This dataset is a product of an investigation of microbe-metabolite relationships in the gut as a means to understand and potentially reduce colorectal cancer (CRC) risk. Microbiota and metabolomics profiling was performed on lyophilized feces from 42 colorectal cancer cases and 89 matched controls. Multivariable logistic regression was used to identify statistically independent associations with CRC....

This study characterized gut microbiome in pre-treatment stool using 16S rRNA gene and shotgun metagenome sequencing in melanoma patients undergoing immunotherapy. Transcriptional expression of metagenomic pathways was confirmed with metatranscriptome sequencing. They also examined associations of taxa and metagenomic pathways with progression-free survival (PFS). This dataset contains 16S rRNA gene...

Generation R is an ongoing prospective cohort study of child development from the prenatal period through young adulthood in a multi-ethnic population recruited from the Rotterdam, Netherlands metropolitan area. The study enrolled 9,778 mothers with a delivery date between April 2002 and January 2006; they had 9,749 live births. The primary objective of the study is to identify early environmental...

This study created an experimental model to assess the effects of early-life exposures to antibiotics on the intestinal microbiota and gene expression in the brain. For this study, C57BL/6 mice were breed for 5 days and the pregnant dams were randomized into 3 treatment groups. First group was treated with low-dose penicillin G in their drinking water starting during the last week of pregnancy and...

Patients with Alzheimer’s disease (AD) have altered intestinal microbiota. Studies have shown that reduced intestinal microbiota in AD animal models decreases amyloid-beta (Aβ) plaque deposition. This age-related changes in the microbiota contribute to immunologic and physiologic decline. Previous study indicated that calorie restriction (CR) reduced brain Aβ deposition in Tg2576 mouse model of AD....

To investigate the relationship between gut microbiome dysbiosis and translocation of bacteria into the blood during SARS-CoV-2 infection in humans, researchers analyzed the blood culture and stool samples from positive COVID-19 patients who were seen at NYU Langone Health and Yale New Haven Hospital in 2020. 67 stool samples were obtained from 60 patients at NYU Langone Health and 63 samples were...

To investigate the causal relationship between SARS-CoV-2 infection and gut microbiome dysbiosis, researchers inoculated heterozygous K18-hACE2 male mice with one of four doses (10, 100, 1000, and 104 PFU) of SARS-CoV-2 or mock treatment diluted in phosphate-buffered saline (PBS). Fecal samples were collected from mice daily for microbiome analyses from day 0 (before infection) until sacrifice on days...

Helminth colonization has been associated with altered composition of the gut microbiota, such as increases in Clostridia. However, it is unclear if specific bacterial species display differential effects on helminth reproduction. This study isolated and sequenced the genome of 13 Clostridia from the Orang Asli, an indigenous population in Malaysia with a high prevalence of helminth infections. Metagenomic...

Early-life antibiotic exposures during postnatal development have lasting effects on microbiota composition. Previous studies in humans and mice have found altered microbial composition to be associated with enhanced disease susceptibility and modified immune status. They investigated impact of timing of antibiotic exposure by treating 5 to 9 days C57BL/6J mice with two of the most commonly prescribed...

This study identified the gut microbiome during an acute enteric infection in patients with and without inflammatory bowel disease (IBD). A cross-sectional study was performed on 260 patients who underwent stool testing and tested positive for Clostridioides difficile, Escherichia coli, or norovirus, or negative for all pathogens, and 25 healthy controls. They collected the following data from the...