"10.13039\/501100000268","name":"The Biotechnology and Biological Sciences Research Council","doi-asserted-by":"crossref","award":["BB\/CCG2260\/1"],"award-info":[{"award-number":["BB\/CCG2260\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["www.tandfonline.com"],"crossmark-restriction":true},"short-container-title":["Gut Microbes Reports"],"published-print":{"date-parts":[[2026,12,31]]},"DOI":"10.1080\/29933935.2026.2688065","type":"journal-article","created":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T17:15:39Z","timestamp":1787073339000},"update-policy":"https:\/\/doi.org\/10.1080\/tandf_crossmark_01","source":"Crossref","is-referenced-by-count":0,"title":["Gut microbiome dysbiosis and functional alterations in\n                    <i>Campylobacter<\/i>\n                    -associated gastroenteritis using metagenomic approaches"],"prefix":"10.1080","volume":"3","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2680-6219","authenticated-orcid":false,"given":"Bilal","family":"Djeghout","sequence":"first","affiliation":[{"name":"Quadram Institute Bioscience, Norwich Research Park","place":["Norwich, UK"]},{"name":"Centre for Microbial Interactions, Norwich Research Park","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alise J.","family":"Ponsero","sequence":"additional","affiliation":[{"name":"Quadram Institute Bioscience, Norwich Research Park","place":["Norwich, UK"]},{"name":"Centre for Microbial Interactions, Norwich Research Park","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nuno","family":"Pedroso","sequence":"additional","affiliation":[{"name":"Eastern Pathology Alliance","place":["Norwich, UK"]},{"name":"Norfolk and Norwich University Hospital","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"George M.","family":"Savva","sequence":"additional","affiliation":[{"name":"Quadram Institute Bioscience, Norwich Research Park","place":["Norwich, UK"]},{"name":"Centre for Microbial Interactions, Norwich Research Park","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ngozi","family":"Elumogo","sequence":"additional","affiliation":[{"name":"Quadram Institute Bioscience, Norwich Research Park","place":["Norwich, UK"]},{"name":"Eastern Pathology Alliance","place":["Norwich, UK"]},{"name":"Norfolk and Norwich University Hospital","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicol","family":"Janecko","sequence":"additional","affiliation":[{"name":"Quadram Institute Bioscience, Norwich Research Park","place":["Norwich, UK"]},{"name":"Centre for Microbial Interactions, Norwich Research Park","place":["Norwich, UK"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"301","published-online":{"date-parts":[[2026,8,18]]},"reference":[{"key":"e_1_3_10_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0008533"},{"key":"e_1_3_10_3_1","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciz906"},{"key":"e_1_3_10_4_1","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms12112333"},{"key":"e_1_3_10_5_1","doi-asserted-by":"publisher","DOI":"10.1128\/iai.00302-24"},{"key":"e_1_3_10_6_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41392-022-00974-4"},{"key":"e_1_3_10_7_1","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00006-15"},{"key":"e_1_3_10_8_1","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00380-17"},{"key":"e_1_3_10_9_1","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2015.01266"},{"key":"e_1_3_10_10_1","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2021.702047"},{"key":"e_1_3_10_11_1","doi-asserted-by":"publisher","DOI":"10.1038\/nri3430"},{"key":"e_1_3_10_12_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature18847"},{"key":"e_1_3_10_13_1","doi-asserted-by":"publisher","DOI":"10.1038\/nri3535"},{"key":"e_1_3_10_14_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-023-42822-7"},{"key":"e_1_3_10_15_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.crmeth.2022.100391"},{"key":"e_1_3_10_16_1","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-017-0387-y"},{"key":"e_1_3_10_17_1","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001284"},{"key":"e_1_3_10_18_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ijfoodmicro.2018.05.008"},{"key":"e_1_3_10_19_1","doi-asserted-by":"publisher","DOI":"10.1128\/jb.01404-07"},{"key":"e_1_3_10_20_1","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-022-01243-w"},{"key":"e_1_3_10_21_1","first-page":"381830","article-title":"The integrated rapid infectious disease analysis (IRIDA) platform","author":"Matthews TC","year":"2018","unstructured":"Matthews TC , Bristow FR , Griffiths EJ , Petkau A , Adam J , Dooley D , et al. The integrated rapid infectious disease analysis (IRIDA) platform. BioRxiv. 2018:381830.","journal-title":"BioRxiv"},{"key":"e_1_3_10_22_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty560"},{"key":"e_1_3_10_23_1","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2014-15-3-r46"},{"key":"e_1_3_10_24_1","doi-asserted-by":"publisher","DOI":"10.1089\/cmb.2012.0021"},{"key":"e_1_3_10_25_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt086"},{"key":"e_1_3_10_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btad728"},{"issue":"1","key":"e_1_3_10_27_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1471-2105-11-595","article-title":"BIGSdb: scalable analysis of bacterial genome variation at the population level","volume":"11","author":"Jolley KA","year":"2010","unstructured":"Jolley KA , Maiden MC . BIGSdb: scalable analysis of bacterial genome variation at the population level. BMC Bioinform. 