{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,27]],"date-time":"2025-09-27T10:49:10Z","timestamp":1758970150933,"version":"3.37.3"},"reference-count":68,"publisher":"The Royal Society","issue":"1942","license":[{"start":{"date-parts":[[2021,1,13]],"date-time":"2021-01-13T00:00:00Z","timestamp":1610496000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/royalsociety.org\/-\/media\/journals\/author\/Licence-to-Publish-20062019-final.pdf"},{"start":{"date-parts":[[2021,1,13]],"date-time":"2021-01-13T00:00:00Z","timestamp":1610496000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/royalsociety.org\/journals\/ethics-policies\/data-sharing-mining\/"}],"funder":[{"DOI":"10.13039\/501100000923","name":"Australian Research Council","doi-asserted-by":"crossref","award":["DP170101917"],"award-info":[{"award-number":["DP170101917"]}],"id":[{"id":"10.13039\/501100000923","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["royalsocietypublishing.org"],"crossmark-restriction":true},"short-container-title":["Proc. R. Soc. B."],"published-print":{"date-parts":[[2021,1,13]]},"abstract":"<jats:p>\n            The human gut microbiota is transmitted from mother to infant through vaginal birth and breastfeeding.\n            <jats:italic>Bifidobacterium<\/jats:italic>\n            , a genus that dominates the infants\u2019 gut, is adapted to breast milk in its ability to metabolize human milk oligosaccharides; it is regarded as a mutualist owing to its involvement in the development of the immune system. The composition of microbiota, including the abundance of Bifidobacteria, is highly variable between individuals and some microbial profiles are associated with diseases. However, whether and how birth and feeding practices contribute to such variation remains unclear. To understand how early events affect the establishment of microbiota, we develop a mathematical model of two types of Bifidobacteria and a generic compartment of commensal competitors. We show how early events affect competition between mutualists and commensals and microbe-host-immune interactions to cause long-term alterations in gut microbial profiles. Bifidobacteria associated with breast milk can trigger immune responses with lasting effects on the microbial community structure. Our model shows that, in response to a change in birth environment, competition alone can produce two distinct microbial profiles post-weaning. Adding immune regulation to our competition model allows for variations in microbial profiles in response to different feeding practices. This analysis highlights the importance of microbe\u2013microbe and microbe\u2013host interactions in shaping the gut populations following different birth and feeding modes.\n          <\/jats:p>","DOI":"10.1098\/rspb.2020.1810","type":"journal-article","created":{"date-parts":[[2021,1,13]],"date-time":"2021-01-13T00:06:06Z","timestamp":1610496366000},"page":"20201810","update-policy":"https:\/\/doi.org\/10.1098\/crossmark-policy","source":"Crossref","is-referenced-by-count":8,"title":["Modelling the effect of birth and feeding modes on the development of human gut microbiota"],"prefix":"10.1098","volume":"288","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0240-5971","authenticated-orcid":true,"given":"Xiyan","family":"Xiong","sequence":"first","affiliation":[{"name":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9763-5587","authenticated-orcid":true,"given":"Sara L.","family":"Loo","sequence":"additional","affiliation":[{"name":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Li","family":"Zhang","sequence":"additional","affiliation":[{"name":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2198-1402","authenticated-orcid":true,"given":"Mark M.","family":"Tanaka","sequence":"additional","affiliation":[{"name":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"175","published-online":{"date-parts":[[2021,1,13]]},"reference":[{"key":"e_1_3_6_2_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.aad2602"},{"key":"e_1_3_6_3_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature09944"},{"key":"e_1_3_6_4_2","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-018-0466-8"},{"key":"e_1_3_6_5_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.chom.2018.06.005"},{"key":"e_1_3_6_6_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.chom.2018.06.007"},{"key":"e_1_3_6_7_2","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.3008599"},{"key":"e_1_3_6_8_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-019-1451-5"},{"key":"e_1_3_6_9_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0078331"},{"key":"e_1_3_6_10_2","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-017-0282-6"},{"key":"e_1_3_6_11_2","doi-asserted-by":"crossref","unstructured":"Makino H et al. 2011 Transmission of intestinal Bifidobacterium longum subsp. longum strains from mother to infant determined by multilocus sequencing typing and amplified fragment length polymorphism. Appl. Environ. Microbiol. pages AEM\u201305346.","DOI":"10.1128\/AEM.05346-11"},{"key":"e_1_3_6_12_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-018-0617-x"},{"key":"e_1_3_6_13_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature11053"},{"key":"e_1_3_6_14_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.02063-08"},{"key":"e_1_3_6_15_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0809584105"},{"key":"e_1_3_6_16_2","doi-asserted-by":"publisher","DOI":"10.1038\/srep35045"},{"key":"e_1_3_6_17_2","doi-asserted-by":"publisher","DOI":"10.1111\/1462-2920.12743"},{"key":"e_1_3_6_18_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-014-0282-7"},{"key":"e_1_3_6_19_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2015.01030"},{"key":"e_1_3_6_20_2","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2015.236"},{"key":"e_1_3_6_21_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0196290"},{"key":"e_1_3_6_22_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-016-0708-5"},{"key":"e_1_3_6_23_2","doi-asserted-by":"publisher","DOI":"10.1177\/0148607111430817"},{"key":"e_1_3_6_24_2","doi-asserted-by":"publisher","DOI":"10.1128\/mSystems.00612-19"},{"key":"e_1_3_6_25_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0168-1605(98)00056-7"},{"key":"e_1_3_6_26_2","doi-asserted-by":"publisher","DOI":"10.4049\/jimmunol.1103223"},{"key":"e_1_3_6_27_2","first-page":"155","article-title":"Detection of bifidobacterium strains that induce large quantities of IgA","volume":"5","author":"Yasui H","year":"1992","journal-title":"Microb. Ecol. Health Dis."