biostudies-literatureIjaz UZNatural Environment Research CouncilBiotechnology and Biological Sciences Research Council2452https://www.ebi.ac.uk/biostudies/studies/S-EPMC6196313biostudies-literatureUnknown9Chickens are a key food source for humans yet their microbiome contains bacteria that can be pathogenic to humans, and indeed potentially to chickens themselves. <i>Campylobacter</i> is present within the chicken gut and is the leading cause of bacterial foodborne gastroenteritis within humans worldwide. Infection can lead to secondary sequelae such as Guillain-Barré syndrome and stunted growth in children from low-resource areas. Despite the global health impact and economic burden of <i>Campylobacter</i>, how and when <i>Campylobacter</i> appears within chickens remains unclear. The lack of day to day microbiome data with replicates, relevant metadata, and a lack of natural infection studies have delayed our understanding of the chicken gut microbiome and <i>Campylobacter</i>. Here, we pFrontiers in microbiologyComprehensive Longitudinal Microbiome Analysis of the Chicken Cecum Reveals a Shift From Competitive to Environmental Drivers and a Window of Opportunity for <i>Campylobacter</i>.PMC6196313NE/L011956/1BBS/E/F/000PR10349Gundogdu OElmi ASivaloganathan LDorrell NMcKenna ARichmond AKelly CCorcionivoschi NLavery UStratakos ACWren BWIjaz UZLinton MfalseComprehensive Longitudinal Microbiome Analysis of the Chicken Cecum Reveals a Shift From Competitive to Environmental Drivers and a Window of Opportunity for <i>Campylobacter</i>.Chickens are a key food source for humans yet their microbiome contains bacteria that can be pathogenic to humans, and indeed potentially to chickens themselves. <i>Campylobacter</i> is present within the chicken gut and is the leading cause of bacterial foodborne gastroenteritis within humans worldwide. Infection can lead to secondary sequelae such as Guillain-Barré syndrome and stunted growth in children from low-resource areas. Despite the global health impact and economic burden of <i>Campylobacter</i>, how and when <i>Campylobacter</i> appears within chickens remains unclear. The lack of day to day microbiome data with replicates, relevant metadata, and a lack of natural infection studies have delayed our understanding of the chicken gut microbiome and <i>Campylobacter</i>. Here, we p2018-01-01T00:00:00Z20182026-04-07T15:55:33.18Z2019-03-27T00:05:20ZS-EPMC61963133037434110.3389/fmicb.2018.02452