2010;11(1):1\u201311.","journal-title":"BMC Bioinform"},{"key":"e_1_3_10_28_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-021-91456-0"},{"key":"e_1_3_10_29_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0156-5"},{"key":"e_1_3_10_30_1","unstructured":"Krueger F . Trim galore: a wrapper tool around cutadapt and FastQC to consistently apply quality and adapter trimming to FastQ files. 2015;516(517):517. http:\/\/wwwbioinformaticsbabrahamacuk\/projects\/trim_galore\/."},{"key":"e_1_3_10_31_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-023-01688-w"},{"key":"e_1_3_10_32_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41592-022-01431-4"},{"key":"e_1_3_10_33_1","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dks261"},{"key":"e_1_3_10_34_1","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.2584"},{"key":"e_1_3_10_35_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1009442"},{"key":"e_1_3_10_36_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.mib.2010.10.003"},{"key":"e_1_3_10_37_1","doi-asserted-by":"publisher","DOI":"10.1136\/bmjgast-2022-000871"},{"key":"e_1_3_10_38_1","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-015-0109-2"},{"key":"e_1_3_10_39_1","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2023.1080043"},{"key":"e_1_3_10_40_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.mib.2022.01.006"},{"key":"e_1_3_10_41_1","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2019.00277"},{"key":"e_1_3_10_42_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.1232467"},{"key":"e_1_3_10_43_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature12820"},{"key":"e_1_3_10_44_1","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-015-0109-2"},{"key":"e_1_3_10_45_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature09415"},{"key":"e_1_3_10_46_1","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00380-17"},{"key":"e_1_3_10_47_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-016-0708-5"},{"key":"e_1_3_10_48_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature11319"},{"key":"e_1_3_10_49_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.aad3503"},{"key":"e_1_3_10_50_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.0060280"},{"key":"e_1_3_10_51_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.chom.2018.12.003"},{"key":"e_1_3_10_52_1","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001284"},{"key":"e_1_3_10_53_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10096-019-03499-x"},{"key":"e_1_3_10_54_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-024-50433-7"},{"key":"e_1_3_10_55_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0156-5"},{"key":"e_1_3_10_56_1","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000088"},{"key":"e_1_3_10_57_1","doi-asserted-by":"publisher","DOI":"10.1086\/597402"},{"key":"e_1_3_10_58_1","doi-asserted-by":"publisher","DOI":"10.2903\/j.efsa.2023.7867"},{"key":"e_1_3_10_59_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-021-91456-0"},{"key":"e_1_3_10_60_1","doi-asserted-by":"publisher","DOI":"10.1098\/rstb.2014.0087"}],"container-title":["Gut Microbes Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.tandfonline.com\/doi\/pdf\/10.1080\/29933935.2026.2688065","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.tandfonline.com\/doi\/full-xml\/10.1080\/29933935.2026.2688065","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.tandfonline.com\/doi\/pdf\/10.1080\/29933935.2026.2688065","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T17:15:41Z","timestamp":1787073341000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.tandfonline.com\/doi\/full\/10.1080\/29933935.2026.2688065"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8,18]]},"references-count":59,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,12,31]]}},"alternative-id":["10.1080\/29933935.2026.2688065"],"URL":"https:\/\/doi.org\/10.1080\/29933935.2026.2688065","relation":{},"ISSN":["2993-3935"],"issn-type":[{"value":"2993-3935","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,8,18]]},"assertion":[{"value":"The publishing and review policy for this title is described in its Aims & Scope.","order":1,"name":"peerreview_statement","label":"Peer Review Statement"},{"value":"http:\/\/www.tandfonline.com\/action\/journalInformation?show=aimsScope&journalCode=kgmr20","URL":"http:\/\/www.tandfonline.com\/action\/journalInformation?show=aimsScope&journalCode=kgmr20","order":2,"name":"aims_and_scope_url","label":"Aim & Scope"},{"value":"2026-02-02","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-05-07","order":1,"name":"revised","label":"Revised","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-05-08","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-08-18","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"2688065"}}