},{"key":"e_1_3_6_28_2","doi-asserted-by":"publisher","DOI":"10.3109\/08820131003622635"},{"key":"e_1_3_6_29_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.iy.04.040186.002133"},{"key":"e_1_3_6_30_2","doi-asserted-by":"publisher","DOI":"10.1038\/nri.2017.77"},{"key":"e_1_3_6_31_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.anaerobe.2011.03.009"},{"key":"e_1_3_6_32_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2016.00925"},{"key":"e_1_3_6_33_2","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.02419-14"},{"key":"e_1_3_6_34_2","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.042143-0"},{"key":"e_1_3_6_35_2","doi-asserted-by":"publisher","DOI":"10.1111\/1574-6941.12434"},{"key":"e_1_3_6_36_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-019-1560-1"},{"key":"e_1_3_6_37_2","doi-asserted-by":"publisher","DOI":"10.1136\/gutjnl-2012-303249"},{"key":"e_1_3_6_38_2","doi-asserted-by":"publisher","DOI":"10.1136\/gut.2004.041640"},{"key":"e_1_3_6_39_2","doi-asserted-by":"publisher","DOI":"10.1038\/nm.4272"},{"key":"e_1_3_6_40_2","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-016-0213-y"},{"key":"e_1_3_6_41_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.aad3503"},{"key":"e_1_3_6_42_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6941.2006.00182.x"},{"key":"e_1_3_6_43_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature13178"},{"key":"e_1_3_6_44_2","unstructured":"Organization WH et al. 2008 Indicators for assessing infant and young child feeding practices: part 1-definition: conclusions of a consensus meeting held 6\u20138 November 2007 in Washington DC."},{"key":"e_1_3_6_45_2","doi-asserted-by":"publisher","DOI":"10.1007\/s002480000005"},{"key":"e_1_3_6_46_2","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.39.2.686-703.1983"},{"key":"e_1_3_6_47_2","doi-asserted-by":"publisher","DOI":"10.1007\/s11538-015-0087-3"},{"key":"e_1_3_6_48_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1003388"},{"key":"e_1_3_6_49_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1002606"},{"key":"e_1_3_6_50_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0102451"},{"key":"e_1_3_6_51_2","doi-asserted-by":"publisher","DOI":"10.1080\/19490976.2015.1023494"},{"key":"e_1_3_6_52_2","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.3703"},{"key":"e_1_3_6_53_2","doi-asserted-by":"publisher","DOI":"10.1038\/srep02532"},{"key":"e_1_3_6_54_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00342-14"},{"key":"e_1_3_6_55_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jtbi.2018.12.021"},{"key":"e_1_3_6_56_2","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2014-15-7-r89"},{"key":"e_1_3_6_57_2","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.1500183"},{"key":"e_1_3_6_58_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1005963107"},{"key":"e_1_3_6_59_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2015.03.049"},{"key":"e_1_3_6_60_2","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms4654"},{"key":"e_1_3_6_61_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature11234"},{"key":"e_1_3_6_62_2","first-page":"983","article-title":"Impact of maternal intrapartum antibiotics, method of birth and breastfeeding on gut microbiota during the first year of life: a prospective cohort study","volume":"123","author":"Azad MB","year":"2016","journal-title":"Int. J. Gynecol. Obstetrics"},{"key":"e_1_3_6_63_2","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.00789-12"},{"key":"e_1_3_6_64_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1002497"},{"key":"e_1_3_6_65_2","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-018-0464-x"},{"key":"e_1_3_6_66_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.1208344"},{"key":"e_1_3_6_67_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature12820"},{"key":"e_1_3_6_68_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.aan4834"},{"key":"e_1_3_6_69_2","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2012.27"}],"container-title":["Proceedings of the Royal Society B: Biological Sciences"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/royalsocietypublishing.org\/doi\/pdf\/10.1098\/rspb.2020.1810","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/royalsocietypublishing.org\/doi\/full-xml\/10.1098\/rspb.2020.1810","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/royalsocietypublishing.org\/doi\/pdf\/10.1098\/rspb.2020.1810","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,2,18]],"date-time":"2021-02-18T04:58:34Z","timestamp":1613624314000},"score":1,"resource":{"primary":{"URL":"https:\/\/royalsocietypublishing.org\/doi\/10.1098\/rspb.2020.1810"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,1,13]]},"references-count":68,"journal-issue":{"issue":"1942","published-print":{"date-parts":[[2021,1,13]]}},"alternative-id":["10.1098\/rspb.2020.1810"],"URL":"https:\/\/doi.org\/10.1098\/rspb.2020.1810","relation":{},"ISSN":["0962-8452","1471-2954"],"issn-type":[{"type":"print","value":"0962-8452"},{"type":"electronic","value":"1471-2954"}],"subject":[],"published":{"date-parts":[[2021,1,13]]},"assertion":[{"value":"2020-08-02","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2020-12-09","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2021-01-13","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}