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Updated: Aug 5, 2025

A High-Throughput Multiplexed Screening for Type 1 Diabetes, Celiac Diseases, and COVID-19
Published on: July 5, 2022
Infant gut microbiome composition correlated with type 1 diabetes acquisition in the general population: the ABIS
Malin Bélteky1, Patricia L Milletich2, Angelica P Ahrens2
1Crown Princess Victoria's Children's Hospital, Region Östergötland, Linköping, Sweden.
Insights
Gut microbial biomarkers identified in 1-year-old infants can predict type 1 diabetes development up to 20 years before diagnosis, offering potential for early intervention strategies.
Area of Science:
- Microbiome research
- Immunology
- Pediatric endocrinology
Background:
- Type 1 diabetes (T1D) is an autoimmune disease with increasing incidence.
- Traditional markers for T1D development include autoantibodies.
- Early identification of T1D risk factors is crucial for potential prevention.
Purpose of the Study:
- To identify gut microbial biomarkers in infants associated with future type 1 diabetes diagnosis.
- To investigate microbial taxonomic and functional differences in infants who develop T1D compared to healthy controls.
- To explore the potential of the gut microbiome as an early indicator for T1D.
Main Methods:
- Analysis of stool samples from a longitudinal general population cohort (All Babies In Southeast Sweden).
- 16S ribosomal RNA (rRNA) sequencing and quantitative PCR to assess microbial composition.
- PICRUSt used for predicting functional gene content from 16S rRNA data.
- Comparison of microbial profiles between infants with future T1D diagnosis (n=16) and healthy controls (n=268).
Main Results:
- Specific bacterial taxa, including Porphyromonas, were more abundant in infants who later developed T1D.
- Parasutterella and Eubacterium were more abundant in healthy control infants.
- Ruminococcus, Flavonifractor, UBA1819, Alistipes, and Fusicatenibacter showed differential abundance patterns differentiating future T1D cases from controls.
- Predicted higher abundance of butyrate production and pyruvate fermentation pathways in healthy control infants.
Conclusions:
- Gut microbial biomarkers are detectable as early as one year of age in infants who develop type 1 diabetes.
- Taxonomic and functional differences in the gut microbiome are associated with future T1D diagnosis.
- The findings suggest a potential role for modulating the gut microbiome in T1D prevention strategies.
Aims/Hypothesis:
While autoantibodies are traditional markers for type 1 diabetes development, we identified gut microbial biomarkers in 1-year-old infants associated with future type 1 diabetes up to 20 years before diagnosis.
Methods:
Infants enrolled in the longitudinal general population cohort All Babies In Southeast Sweden (ABIS) provided a stool sample at a mean age of 12.5 months. Samples (future type 1 diabetes, n=16; healthy controls, n=268) were subjected to 16S ribosomal RNA (rRNA) sequencing and quantitative PCR. Microbial differences at the taxonomic and core microbiome levels were assessed. PICRUSt was used to predict functional content from the 16S rRNA amplicons. Sixteen infants, with a future diagnosis of type 1 diabetes at a mean age of 13.3±5.4 years, and one hundred iterations of 32 matched control infants, who remained healthy up to 20 years of age, were analysed.
Results:
Parasutterella and Eubacterium were more abundant in healthy control infants, while Porphyromonas was differentially more abundant in infants with future type 1 diabetes diagnosis. Ruminococcus was a strong determinant in differentiating both control infants and those with future type 1 diabetes using random forest analysis and had differing trends of abundance when comparing control infants and those with future type 1 diabetes. Flavonifractor and UBA1819 were the strongest factors for differentiating control infants, showing higher abundance in control infants compared with those with future type 1 diabetes. Alternatively, Alistipes (more abundant in control infants) and Fusicatenibacter (mixed abundance patterns when comparing case and control infants) were the strongest factors for differentiating future type 1 diabetes. Predicted gene content regarding butyrate production and pyruvate fermentation was differentially observed to be higher in healthy control infants.
Conclusions/Interpretation:
This investigation suggests that microbial biomarkers for type 1 diabetes may be present as early as 1 year of age, as reflected in the taxonomic and functional differences of the microbial communities. The possibility of preventing disease onset by altering or promoting a 'healthy' gut microbiome is appealing.
Data Availability:
The forward and reverse 16S raw sequencing data generated in this study are available through the NCBI Sequence Read Archive under BioProject PRJNA875929. Associated sample metadata used for statistical comparison are available in the source data file. R codes used for statistical comparisons and figure generation are available at: https://github.com/PMilletich/T1D_Pipeline .
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