Spearman correlation of normalized relative abundances between MAGs from TBE6 and taxa in the epilimnion of the environment of origin (Trout Bog Lake).

Slides:



Advertisements
Similar presentations
Heat maps summarizing Spearman correlations between log10-transformed cytokine levels (log IL-6, CCL-2, TNF, and VEGF-A [in picograms/milliliter]) in blood.
Advertisements

Exploration of the data set with age as a continuous variable.
Fig. 2. Associations between bacterial taxa abundance ascertained by fecal shotgun metagenomic sequencing and the fecal metabolome in healthy pediatric.
Robust and reliable DNA typing of soils
Differential abundance of bacterial families.
(a) Bifurcating tree generated from hierarchical clustering of OTUs based on mean pH. (a) Bifurcating tree generated from hierarchical clustering of OTUs.
Fluoride affects stool-derived taxa found in the oral cavity.
Rank abundance plots by taxonomic genus assignments for metagenomic data (top three rows) and metatranscriptomic data (bottom two rows). Rank abundance.
(A) Refined profile principal component analysis loading weights plot was used to derive insight into possible association of biomarkers. (A) Refined profile.
Correlation between abundances of butyrate-forming pathways (A), of terminal enzymes linked to the acetyl-CoA pathway (B), and of all individual taxa harboring.
5-ALA increased porphyrin production, which was further enhanced by vitamin B12 supplementation in acne-associated type IA-2 strains. 5-ALA increased porphyrin.
Family level bar plots generated in QIIME 1. 9
Isolation and phylogenetic characterization of ISS strains.
Positions of LSUCC isolates relative to matching OTUs within the top 60 ranks for the most successful experiment, CJ2, which is enlarged to allow for OTU.
Relative abundances of dominant phyla in each treatment and indicator genera in PyOM300, PyOM700, and control soils. Relative abundances of dominant phyla.
Example usage of mockrobiota MC resource for marker gene and metagenome sequencing pipelines. Example usage of mockrobiota MC resource for marker gene.
Differential relative abundance of major taxa for successive pairwise comparisons. Differential relative abundance of major taxa for successive pairwise.
Comparison of the original ITS primer pair and the new, modified ITS primer pair. Comparison of the original ITS primer pair and the new, modified ITS.
Pearson correlation of gene expression identifies distinct groups of male- and female-enriched genes. Pearson correlation of gene expression identifies.
(A) Tiled view of an ESOM map constructed using all 51 metagenome bins assembled from the samples collected in this study, with the white square encompassing.
(a) Hierarchical clustering of closed-reference OTUs based on mean pH; (b) balance of low-pH-associated organisms (3.8 < mean pH < 6.7) and high-pH-associated.
Proportion of 16S rRNA gene sequences in each category of phylogenetic novelty relative to cultures for each environment, by amplicons, metagenomes (without.
Forensic analysis of soils using single arbitrarily primed amplification and high throughput sequencing  Anastasia S. Khodakova, Leigh Burgoyne, Damien.
The Inuit microbiome has a community composition similar to that of the Western microbiome. The Inuit microbiome has a community composition similar to.
Cecal metabolome during C. difficile colonization and infection.
KEGG pathway analysis of the C
Relative ITS2 abundance of Saccharomyces in stool over time as a Saccharomyces cerevisiae-free diet was consumed. Relative ITS2 abundance of Saccharomyces.
Gene expression separates male and female single gametocytes into distinct populations. Gene expression separates male and female single gametocytes into.
Compositional PCA plot of samples (A) and OTU loadings (B) for the initial data set. Compositional PCA plot of samples (A) and OTU loadings (B) for the.
Co-occurrence network in tongue microbiota of 506 elderly adults built from SparCC correlation coefficients between sequence abundances. Co-occurrence.
C. difficile colonization alters gene transcription of taxonomic groups differentially between antibiotic pretreatments. C. difficile colonization alters.
Relative abundances of microeukaryotic taxa detected by ITS2 analysis of DNA or cDNA from stool. Relative abundances of microeukaryotic taxa detected by.
Relationship between relative abundance and transcription/abundance ratio (logarithmic scales) of OTUs (brown), ZOTUs (turquoise), and population genomes.
Comparison of taxonomic differences between stool microbiota from healthy patients and stool microbiota from ICU patients and stool from healthy patients.
mtDNA genotypes correlate with gut microbiota composition.
The Amazon viral scaffolds and viral genomes most important for river and plume segregation. The Amazon viral scaffolds and viral genomes most important.
Gallium isotopes at m/z and 70
Fig. 1 A phylogenetically cohesive core rumen microbiome was found across farms with highly conserved hierarchical structure and tight association to overall.
