Rank abundance plots by taxonomic genus assignments for metagenomic data (top three rows) and metatranscriptomic data (bottom two rows). Rank abundance.

Slides:

Advertisements

Similar presentations

STEP 1 Multiply the digits in the ones place. Write the product in the ones place of the answer box. If the product is greater than ten, carry the number.

Advertisements

Additional File 12. HeLa barcode passaging experimental results.

Comparisons of “even” mock communities (a) and “staggered” mock communities (b) sequenced by MiSeqPE300 and HiSeqPE250. Comparisons of “even” mock communities.

16S rRNA gene abundance and total gene expression of Tannerella species in healthy patient and periodontitis patient samples. 16S rRNA gene abundance and.

Metagenomics and metatranscriptomics: Windows on CF-associated viral and microbial communities Yan Wei Lim, Robert Schmieder, Matthew Haynes, Dana Willner,

Boxplots displaying relative percent abundance of consistent abundance-based microbiome members present in the tissue, mucus, and holobiont (Holo) fractions.

Metagenomics and metatranscriptomics: Windows on CF-associated viral and microbial communities Yan Wei Lim, Robert Schmieder, Matthew Haynes, Dana Willner,

Fig. 4 Bacterial taxonomic groups that discriminate among RYGB-, SHAM-, and WMS-derived samples. Bacterial taxonomic groups that discriminate among RYGB-,

Volume 17, Issue 3, Pages (March 2015)

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)

Microbial diversity was broadly compared across three unique built-environment study sites for 16S rRNA amplicon and shotgun metagenome sequencing. Microbial.

Fig. 2. Associations between bacterial taxa abundance ascertained by fecal shotgun metagenomic sequencing and the fecal metabolome in healthy pediatric.

Transdomain taxonomic profiles from subway shotgun metagenomes.

The butyrate-producing community during disturbance.

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.

Fractions of 16S rRNA genes from bacteria (top panel) and archaea (bottom panel) in public databases from primer-amplified metagenomes (with and without.

Formula feeding affects the resistome.

Heat map displaying the abundances of bacterial families identified on plastics particles collected from the North Atlantic Subtropical Gyre (NASG, samples.

Microbial diversity of the 10 body locations sampled.

(a) Bifurcating tree generated from hierarchical clustering of OTUs based on mean pH. (a) Bifurcating tree generated from hierarchical clustering of OTUs.

Voluntary but not forced exercise alters food consumption in mice.

Taxonomic composition of the baboon and human gut microbiota.

(A) Heat maps illustrate the percent abundances of the most abundant genera (all OTUs taxonomically classified to the same genus were collapsed into a.

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.

Box plots of quality scores over positions in sequenced reads.

Structure of benthic microbial communities of residential and industrial land use types before and after two rain events in urban waterways are shown.

Heatmaps of differential OTUs

Bacteria significantly correlated with DE miRNAs.

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.

Stability of fecal microbiomes in different preservatives and under different temperature treatments. Stability of fecal microbiomes in different preservatives.

Proportion of 16S rRNA gene sequences in each category of phylogenetic novelty relative to cultures for each environment, by amplicons, metagenomes (without.

Field community comparisons via 16S and between sequencing runs.

Effects of FMT in sows and/or offspring on median relative abundances (%) of bacterial phyla (A and B) and genera (C and D) in offspring fecal samples.

Transcription of cellulolytic genes disaggregated by genome.

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

Framework for integrating taxonomic and metabolomic data.

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.

C. difficile colonization alters gene transcription of taxonomic groups differentially between antibiotic pretreatments. C. difficile colonization alters.

(A) Taxonomic identity at the phylum level of raw leachate (RL) and enrichment microcosms (E) as determined via Ion Torrent 16S rRNA gene amplicon sequencing.

Taxonomy assessment of metagenes with differential abundance as a result of the AXOS intervention. Taxonomy assessment of metagenes with differential abundance.

Microbial composition of mother and infant samples and shared bacteria within mother-infant pairs. Microbial composition of mother and infant samples and.

Comparisons of “even” mock communities (a) and “staggered” mock communities (b) sequenced by MiSeqPE300 and HiSeqPE250. Comparisons of “even” mock communities.

Relative abundance (RA) of individual phyla that are strongly correlated (|rs| = >0.6; q =

Genomic phylogeny reveals the long-term coexistence of diverse clades.

Ostreococcus and virus-host interactions.

Box plots displaying the median, minimum, maximum, and first and third quartiles of the percentage of the 25 members of the core microbiome detected in.

Comparison of Nonpareil Nd sequence diversity and 16S rRNA gene OTU Shannon H′ taxonomic diversity indices on 90 metagenomes. Comparison of Nonpareil Nd.

Relationship between relative abundance and transcription/abundance ratio (logarithmic scales) of OTUs (brown), ZOTUs (turquoise), and population genomes.

Cyanophage-host interactions from metatranscriptomic data.

Superspacers shared between viral strains.

Differences in Verrucomicrobia genera across plant community types.

Transcription/abundance ratios (logarithmic scale) of OTUs, ZOTUs, and population genomes of selected microbial orders. Transcription/abundance ratios.

Plot of relative abundance of Bifidobacterium animalis (A), Ruminococcus (Ruminococcaceae) (B), and Succinivibrio (Succinivibrionaceae) (C) (repeated-measures.

Above- and belowground community structure along cheatgrass, spotted knapweed, and leafy spurge invasion transects. Above- and belowground community structure.

Enrichment of KEGG pathways in microbial genes in different samples.

Comparison of gut microbiota alpha diversity in different preservatives based on 16S rRNA gene V3-V4 amplicon sequencing. Comparison of gut microbiota.

PCoA plots of subgingival samples with disease classification overlaid

The cystic fibrosis (CF) lower airways metagenome: cumulative presentation of data sets. a, b) Box plot presentation of the absolute frequency and the.

The log-transformed reporter Z scores of the metabolic pathways showing significant differences between the PCOS and control groups. The log-transformed.

Fig. 1 The seven nasal CSTs and their respective bacterial densities shown in boxplots and composition shown in heatmap visualization and non-metric multidimensional.

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.

Comparison of distal gut microbiota composition between Egyptian and U

Integrated analysis of gene expression and copy number alterations.

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.

Tree depicting the phylogenetic relationships of all strains included in this study. Tree depicting the phylogenetic relationships of all strains included.

Most virus-related pyrosequencing reads found in raw sewage represent previously unknown viruses. Most virus-related pyrosequencing reads found in raw.

ADAGE extracted features that represented sequence differences between strains. ADAGE extracted features that represented sequence differences between.

Small RNA sequencing data quality.

Presentation transcript:

Rank abundance plots by taxonomic genus assignments for metagenomic data (top three rows) and metatranscriptomic data (bottom two rows). Rank abundance plots by taxonomic genus assignments for metagenomic data (top three rows) and metatranscriptomic data (bottom two rows). Listed in each box are the top 10 most abundant genera for that environment in the format of phylum_lowest identified taxonomic group, with asterisks (*) denoting archaea. Data are colored for uncultured phyla (teal), uncultured class to genus (pink) or cultured phyla (tan). Taxonomic-based genera that had sequences from multiple phylogeny-based percent identity bins were labeled with the color of the bin with the most sequences. Karen G. Lloyd et al. mSystems 2018; doi:10.1128/mSystems.00055-18