The transcription factor DksA prevents conflicts between DNA replication and transcription machinery (Q42550654)

2 November 2017

The transcription factor DksA prevents conflicts between DNA replication and transcription machinery (English)

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2 November 2017

8

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2 November 2017

Anjana Srivatsan

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author name string

Ashley K Tehranchi

1

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2 November 2017

Matthew D Blankschien

2

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2 November 2017

Yan Zhang

3

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2 November 2017

Jennifer A Halliday

4

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2 November 2017

Jia Peng

6

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2 November 2017

Christophe Herman

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2 November 2017

language of work or name

English

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publication date

1 May 2010

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2 November 2017

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2 November 2017

141

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2 November 2017

4

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2 November 2017

595-605

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describes a project that uses

2 November 2017

ImageJ

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC2919171/fullTextXML

inferred from PubMed Central ID database lookup

cites work

Co-orientation of replication and transcription preserves genome integrity

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The helicases DinG, Rep and UvrD cooperate to promote replication across transcription units in vivo

28 May 2018

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CarD is an essential regulator of rRNA transcription required for Mycobacterium tuberculosis persistence

28 May 2018

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Highly transcribed RNA polymerase II genes are impediments to replication fork progression in Saccharomyces cerevisiae

28 May 2018

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The checkpoint response to replication stress

28 May 2018

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Super DksAs: substitutions in DksA enhancing its effects on transcription initiation

28 May 2018

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Allosteric control of Escherichia coli rRNA promoter complexes by DksA.

28 May 2018

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TraR, a homolog of a RNAP secondary channel interactor, modulates transcription

28 May 2018

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The stringent response and cell cycle arrest in Escherichia coli

28 May 2018

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RecBCD enzyme and the repair of double-stranded DNA breaks

28 May 2018

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Regulation of the fimB promoter: a case of differential regulation by ppGpp and DksA in vivo.

28 May 2018

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Genome instability: a mechanistic view of its causes and consequences

28 May 2018

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Transcription profiling of the stringent response in Escherichia coli

28 May 2018

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Spontaneous DNA breakage in single living Escherichia coli cells

28 May 2018

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Identical, independent, and opposing roles of ppGpp and DksA in Escherichia coli

28 May 2018

1 reference

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Maintenance of fork integrity at damaged DNA and natural pause sites

28 May 2018

1 reference

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Regulation of bacterial RecA protein function

28 May 2018

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Nutritional control of elongation of DNA replication by (p)ppGpp

28 May 2018

1 reference

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Replication fork stalling at natural impediments

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Coupling the distribution of RNA polymerase to global gene regulation and the dynamic structure of the bacterial nucleoid in Escherichia coli

28 May 2018

1 reference

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Rep and PriA helicase activities prevent RecA from provoking unnecessary recombination during replication fork repair

28 May 2018

1 reference

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Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection

28 May 2018

1 reference

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DksA potentiates direct activation of amino acid promoters by ppGpp

28 May 2018

1 reference

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Independence of replisomes in Escherichia coli chromosomal replication

28 May 2018

1 reference

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Mechanisms of transcription-replication collisions in bacteria

28 May 2018

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Why is transcription coupled to translation in bacteria?

28 May 2018

1 reference

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The replication-related organization of bacterial genomes.

28 May 2018

1 reference

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Saccharomyces cerevisiae Rrm3p DNA helicase promotes genome integrity by preventing replication fork stalling: viability of rrm3 cells requires the intra-S-phase checkpoint and fork restart activities

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Genome-wide analysis of the stationary-phase sigma factor (sigma-H) regulon of Bacillus subtilis

28 May 2018

1 reference

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DksA affects ppGpp induction of RpoS at a translational level

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Replication fork collapse at replication terminator sequences

28 May 2018

1 reference

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Mechanism of regulation of transcription initiation by ppGpp. I. Effects of ppGpp on transcription initiation in vivo and in vitro

