(Q34117497)

31 July 2017

Genome-wide identification of transcriptional start sites in the plant pathogen Pseudomonas syringae pv. tomato str. DC3000. (English)

1 reference

31 July 2017

Pseudomonas syringae

1 reference

10

1 reference

31 July 2017

3

Christopher R Myers

1 reference

31 July 2017

Hanh Lam

6

0 references

author name string

Melanie J Filiatrault

1

1 reference

31 July 2017

Paul V Stodghill

2

1 reference

31 July 2017

Philip A Bronstein

4

1 reference

31 July 2017

Bronwyn G Butcher

5

1 reference

31 July 2017

George Grills

7

1 reference

31 July 2017

Peter Schweitzer

8

1 reference

31 July 2017

Wei Wang

9

1 reference

31 July 2017

Samuel W Cartinhour

11

1 reference

31 July 2017

language of work or name

English

0 references

publication date

28 December 2011

1 reference

31 July 2017

1 reference

31 July 2017

6

1 reference

31 July 2017

12

1 reference

31 July 2017

e29335

1 reference

Creative Commons CC0 License

31 July 2017

start time

28 December 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted, dedicated to the public domain by copyright holder

0 references

cites work

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Redefining Escherichia coli σ(70) promoter elements: -15 motif as a complement of the -10 motif

28 July 2018

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28 July 2018

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Characterization of the Fur regulon in Pseudomonas syringae pv. tomato DC3000

28 July 2018

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The dawning era of comprehensive transcriptome analysis in cellular microbiology

28 July 2018

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Direct and indirect effects in the regulation of overlapping promoters

28 July 2018

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Prokaryotic whole-transcriptome analysis: deep sequencing and tiling arrays

28 July 2018

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An experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803.

28 July 2018

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Next-generation genomics of Pseudomonas syringae

28 July 2018

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Construction of an rsmX co-variance model and identification of five rsmX non-coding RNAs in Pseudomonas syringae pv. tomato DC3000.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Studying bacterial transcriptomes using RNA-seq

28 July 2018

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Widespread antisense transcription in Escherichia coli.

28 July 2018

1 reference

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Structural and operational complexity of the Geobacter sulfurreducens genome.

28 July 2018

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Bacillus anthracis genome organization in light of whole transcriptome sequencing

28 July 2018

1 reference

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Transcriptome analysis of Pseudomonas syringae identifies new genes, noncoding RNAs, and antisense activity

28 July 2018

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The primary transcriptome of the major human pathogen Helicobacter pylori

28 July 2018

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Deep sequencing-based discovery of the Chlamydia trachomatis transcriptome

28 July 2018

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A single-base resolution map of an archaeal transcriptome

28 July 2018

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The transcription unit architecture of the Escherichia coli genome

28 July 2018

1 reference

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Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli

28 July 2018

1 reference

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A subset of the diverse COG0523 family of putative metal chaperones is linked to zinc homeostasis in all kingdoms of life

28 July 2018

1 reference

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Evidence for a major role of antisense RNAs in cyanobacterial gene regulation

28 July 2018

1 reference

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Next generation sequencing of microbial transcriptomes: challenges and opportunities.

28 July 2018

1 reference

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Contributions of Zur-controlled ribosomal proteins to growth under zinc starvation conditions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Prevalence of transcription promoters within archaeal operons and coding sequences.

28 July 2018

1 reference

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MEME SUITE: tools for motif discovery and searching

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Global transcriptional responses of Pseudomonas syringae DC3000 to changes in iron bioavailability in vitro

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

RNA-Seq: a revolutionary tool for transcriptomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Roadmap to new virulence determinants in Pseudomonas syringae: insights from comparative genomics and genome organization

28 July 2018

1 reference

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Characterization of the PvdS-regulated promoter motif in Pseudomonas syringae pv. tomato DC3000 reveals regulon members and insights regarding PvdS function in other pseudomonads

28 July 2018

1 reference

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SOAP: short oligonucleotide alignment program

28 July 2018

1 reference

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The bacterial enzyme RppH triggers messenger RNA degradation by 5' pyrophosphate removal.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Sigma factors in Pseudomonas aeruginosa

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Initiation of RNA decay in Escherichia coli by 5' pyrophosphate removal

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

High-throughput identification of transcription start sites, conserved promoter motifs and predicted regulons.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Whole-genome expression profiling defines the HrpL regulon of Pseudomonas syringae pv. tomato DC3000, allows de novo reconstruction of the Hrp cis clement, and identifies novel coregulated genes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Escherichia coli RNA polymerase recognition of a sigma70-dependent promoter requiring a -35 DNA element and an extended -10 TGn motif

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Transcriptional interference--a crash course

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Metal ion homeostasis in Bacillus subtilis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

A novel method for accurate operon predictions in all sequenced prokaryotes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Two simple media for the demonstration of pyocyanin and fluorescin

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Comparative genomics of bacterial zinc regulons: enhanced ion transport, pathogenesis, and rearrangement of ribosomal proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Factors affecting start site selection at the Escherichia coli fis promoter

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Global genomic analysis of AlgU (sigma(E))-dependent promoters (sigmulon) in Pseudomonas aeruginosa and implications for inflammatory processes in cystic fibrosis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The alternative sigma factor RpoN is required for hrp activity in Pseudomonas syringae pv. maculicola and acts at the level of hrpL transcription

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The heat shock response of Escherichia coli.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Improved microbial gene identification with GLIMMER

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Eubacterial sigma-factors

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Mucoid-to-nonmucoid conversion in alginate-producing Pseudomonas aeruginosa often results from spontaneous mutations in algT, encoding a putative alternate sigma factor, and shows evidence for autoregulation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The algT (algU) gene of Pseudomonas aeruginosa, a key regulator involved in alginate biosynthesis, encodes an alternative sigma factor (sigma E)

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Compilation and analysis ofEscherichia colipromoter DNA sequences

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

Analysis of E. coli promoter sequences

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The -24/-12 promoter comes of age.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The fliA (rpoF) gene of Pseudomonas aeruginosa encodes an alternative sigma factor required for flagellin synthesis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247240

The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo.

28 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

Axiom of determining transcription start points by RNA polymerase in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

EasyGene--a prokaryotic gene finder that ranks ORFs by statistical significance

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

Alternative promoters in the pst operon of Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

Regulation of pyrimidine biosynthetic gene expression in bacteria: repression without repressors

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

Transcriptome Complexity in a Genome-Reduced Bacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0029335

Identification of new internal promoters of the Xanthomonas oryzae pathovar oryzae gum gene cluster

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22216251

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The identity of the transcription +1 position is crucial for changes in gene expression in response to amino acid starvation in Bacillus subtilis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22216251

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22216251

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0029335

1 reference

31 July 2017

0 references

1 reference

31 July 2017

1 reference