Locations of constitutive promoters of RNAP RpoD holoenzyme within prophages. Locations of constitutive promoters of RNAP RpoD holoenzyme within prophages.

Slides:



Advertisements
Similar presentations
V. Transcription (DNA-directed RNA synthesis) A. Prokaryotes: RNA polymerase, Promoters – sigma factor B. Eukaryotes: RNA polymerases, Promoters – transcription.
Advertisements

BACKGROUND E. coli is a free living, gram negative bacterium which colonizes the lower gut of animals. Since it is a model organism, a lot of experimental.
Figure 1.1 The observer in the truck sees the ball move in a vertical path when thrown upward. (b) The Earth observer views the path of the ball as a parabola.
Kostelecky et al. 2006, Journal of Bacteriology The Crystal Structure of the Zinc Phosphodiesterase from Escherichia coli Provides Insight into Function.
Flowchart of participant screening, enrollment, withdrawal, and protocol completion Asterisk indicates those with partial or missing data included in analyses.
Comparisons of “even” mock communities (a) and “staggered” mock communities (b) sequenced by MiSeqPE300 and HiSeqPE250. Comparisons of “even” mock communities.
' d' :- '" L I _ I r 1.
Checklist for Site Reconnaissance (Sabatini et al_2002)
Finn Werner, Robert O.J Weinzierl  Molecular Cell 
Fig. 4. Liver HBV mRNA paired-end sequencing reads in HBeAg-positive and HBeAg-negative chimpanzees. Liver HBV mRNA paired-end sequencing reads in HBeAg-positive.
Gut environment context affects C
The dicBF locus is conserved in E. coli species in different prophages
Chromatin binding sites shared by pCREB1 and ERα are predominantly cAMP induced. Chromatin binding sites shared by pCREB1 and ERα are predominantly cAMP.
Formula feeding affects the resistome.
The Antisense Transcriptomes of Human Cells
PM analysis of wild-type E. coli K-12 and its rpoZ-defective mutant.
Voluntary but not forced exercise alters food consumption in mice.
Volatile compounds detected in cheese by GC-MS and faceted heat map showing the variation of volatile compounds between the cheeses at days 0, 18, 24,
Incidence and spatial extent of epileptiform events observed in widefield calcium imaging. Incidence and spatial extent of epileptiform events observed.
Simulated growth rates as a function of altered biomass compositions.
Transposons invade maternal genome in vas, mnk double mutant flies.
Example of processed data visualized with “Peak Browser” of ChIP‐Atlas
Genome-wide analysis of p53 occupancy.
Generating ChIP-seq profiles from 18G core needle biopsies from radical prostatectomy samples. Generating ChIP-seq profiles from 18G core needle biopsies.
Locations of genes that exhibited decreased levels of distribution of the RpoZ-defective RNAP. The genes that showed decreased-level distribution of RpoZ-defective.
Ann Hochschild, Simon L Dove  Cell 
Organization of an Activator-Bound RNA Polymerase Holoenzyme
Standard Annotation Presentation
Multilayered cooccurrence network analysis of OTUs that exhibited a significant positive Spearman’s correlation with oxalate consumption at the end of.
Pathway analysis of genes upregulated after RSV infection.
Four major patterns identified through hierarchical clustering plotted by IPD ratio over time. Four major patterns identified through hierarchical clustering.
Mapping of the FD binding site in the AP1 promoter.
Volume 20, Issue 3, Pages (November 2005)
Log- to stationary-phase growth results in differential acetyl abundance on specific proteins. Log- to stationary-phase growth results in differential.
Molecular network analysis of UPLC-Q-TOF MS2 data.
T7 transcripts increase relative to E. coli transcripts over time.
Detection of H3K9ac enrichment peaks during the 9-d timeframe of dox-induced mitDNA depletion by ChIPseq. Detection of H3K9ac enrichment peaks during the.
Increased signal intensity and significant enrichment of transcription factor motifs is observed with DSG in breast tissue. Increased signal intensity.
Increased signal intensity and significant enrichment of transcription factor motifs is observed with DSG in primary prostate tissue. Increased signal.
ChIP-seq analyses in primary breast tissue.
ChIP-seq analyses in primary in prostate tissue.
Increased signal intensity and significant enrichment of transcription factor motifs is observed with DSG in endometrial tissue. Increased signal intensity.
Fig. 2. Proportion of motile objects and track length
Comparisons of “even” mock communities (a) and “staggered” mock communities (b) sequenced by MiSeqPE300 and HiSeqPE250. Comparisons of “even” mock communities.
Sequence similarity network of 436 TonB-dependent transporters from 153 different Roseobacter genomes. Sequence similarity network of 436 TonB-dependent.
Response of BW YPO consomic males to glucose and insulin challenges.
Genomic phylogeny reveals the long-term coexistence of diverse clades.
Genomic organization of the fruBKA locus in Escherichia coli K-12 and Pseudomonas putida KT2440 and structure of the Cra binding site. Genomic organization.
The Bov-A2 element is conserved in the NOS2 gene of bovid species.
Distribution of ARGs in RefSoil genomes and plasmids.
Mapping positions of QTL across five traits
Female responses to two-monitor control playbacks.
Differences in Verrucomicrobia genera across plant community types.
Enrichment of miRNAs among DPAR genes and their relative expression under dietary restriction. Enrichment of miRNAs among DPAR genes and their relative.
Schematic representation of accessory elements carrying virulence or fitness factors in the V. anguillarum strains. Schematic representation of accessory.
Transcription/abundance ratios (logarithmic scale) of OTUs, ZOTUs, and population genomes of selected microbial orders. Transcription/abundance ratios.
Sequence variation of 16S rRNA gene primer-binding sites.
The MEG3 promoter and enhancer interact with other putative enhancers within the DLK1-MEG3–imprinted region. The MEG3 promoter and enhancer interact with.
Differential alterations of metabolites associated with synthesis of lipopolysaccharide (A) and peptidoglycan (B) in strains PAK and PAKpmrB6 in response.
Nucleotide sequences of the IS1016-bexAdeletion region of type b strain Hib and type a strains 1, 2, and 5. Nucleotide sequences of the IS1016-bexAdeletion.
Fig. 2 Assignment of back-exchanged deuterated NaK2K.
Increased levels of branching on serum glycoproteins from patients with HCC. A, focus on larger branched glycans from 4 representative cirrhotics, and.
The genes pykA and xylR are posttranscriptionally regulated by DicF.
Prophage genome map of the C. diphtheriae prophage encoding DT
Gene regulatory regions of the insect/crustacean egr-B homologs.
LAIV enhances bacterial load and duration of staphylococcal carriage.
Fig. 3 Double-resonance solid-state NMR data of ceria nanoparticles.
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.
ChIP-chip analysis of wild-type (WT) and RpoZ-defective mutant RNAP
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.
Presentation transcript:

Locations of constitutive promoters of RNAP RpoD holoenzyme within prophages. Locations of constitutive promoters of RNAP RpoD holoenzyme within prophages. Genomic SELEX screening was performed to search for promoters recognized by RNAP RpoD holoenzyme. Most of the prophages lack promoters with high-level activity. Significant peaks were detected in several prophages as indicated by asterisks: *a, argF promoter (CP4-6 prophage); *b, lit promoter (e14 prophage); *c, trkG promoter (Rac prophage); *d, smpB promoter (CP4-57 prophage boundary). See Fig. S2A for the binding sites of RNAP RpoD holoenzyme along the entire genome of E. coli K-12. Kaneyoshi Yamamoto et al. mSystems 2018; doi:10.1128/mSystems.00172-17