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

Slides:

Advertisements

Similar presentations

Comprehensive Analysis of Tissue-wide Gene Expression and Phenotype Data Reveals Tissues Affected in Rare Genetic Disorders Ariel Feiglin, Bryce K. Allen,

Advertisements

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

Fig. 7. Gradient of adipocyte size and FAI around the human coronaries in the presence or absence of coronary atherosclerosis. Gradient of adipocyte size.

Sensitivity, specificity, positive predictive value, and negative predictive value for the different cutoffs used. Sensitivity, specificity, positive predictive.

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

Fig. 8. Gene and protein changes in ALK-dependent STING pathways in human sepsis. Gene and protein changes in ALK-dependent STING pathways in human sepsis.

Composition of microbial communities in induced sputa of healthy and mild, moderate, severe or very severe (end-stage) lung disease affected individuals.

Fig. 1. Associations between fecal amino acids and their derivatives with disease in pediatric patients with Crohn’s disease compared to healthy subjects.

Fig. 1. Bacterial communities shift during AD disease progression.

Small RNA profiling reveals deregulated phosphatase and tensin homolog (PTEN)/phosphoinositide 3-kinase (PI3K)/Akt pathway in bronchial smooth muscle.

The butyrate-producing community during disturbance.

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

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

Bacterial biomarkers associated with disease severity.

ADAGE model example. ADAGE model example. For one sample in the expression compendium (one column in the figure with red or green colors, representing.

Differential abundance of bacterial families.

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.

Correlation of mouse gene expression with bacterial gene expression.

Relative abundances (percent) of genes that code for key enzymes involved in direct and indirect butyrate production during glucose fermentation at different.

The similar shifts of gut microbiota in IBD across cohorts.

Rhinovirus (RV) infection induces caspase-1 expression in bronchial epithelial cells in asthma. Rhinovirus (RV) infection induces caspase-1 expression.

Example of amplicon performance in our presented workflow.

Comprehensive Analysis of Tissue-wide Gene Expression and Phenotype Data Reveals Tissues Affected in Rare Genetic Disorders Ariel Feiglin, Bryce K. Allen,

A side-by-side comparison of EPVS in a cognitively healthy control versus a patient with aMCI A, A coronal MR brain image of a cognitively healthy control.

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

(a, b) Hypothetical scenario where 2 samples of 2 proportions may explain two different scenarios in the environment. (a, b) Hypothetical scenario where.

Metabolite predictability across metabolic categories (A) and disease states (B) in the vaginal microbiome. Metabolite predictability across metabolic.

Molecular network analysis of UPLC-Q-TOF MS2 data.

Study design and taxonomic composition of vaginal fluid metatranscriptomes in BV during and after treatment with metronidazole. Study design and taxonomic.

Relative abundances of Propionibacterium species in different skin areas determined by 16S rRNA gene sequence analysis of 10 individuals. Relative abundances.

Trends in metabolite predictability in terms of key gene contributors.

Framework for integrating taxonomic and metabolomic data.

MAGs and testes transcript expression levels in the An. gambiae complex. MAGs and testes transcript expression levels in the An. gambiae complex. (A) Percentage.

RNA abundance correlates with fitness.

Targeted and required proteins cluster around targets of human and bacterial viruses. Targeted and required proteins cluster around targets of human and.

Altered mycobiota and bacterial-fungal correlation in AS patients receiving different therapeutic regimens. Altered mycobiota and bacterial-fungal correlation.

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

GATC sites where methylation changes over time correspond to a change in gene expression in a dam mutant. GATC sites where methylation changes over time.

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

Microbial differences found between TPC- and PBS-treated mice with lupus. Microbial differences found between TPC- and PBS-treated mice with lupus. (A)

(A and B) Unweighted (A) and weighted (B) UniFrac clustering of three 16S rRNA hypervariable regions using fragment insertion SATé-enabled phylogenetic.

Cyanophage-host interactions from metatranscriptomic data.

