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Imbalance of bacteriome profiles within the Finnish Diabetes Prediction and Prevention study: Parallel use of 16S profiling and virome sequencing in stool samples from children with islet autoimmunity and matched controls
O. Cinek, L. Kramna, J. Lin, S. Oikarinen, K. Kolarova, J. Ilonen, O. Simell, R. Veijola, R. Autio, H. Hyöty,
Language English Country Denmark
Document type Journal Article, Multicenter Study
Grant support
NV15-29078A
MZ0
CEP Register
PubMed
27860030
DOI
10.1111/pedi.12468
Knihovny.cz E-resources
- MeSH
- Autoimmunity * MeSH
- Autoimmune Diseases blood epidemiology etiology immunology MeSH
- Bacteroides classification immunology isolation & purification virology MeSH
- RNA, Bacterial chemistry metabolism MeSH
- Bacteriophages classification immunology isolation & purification MeSH
- Diabetes Mellitus, Type 1 blood epidemiology etiology immunology MeSH
- Child MeSH
- Dysbiosis immunology microbiology physiopathology virology MeSH
- Feces microbiology virology MeSH
- Phylogeny MeSH
- Cohort Studies MeSH
- Islets of Langerhans immunology MeSH
- Humans MeSH
- Longitudinal Studies MeSH
- Molecular Typing MeSH
- Hospitals, University MeSH
- Prospective Studies MeSH
- Risk MeSH
- RNA, Ribosomal, 16S chemistry metabolism MeSH
- RNA, Viral chemistry metabolism MeSH
- Gastrointestinal Microbiome immunology MeSH
- Case-Control Studies MeSH
- Computational Biology MeSH
- Check Tag
- Child MeSH
- Humans MeSH
- Male MeSH
- Female MeSH
- Publication type
- Journal Article MeSH
- Multicenter Study MeSH
- Geographicals
- Finland epidemiology MeSH
BACKGROUND: We set out to explore associations between the stool bacteriome profiles and early-onset islet autoimmunity, taking into account the interactions with the virus component of the microbiome. METHODS: Serial stool samples were longitudinally collected from 18 infants and toddlers with early-onset islet autoimmunity (median age 17.4 months) followed by type 1 diabetes, and 18 tightly matched controls from the Finnish Diabetes Prediction and Prevention (DIPP) cohort. Three stool samples were analyzed, taken 3, 6, and 9 months before the first detection of serum autoantibodies in the case child. The risk of islet autoimmunity was evaluated in relation to the composition of the bacteriome 16S rDNA profiles assessed by mass sequencing, and to the composition of DNA and RNA viromes. RESULTS: Four operational taxonomic units were significantly less abundant in children who later on developed islet autoimmunity as compared to controls-most markedly the species of Bacteroides vulgatus and Bifidobacterium bifidum. The alpha or beta diversity, or the taxonomic levels of bacterial phyla, classes or genera, showed no differences between cases and controls. A correlation analysis suggested a possible relation between CrAssphage signals and quantities of Bacteroides dorei. No apparent associations were seen between development of islet autoimmunity and sequences of yet unknown origin. CONCLUSIONS: The results confirm previous findings that an imbalance within the prevalent Bacteroides genus is associated with islet autoimmunity. The detected quantitative relation of the novel "orphan" bacteriophage CrAssphage with a prevalent species of the Bacteroides genus may exemplify possible modifiers of the bacteriome.
BioMediTech Computational Biology University of Tampere Tampere Finland
Department of Pediatrics University of Oulu and Oulu University Hospital Oulu Finland
Immunogenetics Laboratory University of Turku and Turku University Hospital Turku Finland
School of Health Sciences University of Tampere Tampere Finland
School of Medicine Department of Virology University of Tampere Tampere Finland
References provided by Crossref.org
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