{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,28]],"date-time":"2026-10-28T13:40:05Z","timestamp":1793194805715,"version":"4.5.0"},"reference-count":52,"publisher":"Informa UK Limited","issue":"1","license":[{"start":{"date-parts":[[2022,8,8]],"date-time":"2022-08-08T00:00:00Z","timestamp":1659916800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/doi.org\/10.1080\/policies-text-data-mining"}],"funder":[{"DOI":"10.13039\/501100000024","name":"Canadian Institutes of Health Research","doi-asserted-by":"publisher","award":["FDN-14333"],"award-info":[{"award-number":["FDN-14333"]}],"id":[{"id":"10.13039\/501100000024","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Collaborative Health Research Projects","award":["CHRP 5496\/CPG-17060"],"award-info":[{"award-number":["CHRP 5496\/CPG-17060"]}]}],"content-domain":{"domain":["www.tandfonline.com"],"crossmark-restriction":true},"short-container-title":["Gut Microbes"],"published-print":{"date-parts":[[2022,12,31]]},"DOI":"10.1080\/19490976.2022.2108281","type":"journal-article","created":{"date-parts":[[2022,8,8]],"date-time":"2022-08-08T14:40:17Z","timestamp":1659969617000},"update-policy":"https:\/\/doi.org\/10.1080\/tandf_crossmark_01","source":"Crossref","is-referenced-by-count":48,"title":["A single cell survey of the microbial impacts on the mouse small intestinal epithelium"],"prefix":"10.1080","volume":"14","author":[{"given":"Derek K.L.","family":"Tsang","sequence":"first","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ryan J.","family":"Wang","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Oliver","family":"De Sa","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Arshad","family":"Ayyaz","sequence":"additional","affiliation":[{"name":"Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital","place":["Toronto, Canada"]},{"name":"University of Calgary","place":["Calgary, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elisabeth G.","family":"Foerster","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Giuliano","family":"Bayer","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shawn","family":"Goyal","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel","family":"Trcka","sequence":"additional","affiliation":[{"name":"Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bibaswan","family":"Ghoshal","sequence":"additional","affiliation":[{"name":"Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeffrey L.","family":"Wrana","sequence":"additional","affiliation":[{"name":"Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital","place":["Toronto, Canada"]},{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stephen E.","family":"Girardin","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]},{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3238-6254","authenticated-orcid":false,"given":"Dana J.","family":"Philpott","sequence":"additional","affiliation":[{"name":"University of Toronto","place":["Toronto, Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"301","published-online":{"date-parts":[[2022,8,8]]},"reference":[{"key":"e_1_3_5_2_1","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M116.770099"},{"key":"e_1_3_5_3_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2020.08.027"},{"key":"e_1_3_5_4_1","doi-asserted-by":"publisher","DOI":"10.4161\/gmic.19897"},{"key":"e_1_3_5_5_1","doi-asserted-by":"publisher","DOI":"10.1038\/ni.2608"},{"key":"e_1_3_5_6_1","doi-asserted-by":"publisher","DOI":"10.3389\/fphys.2018.01534"},{"key":"e_1_3_5_7_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.anaerobe.2015.05.002"},{"key":"e_1_3_5_8_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-12476-z"},{"key":"e_1_3_5_9_1","doi-asserted-by":"publisher","DOI":"10.1155\/2017\/5604727"},{"key":"e_1_3_5_10_1","doi-asserted-by":"publisher","DOI":"10.1083\/jcb.201010127"},{"key":"e_1_3_5_11_1","doi-asserted-by":"publisher","DOI":"10.1159\/000475736"},{"key":"e_1_3_5_12_1","doi-asserted-by":"publisher","DOI":"10.1038\/emboj.2012.166"},{"key":"e_1_3_5_13_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature06196"},{"key":"e_1_3_5_14_1","doi-asserted-by":"publisher","DOI":"10.1136\/gut.2007.142588"},{"key":"e_1_3_5_15_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature16937"},{"key":"e_1_3_5_16_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-019-1154-y"},{"key":"e_1_3_5_17_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btw777"},{"key":"e_1_3_5_18_1","first-page":"e2122","article-title":"A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor","volume":"5","author":"Lun ATL","year":"2016","unstructured":"Lun ATL, McCarthy DJ, Marioni JC. A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor. F1000Res. 