Reanalysis of an existing experiment using ADAGE

Strong parallelism in mutated genes defines adaptations to the environment of CF patient lungs. Strong parallelism in mutated genes defines adaptations.

Comparison of species and function profiles with ultradeep sequencing data. Comparison of species and function profiles with ultradeep sequencing data.

Heatmap showing Spearman’s rho values for significant correlations between weed abundances and bacterial classes (i.e., OTU data pooled at the class level;

Expression of selected genes in the ΔSMcomS strain in response to increasing concentrations of XIP. RT-PCR analysis of gene expression was performed in.

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.

Fig. 5. Vitamin B12 supplementation in the host altered the transcriptome of P. acnes in the skin microbiota. Vitamin B12 supplementation in the host altered.

Bacterial composition of olive fermentations is affected by microbial inoculation. Bacterial composition of olive fermentations is affected by microbial.

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

Venn diagram of core gene overlap of the Tannerella species.

PCoA plots of subgingival samples with disease classification overlaid

The pulmonary microbiome of children with persistent bacterial bronchitis (PBB). The pulmonary microbiome of children with persistent bacterial bronchitis.

Leukemic blasts express a “hypoxia signature

Overall gene expression in monocyte subsets in patients and controls.

Pre- and post-vorinostat values of ER-related gene expression using the Oncotype DX 21-gene assay. Pre- and post-vorinostat values of ER-related gene expression.

Pre- and post-vorinostat values of proliferation-associated gene expression using the Oncotype DX 21-gene assay. Pre- and post-vorinostat values of proliferation-associated.

PAP- and PA2024-specific CTLs at week 0 (prior to sipuleucel-T infusion) and at weeks 6 and 26 post–sipuleucel-T treatment. PAP- and PA2024-specific CTLs.

Levels of select bacteria associated with periodontitis in periodontal pockets of subjects without a diagnosis of diabetes and in subjects with type 2.

MAPK/ERK signaling regulates TLR4 gene expression in response to BRAFV600E. MAPK/ERK signaling regulates TLR4 gene expression in response to BRAFV600E.

Hierarchically clustered heat map showing correlations between the relative abundances of microbial species and the levels of volatile compounds in kefir.

Expression of 20 genes significantly associated with reduced survivability in GBM is shown across 33 TCGA diseases. Expression of 20 genes significantly.

Acarbose reversibly changes the structure of the murine gut community.

Comparison of 16S sequencing and shallow shotgun recovery of species-level taxa. Comparison of 16S sequencing and shallow shotgun recovery of species-level.

Association between genome size and the dN/dS ratio for archaeal (A; n = 21) and bacterial (B; n = 28) genome pairs and association between coding density.

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.

Fig. 3 Postnatal assembly of the humanized gut microbiota.

Differences in the relative abundances of mycobacteria (as determined via 16S rRNA gene sequencing) across households in the United States on municipal.

Infant skin and oral mycobiomes by birth mode.

Presentation transcript:

16S rRNA gene abundance and total gene expression of Tannerella species in healthy patient and periodontitis patient samples. 16S rRNA gene abundance and total gene expression of Tannerella species in healthy patient and periodontitis patient samples. (A) Fractional 16S rRNA gene abundances versus disease and periodontal pocket state for the 3 species. Data are from reference 12. Horizontal lines show the mean values. Wilcoxon rank sum test between healthy subjects and periodontitis patients (whose deep pockets were sampled). T. forsythia P = 1.01 × 10–8; Tannerella sp. BU045 P = 0.00039; Tannerella sp. BU063 P = 0.028. (B) Fraction of metatranscriptomic bacterial protein-coding gene expression for the species in samples from periodontitis patients and healthy controls. Raw data are from reference 30. Horizontal line segments indicate mean values. Wilcoxon rank sum tests: T. forsythia P = 0.0420; Tannerella sp. BU045 P = 0.0312; Tannerella sp. BU063 P = 0.875. Clifford J. Beall et al. mSystems 2018; doi:10.1128/mSystems.00018-18