Functional potential analyses.

Slides:



Advertisements
Similar presentations
Cladogram presenting a hierarchical overview of the MetaCyc pathways detected in the kefir microbiome with HUMAnN2. Cladogram presenting a hierarchical.
Advertisements

Boxplots displaying relative percent abundance of consistent abundance-based microbiome members present in the tissue, mucus, and holobiont (Holo) fractions.
Faecalibacterium prausnitzii subspecies–level dysbiosis in the human gut microbiome underlying atopic dermatitis  Han Song, PhD, Young Yoo, MD, PhD, Junghyun.
Cooccurrence network for dolphin rectum microbiome.
Correlation between the ability of Novosphingobium strains from four different habitats to degrade aromatic and xenobiotic compounds. Correlation between.
Relative abundances of the top 10 most abundant OTUs across all fish samples are shown along with the data from the probiotic B. pumilus RI06-95 (OTU 3673)
Fig. 1. Associations between fecal amino acids and their derivatives with disease in pediatric patients with Crohn’s disease compared to healthy subjects.
Fig. 2. Associations between bacterial taxa abundance ascertained by fecal shotgun metagenomic sequencing and the fecal metabolome in healthy pediatric.
Quantification of antibiotic resistance marker and virulence factor abundances on subway surfaces. Quantification of antibiotic resistance marker and virulence.
Intervention effects on taxonomic and functional pathway diversity of the intestinal microbiome. Intervention effects on taxonomic and functional pathway.
Gut microbial diversity of mice in voluntary and forced exercise groups. Gut microbial diversity of mice in voluntary and forced exercise groups. Weighted.
Metabolic pathway changes of intracellular M. tuberculosis.
Magnitude of mRNA fold change is best predictor of mRNA-to-protein correlation. Magnitude of mRNA fold change is best predictor of mRNA-to-protein correlation.
1H NMR-based fecal metabolomics assessment of gut microbial functional activity in response to monkey milk, standard infant formula, or B. lactis-supplemented.
Succession of the butyrate-producing community after birth.
Strain-level phylogenetic trees for microbes present in both the mother and infant. Strain-level phylogenetic trees for microbes present in both the mother.
Nonmetric multidimensional scaling (NMDS) plots of fecal and biopsy sample-based Bray-Curtis distances computed from the relative abundances of the 258.
(a) Correspondence analysis of 88 soil samples.
Meta-analysis of the Listeriomics transcriptomic data sets.
Transcription levels of metabolic pathways and genes in mother and infant pair 4 at time point 2. Transcription levels of metabolic pathways and genes.
(A) Heat maps illustrate the percent abundances of the most abundant genera (all OTUs taxonomically classified to the same genus were collapsed into a.
Differences in microbiome between control and BPA-exposed rabbit offspring and dams according to linear discriminant analysis effect size (LEfSe). Differences.
Genes affected concordantly within the ileum and meta-analysis data sets formed biofunctional clusters of overlapping pathways. Genes affected concordantly.
Bettina Heidecker et al. BTS 2016;1:
(A) Mean concentration of HMOs (in milligrams per milliliter, ± SD) in milk among mothers in the study. (A) Mean concentration of HMOs (in milligrams per.
Population characteristics.
Distributions of pairwise correlation coefficients from cooccurrence models computed from temporal data (fecal) and spatial data (biopsy samples; means.
Statistical comparison of metabolites and analysis of differential metabolites and key metabolic pathways. Statistical comparison of metabolites and analysis.
Pairwise analysis of detected virus taxonomy prior to and following intervention. Pairwise analysis of detected virus taxonomy prior to and following intervention.
Comparison of distal gut metabolite profiles between Egyptian and U. S
Expression maps of selected metabolic pathways of Protochlamydia.
Enterotypes of the distal gut microbial profiles.
Stability of fecal microbiomes in different preservatives and under different temperature treatments. Stability of fecal microbiomes in different preservatives.
Percentages of reactions showing different fluxes at doubled HCO3 levels per group as identified by the solution space sampling of the genome-scale metabolic.
PICRUSt analysis results of predicted functional pathways in the gut microbiota. PICRUSt analysis results of predicted functional pathways in the gut microbiota.
Cecal metabolome during C. difficile colonization and infection.