28 May 2018

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RNA polymerases from Bacillus subtilis and Escherichia coli differ in recognition of regulatory signals in vitro

28 May 2018

1 reference

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Analysis of topoisomerase function in bacterial replication fork movement: use of DNA microarrays

28 May 2018

1 reference

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Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

The importance of repairing stalled replication forks

28 May 2018

1 reference

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Resolution of head-on collisions between the transcription machinery and bacteriophage phi29 DNA polymerase is dependent on RNA polymerase translocation

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

The rpoB mutants destabilizing initiation complexes at stringently controlled promoters behave like "stringent" RNA polymerases in Escherichia coli

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Initiation and velocity of chromosome replication in Escherichia coli B/r and K-12.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Head-on collision between a DNA replication apparatus and RNA polymerase transcription complex

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Collapse and repair of replication forks in Escherichia coli

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Intrinsic transcript cleavage activity of RNA polymerase

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

A direct effect of guanosine tetraphosphate on pausing of Escherichia coli RNA polymerase during RNA chain elongation.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Effect of serine hydroxamate on the growth of Escherichia coli

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Timing of initiation of chromosome replication in individual Escherichia coli cells

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

When polymerases collide: replication and the transcriptional organization of the E. coli chromosome

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Mapping and sequencing of mutations in the Escherichia colirpoB gene that lead to rifampicin resistance

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Supercoiling of the DNA template during transcription

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Termination efficiency at rho-dependent terminators depends on kinetic coupling between RNA polymerase and rho

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Consequences of replication fork movement through transcription units in vivo

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Transcriptional pausing of RNA polymerase in the presence of guanosine tetraphosphate depends on the promoter and gene sequence.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Amino acid changes in conserved regions of the beta-subunit of Escherichia coli RNA polymerase alter transcription pausing and termination.

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

The replisome uses mRNA as a primer after colliding with RNA polymerase

28 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Replication fork progression is impaired by transcription in hyperrecombinant yeast cells lacking a functional THO complex

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Localization of RecA in Escherichia coli K-12 using RecA-GFP.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

RNA polymerase modulators and DNA repair activities resolve conflicts between DNA replication and transcription

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Isolation of RNA polymerase suppressors of a (p)ppGpp deficiency

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Measuring control of transcription initiation by changing concentrations of nucleotides and their derivatives.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Precise determinations of C and D periods by flow cytometry in Escherichia coli K-12 and B/r.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

DNA knotting caused by head-on collision of transcription and replication

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Cloning, sequencing, and characterization of multicopy suppressors of a mukB mutation in Escherichia coli.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

ppGpp-mediated regulation of DNA replication and cell division in Escherichia coli.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Mutations of the beta subunit of RNA polymerase alter both transcription pausing and transcription termination in the trp operon leader region in vitro

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

Regulation through the Secondary Channel—Structural Framework for ppGpp-DksA Synergism during Transcription

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2919171

DksA: a critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP

1 December 2018

1 reference

12 December 2020

Escherichia coli mutants with temperature-sensitive synthesis of DNA

1 reference

12 December 2020

The stringent response blocks DNA replication outside the ori region in Bacillus subtilis and at the origin in Escherichia coli

1 reference

12 December 2020

Effects of guanosine 3',5'-bisdiphosphate (ppGpp) on rate of transcription elongation in isoleucine-starved Escherichia coli

1 reference

12 December 2020

Determination of intrinsic transcription termination efficiency by RNA polymerase elongation rate

1 reference

12 December 2020

Deletion of the yhhP gene results in filamentous cell morphology in Escherichia coli

1 reference

12 December 2020

Function of transcription cleavage factors GreA and GreB at a regulatory pause site

1 reference

12 December 2020

DNA replication fork pause sites dependent on transcription

1 reference

12 December 2020

Thymine deficiency and the normal DNA replication cycle. I

1 reference

12 December 2020

10.1016/J.CELL.2010.03.036

Identifiers

DOI

1 reference

2 November 2017

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2 November 2017

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