2016;5:e2122.","journal-title":"F1000Res"},{"key":"e_1_3_5_19_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2019.05.031"},{"key":"e_1_3_5_20_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41592-019-0619-0"},{"key":"e_1_3_5_21_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature24489"},{"key":"e_1_3_5_22_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1663-x"},{"key":"e_1_3_5_23_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0071-9"},{"key":"e_1_3_5_24_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-018-0414-6"},{"key":"e_1_3_5_25_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.xinn.2021.100141"},{"key":"e_1_3_5_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq461"},{"key":"e_1_3_5_27_1","first-page":"996","article-title":"UPARSE: highly accurate OTU sequences from microbial amplicon reads","volume":"10","author":"Edgar RC","year":"2013","unstructured":"Edgar RC. UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat Methods 2013. 2013;10:996\u2013998.","journal-title":"Nat Methods 2013"},{"key":"e_1_3_5_28_1","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.f.303"},{"key":"e_1_3_5_29_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2018.08.063"},{"key":"e_1_3_5_30_1","doi-asserted-by":"publisher","DOI":"10.1080\/19490976.2018.1474321"},{"key":"e_1_3_5_31_1","doi-asserted-by":"publisher","DOI":"10.1152\/ajpgi.00022.2016"},{"key":"e_1_3_5_32_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0808723105"},{"key":"e_1_3_5_33_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.1127119"},{"key":"e_1_3_5_34_1","doi-asserted-by":"publisher","DOI":"10.1080\/19490976.2021.1887721"},{"key":"e_1_3_5_35_1","doi-asserted-by":"publisher","DOI":"10.1111\/1462-2920.13589"},{"key":"e_1_3_5_36_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.2009.01514.x"},{"key":"e_1_3_5_37_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-016-2999-1"},{"key":"e_1_3_5_38_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2017.03.035"},{"key":"e_1_3_5_39_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature11163"},{"key":"e_1_3_5_40_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jss.2018.05.055"},{"key":"e_1_3_5_41_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.immuni.2018.07.016"},{"key":"e_1_3_5_42_1","doi-asserted-by":"publisher","DOI":"10.4049\/jimmunol.178.12.8203"},{"key":"e_1_3_5_43_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.1109051"},{"key":"e_1_3_5_44_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.chom.2016.07.006"},{"key":"e_1_3_5_45_1","doi-asserted-by":"publisher","DOI":"10.1093\/hmg\/ddq248"},{"key":"e_1_3_5_46_1","doi-asserted-by":"publisher","DOI":"10.1172\/JCI45538"},{"key":"e_1_3_5_47_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.bbrc.2010.12.067"},{"key":"e_1_3_5_48_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.chembiol.2018.01.010"},{"key":"e_1_3_5_49_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-13911-x"},{"key":"e_1_3_5_50_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.immuni.2019.08.011"},{"key":"e_1_3_5_51_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2018.10.008"},{"key":"e_1_3_5_52_1","doi-asserted-by":"publisher","DOI":"10.1136\/gutjnl-2018-316226"},{"key":"e_1_3_5_53_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-020-20673-4"}],"container-title":["Gut Microbes"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.tandfonline.com\/doi\/pdf\/10.1080\/19490976.2022.2108281","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.tandfonline.com\/doi\/full-xml\/10.1080\/19490976.2022.2108281","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.tandfonline.com\/doi\/pdf\/10.1080\/19490976.2022.2108281","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,7,16]],"date-time":"2026-07-16T07:04:53Z","timestamp":1784185493000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.tandfonline.com\/doi\/full\/10.1080\/19490976.2022.2108281"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,8,8]]},"references-count":52,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2022,12,31]]}},"alternative-id":["10.1080\/19490976.2022.2108281"],"URL":"https:\/\/doi.org\/10.1080\/19490976.2022.2108281","relation":{},"ISSN":["1949-0976","1949-0984"],"issn-type":[{"value":"1949-0976","type":"print"},{"value":"1949-0984","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,8,8]]},"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=kgmi20","URL":"http:\/\/www.tandfonline.com\/action\/journalInformation?show=aimsScope&journalCode=kgmi20","order":2,"name":"aims_and_scope_url","label":"Aim & Scope"},{"value":"2022-01-31","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-07-20","order":1,"name":"revised","label":"Revised","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-07-28","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-08-08","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"2108281"}}