A typical current computational meta'omic pipeline to analyze and contrast microbial communities. A typical current computational meta'omic pipeline to.
16S rRNA gene survey reveals a moderate impact of formula-based B
Metabolite predictability is consistent between vaginal and mouse cecal data sets. Metabolite predictability is consistent between vaginal and mouse cecal.
Framework for integrating taxonomic and metabolomic data.
Exploration of gut and skin microbiome of the habitat switching experiment with Calour. Exploration of gut and skin microbiome of the habitat switching.
A case study of RPCA feature loadings on real data sets; sponge (left; A and C) and sleep apnea (right; B and D). A case study of RPCA feature loadings.
PKS distribution. PKS distribution. (A) Network map for known (purple) and unknown (yellow) PKS clusters, with the cluster number at each node and the.
Microbial composition of mother and infant samples and shared bacteria within mother-infant pairs. Microbial composition of mother and infant samples and.
Benchmarks of OTU picking tools on artificial communities.
Shifts in the microbial community compositions of the control and antibiotic groups. Shifts in the microbial community compositions of the control and.
Reanalysis of an existing experiment using ADAGE
Superspacers shared between viral strains.
Differences in Verrucomicrobia genera across plant community types.
Schematic depicting the Gcn5-regulated metabolic pathways.
Detection of spiked bacteria.
Enrichment of KEGG pathways in microbial genes in different samples.
Functional microbiome differences between high-fat and standard chow diets. Functional microbiome differences between high-fat and standard chow diets.
K-means clusters of T. elongatus and M
The log-transformed reporter Z scores of the metabolic pathways showing significant differences between the PCOS and control groups. The log-transformed.
A, unsupervised hierarchical clustering of the expression of probe sets differentially expressed in the oral mucosa of smokers versus never smokers. A,
Double-hierarchical clustering analysis.
Comparison between early-life and year 2 AMR levels.
CREBBP loss-of-function results in gene expression repression signature. CREBBP loss-of-function results in gene expression repression signature. A–D,
Comparison of baseline microbiome profiles from both types of samples, saliva and feces (A), and per sample type, feces (B) and saliva (C), by study site,
Hierarchically clustered heat map showing correlations between the relative abundances of microbial species and the levels of volatile compounds in kefir.
Effects of antibiotics on microbiome profiles of feces (A) and saliva (B) from the KI study and feces (C) and saliva (D) from the HP study. Effects of.
Variations in beta and alpha diversity of gut microbiome bacterial communities in relation to presence of Blastocystis. Variations in beta and alpha diversity.
Dynamic Bayesian inference network.
Effect of bloom filtering on American Gut data.
Pathway-based analysis of the differentially expressed proteins in colonic mucosa. Pathway-based analysis of the differentially expressed proteins in colonic.
Comparison of 16S sequencing and shallow shotgun recovery of species-level taxa. Comparison of 16S sequencing and shallow shotgun recovery of species-level.
Fig. 4 The abundance of Bifidobacterium in breast-fed infant guts is associated with FL transporter genes. The abundance of Bifidobacterium in breast-fed.
Relative abundance and expression of the 10 most abundant MAGs in the bioreactor at day 96. Relative abundance and expression of the 10 most abundant MAGs.
Infant skin and oral mycobiomes by birth mode.
Presentation transcript:

Functional potential analyses. Functional potential analyses. (A) HUMAnN2 heat map reporting the 25 most abundant pathways in the fecal samples of mothers and infants. Specific pathways of interest (sugars, mucin, and folate metabolism) are added at the bottom. The asterisk (*) near the heat map highlights statistically significant pathways. (B) Multidimensional scaling (MDS) result from functional potential profiles, showing the differences between fecal samples of mothers and infants and milk samples. In particular, the infant feces point in the mother feces cluster corresponds to time point 3 of pair 5, showing a shift from the infant microbiome toward an adult-like microbiome. (C) HUMAnN2 results for the 25 most abundant pathways found only in the milk samples. TCA, tricarboxylic acid. Francesco Asnicar et al. mSystems 2017; doi:10.1128/mSystems.00164-16