Table S3. Aggregated statistics for multiple testing correction, from the taxonomic and dietary diversity linear models, related to Figures 3, S6, S7, and S8 Table S4. Metagenomics profiling QC statistics, rela
Zhao S, Lieberman TD, Poyet M, Kauffman KM, Gibbons SM, Groussin M, et al. Adaptive evolution within gut microbiomes of healthy people. Cell Host & Microbe. 2019. Schloss PD, Gevers D, Westcott SL. Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studi...
et al. Stool multi-omics for the study of host–microbe interactions in inflammatory bowel disease. Gut Microbes 14, 2154092 (2022). Article PubMed PubMed Central Google Scholar Miura, N. & Okuda, S. Current progress and critical challenges to overcome in the bioinformatics of mass ...
However, these large-scale gut microbe cultivations and characterizations mainly focused on humans but scarcely on animal models. Several studies have demonstrated that human-originated microbes have problems colonizing and functioning in mouse guts23,24,25,26. Thus, the collection of cultured gut ...
[P] estimated using a linear mixed model by fastGWA. The plottedP values are not adjusted for multiple testing. The red horizontal lines indicate the study-wide significance cutoffs determined using the Bonferroni method: 3.00 × 10−11for dSV and 2.65 × 10−11for vSV ...
In recent years, efforts have also been made to use mouse models that resemble human microbiota to study various human diseases and host-microbe interaction. A number of experimental studies have successfully engrafted core human microbiota in both germ free and mice treated with antimicrobials (HMA...
The resident commensal cohort adapts to the local environmental/milieu conditions of the human host and establishes a complex ecosystem in which host–microbe, milieu–microbe and microbe–microbe interactions oversee the composition and dynamics of the GIT microbial and host cell community. A recent ...
Typically, animal models studying gastrointestinal microbiotas compromised in early life have employed either germ-free animals or mice treated with a cocktail of antibiotics. Such studies intend to mimic scenarios of infants born by caesarean section an
(version 3.5.2). Due to the interdependence between paired tumour and normal tissues, the signed relative change of microbe abundance and metabolite concentration between paired tissues were used for the calculation of the correlations. Correlations were considered statistically significant if thep-value...
It is known that gut microbiome changes can cause an increase in gut barrier permeability which can lead to microbe translocation and leakage of gut-derived products, causing oxidative stress, inflammation, and liver function perturbation (Meng et al., 2018). PFOS exposure also resulted in ...