Heatmap showing Spearman’s rho values for significant correlations between weed abundances and bacterial classes (i.e., OTU data pooled at the class level;
OTU and family-level changes in murine gut as a result of acarbose feeding on a high-starch diet. OTU and family-level changes in murine gut as a result.
Distribution of signaling molecules in a section of P
Spearman’s correlation analysis of microbiota and NMR spectra of the control and ciprofloxacin groups (A, C) or the vancomycin-imipenem group (B, D) after.
Bacterial composition of olive fermentations is affected by microbial inoculation. Bacterial composition of olive fermentations is affected by microbial.
Functional microbiome differences between high-fat and standard chow diets. Functional microbiome differences between high-fat and standard chow diets.
ITS rRNA gene locus. ITS rRNA gene locus. Schematic of the eukaryotic ribosomal gene cluster. The SILVA database contains sequences of the 18S gene, while.
Heterotrophic and autotrophic particle (cell) abundance in water column. Heterotrophic and autotrophic particle (cell) abundance in water column. Small.
KEGG cluster of DEGs of S
Dominant bacterial phyla found in different stages.
CT production profiles of single-SNP strains and double-, triple-, and quadruple-SNP combination strains. CT production profiles of single-SNP strains.
Distribution of the diversity numbers of antibiotic resistance and virulence factor protein families by environmental metagenomes’ protein family richness.
Comparison between early-life and year 2 AMR levels.
LEfSe comparison analysis between the control and ciprofloxacin or vancomycin-imipenem groups at the end of antibiotic treatment (A or B, respectively)
Accumulation of the lipid A pathway intermediate UDP-3-O-[(R)-3-OH-C14]-GlcNAc in the fabZ (FabZR121H) mutant JWM0009 determined by LC-MS/MS. Accumulation.
Beta-diversity analyses of microbial taxa recovered from ATM keypads.
Normalized abundance of tetracycline resistance genes in Swedish infants by AMR++. Normalized abundance of tetracycline resistance genes in Swedish infants.
Taxonomical distribution of the major phyla in the inoculum and gnotobiotic chicken gut at day 9 and day 18. Taxonomical distribution of the major phyla.
Locations of the Riverton City dump and adjacent Duhaney River sampling sites. Locations of the Riverton City dump and adjacent Duhaney River sampling.
Bipartite co-occurrence networks were generated in CoNet and visualized in Cytoscape to display significant strong positive and negative co-occurring relationships.
Small-molecule inhibitor reduced porphyrin production in P
Hierarchically clustered heat map showing correlations between the relative abundances of microbial species and the levels of volatile compounds in kefir.
Relative proportions of taxa and UPGMA hierarchical clustering of the mock communities. Relative proportions of taxa and UPGMA hierarchical clustering.
Relative abundance of taxa in the 16S rRNA PCR amplicon and gDNA mock communities. Relative abundance of taxa in the 16S rRNA PCR amplicon and gDNA mock.
Acarbose reversibly changes the structure of the murine gut community.
Total ARG reads normalized by read length and 16S gene read count in early life in Bangladesh. Total ARG reads normalized by read length and 16S gene read.
Comparison of 16S sequencing and shallow shotgun recovery of species-level taxa. Comparison of 16S sequencing and shallow shotgun recovery of species-level.
GBM cells infected in vitro with HCMV divide less often than uninfected cells do. GBM cells infected in vitro with HCMV divide less often than uninfected.
GBM 112 and GBM 144 cells infected in vitro with HCMV resist growth inhibition by temozolomide. GBM 112 and GBM 144 cells infected in vitro with HCMV resist.
Batch variation of formulations from two products by two different genomic-scale techniques. Batch variation of formulations from two products by two different.
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.
Relative abundances of bacterial/archaeal groups in 16S rRNA data set.
Presentation transcript:

Spearman correlation of normalized relative abundances between MAGs from TBE6 and taxa in the epilimnion of the environment of origin (Trout Bog Lake). Spearman correlation of normalized relative abundances between MAGs from TBE6 and taxa in the epilimnion of the environment of origin (Trout Bog Lake). Metagenome samples from 45 time points were used. Correlations are sorted using hierarchical clustering. MAG names that start with TBE6 refer to the MAG number from the mixed-culture. MAG names starting with the words “time series” represent bins from a 9-year metagenome time series (23). The acI MAGs are in bold. To view the correlation matrix that was derived from time series metagenomic sequencing of the hypolimnion and from both the epilimnion and the hypolimnion combined, see the supplemental material (Fig. S2 and S3). Sarahi L. Garcia et al. mSphere 2018; doi:10.1128/mSphere.00202-18