The human gut microbiome in early-onset type 1 diabetes from the TEDDY study

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dc.contributor Aalto-yliopisto fi
dc.contributor Aalto University en Vatanen, Tommi Franzosa, Eric A. Schwager, Randall Tripathi, Surya Arthur, Timothy D. Vehik, Kendra Lernmark, Åke Hagopian, William A. Rewers, Marian J. She, Jin Xiong Toppari, Jorma Ziegler, Anette G. Akolkar, Beena Krischer, Jeffrey P. Stewart, Christopher J. Ajami, Nadim J. Petrosino, Joseph F. Gevers, Dirk Lähdesmäki, Harri Vlamakis, Hera Huttenhower, Curtis Xavier, Ramnik J. 2018-12-10T10:15:43Z 2018-12-10T10:15:43Z 2018-10-25
dc.identifier.citation Vatanen , T , Franzosa , E A , Schwager , R , Tripathi , S , Arthur , T D , Vehik , K , Lernmark , Å , Hagopian , W A , Rewers , M J , She , J X , Toppari , J , Ziegler , A G , Akolkar , B , Krischer , J P , Stewart , C J , Ajami , N J , Petrosino , J F , Gevers , D , Lähdesmäki , H , Vlamakis , H , Huttenhower , C & Xavier , R J 2018 , ' The human gut microbiome in early-onset type 1 diabetes from the TEDDY study ' Nature , vol. 562 , no. 7728 , pp. 589-594 . DOI: 10.1038/s41586-018-0620-2 en
dc.identifier.issn 0028-0836
dc.identifier.issn 1476-4687
dc.identifier.other PURE UUID: 442fc886-dd39-4213-bd82-11effc172a77
dc.identifier.other PURE ITEMURL:
dc.identifier.other PURE LINK:
dc.identifier.other PURE FILEURL:
dc.description.abstract Type 1 diabetes (T1D) is an autoimmune disease that targets pancreatic islet beta cells and incorporates genetic and environmental factors1, including complex genetic elements2, patient exposures3 and the gut microbiome4. Viral infections5 and broader gut dysbioses6 have been identified as potential causes or contributing factors; however, human studies have not yet identified microbial compositional or functional triggers that are predictive of islet autoimmunity or T1D. Here we analyse 10,913 metagenomes in stool samples from 783 mostly white, non-Hispanic children. The samples were collected monthly from three months of age until the clinical end point (islet autoimmunity or T1D) in the The Environmental Determinants of Diabetes in the Young (TEDDY) study, to characterize the natural history of the early gut microbiome in connection to islet autoimmunity, T1D diagnosis, and other common early life events such as antibiotic treatments and probiotics. The microbiomes of control children contained more genes that were related to fermentation and the biosynthesis of short-chain fatty acids, but these were not consistently associated with particular taxa across geographically diverse clinical centres, suggesting that microbial factors associated with T1D are taxonomically diffuse but functionally more coherent. When we investigated the broader establishment and development of the infant microbiome, both taxonomic and functional profiles were dynamic and highly individualized, and dominated in the first year of life by one of three largely exclusive Bifidobacterium species (B. bifidum, B. breve or B. longum) or by the phylum Proteobacteria. In particular, the strain-specific carriage of genes for the utilization of human milk oligosaccharide within a subset of B. longum was present specifically in breast-fed infants. These analyses of TEDDY gut metagenomes provide, to our knowledge, the largest and most detailed longitudinal functional profile of the developing gut microbiome in relation to islet autoimmunity, T1D and other early childhood events. Together with existing evidence from human cohorts7,8 and a T1D mouse model9, these data support the protective effects of short-chain fatty acids in early-onset human T1D. en
dc.format.extent 6
dc.format.extent 589-594
dc.format.mimetype application/pdf
dc.language.iso en en
dc.relation.ispartofseries Nature en
dc.relation.ispartofseries Volume 562, issue 7728 en
dc.rights openAccess en
dc.subject.other General en
dc.subject.other 113 Computer and information sciences en
dc.title The human gut microbiome in early-onset type 1 diabetes from the TEDDY study en
dc.type Letter fi
dc.description.version Peer reviewed en
dc.contributor.department Broad Institute
dc.contributor.department Harvard School of Public Health
dc.contributor.department University of South Florida
dc.contributor.department Lund University
dc.contributor.department Pacific Northwest Research Institute
dc.contributor.department University of Colorado Denver
dc.contributor.department Medical College of Georgia
dc.contributor.department Turku University Hospital
dc.contributor.department Technical University of Munich
dc.contributor.department National Institutes of Health
dc.contributor.department Baylor College of Medicine
dc.contributor.department Helsinki Institute for Information Technology HIIT
dc.contributor.department Department of Computer Science en
dc.subject.keyword General
dc.subject.keyword 113 Computer and information sciences
dc.identifier.urn URN:NBN:fi:aalto-201812106033
dc.identifier.doi 10.1038/s41586-018-0620-2
dc.type.version publishedVersion

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