Identity and function of a large gene network underlying mutagenic repair of DNA breaks (Q42969505)

11 November 2017

Identity and function of a large gene network underlying mutagenic repair of DNA breaks (English)

1 reference

11 November 2017

11

Olivier Lichtarge

1 reference

11 November 2017

Abu Amar M Al Mamun

1

1 reference

11 November 2017

Mary-Jane Lombardo

2

1 reference

11 November 2017

Chandan Shee

3

1 reference

11 November 2017

Andreas M Lisewski

4

1 reference

11 November 2017

Caleb Gonzalez

5

1 reference

11 November 2017

Dongxu Lin

6

1 reference

11 November 2017

Ralf B Nehring

7

1 reference

11 November 2017

Claude Saint-Ruf

8

1 reference

11 November 2017

Janet L Gibson

9

1 reference

11 November 2017

Ryan L Frisch

10

1 reference

11 November 2017

P J Hastings

12

1 reference

11 November 2017

Susan M Rosenberg

13

1 reference

11 November 2017

language of work or name

English

0 references

publication date

1 December 2012

1 reference

11 November 2017

1 reference

11 November 2017

338

1 reference

11 November 2017

6112

1 reference

11 November 2017

1344-1348

1 reference

Two mechanisms produce mutation hotspots at DNA breaks in Escherichia coli

11 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Stress-induced mutation via DNA breaks in Escherichia coli: a molecular mechanism with implications for evolution and medicine

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Mutational processes molding the genomes of 21 breast cancers

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Clustered mutations in yeast and in human cancers can arise from damaged long single-strand DNA regions.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Adaptation and preadaptation of Salmonella enterica to Bile.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Impact of a stress-inducible switch to mutagenic repair of DNA breaks on mutation in Escherichia coli

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

The RpoS-mediated general stress response in Escherichia coli

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Stress, genomes, and evolution

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

The sigma(E) stress response is required for stress-induced mutation and amplification in Escherichia coli

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Integration of biological networks and gene expression data using Cytoscape

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Mutation as a stress response and the regulation of evolvability

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Spontaneous DNA breakage in single living Escherichia coli cells

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Regulation of DNA repair in hypoxic cancer cells

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Repair of DNA damage induced by bile salts in Salmonella enterica

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Origin of mutations under selection: the adaptive mutation controversy.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Inhibition of mutation and combating the evolution of antibiotic resistance

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

SigmaS-dependent gene expression at the onset of stationary phase in Escherichia coli: function of sigmaS-dependent genes and identification of their promoter sequences.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Regulation of the alternative sigma factor sigma(E) during initiation, adaptation, and shutoff of the extracytoplasmic heat shock response in Escherichia coli

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Stochastic gene expression in a single cell

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

Ubiquinone biosynthesis in microorganisms

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

The NADH:ubiquinone oxidoreductase (complex I) from Escherichia coli

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

rpoE, the gene encoding the second heat-shock sigma factor, sigma E, in Escherichia coli.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

DNA synthesis errors associated with double-strand-break repair

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

7 Uses of transposons with emphasis on Tn10

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

A switch from high-fidelity to error-prone DNA double-strand break repair underlies stress-induced mutation.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3782309

One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products

16 August 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Genome-wide hypermutation in a subpopulation of stationary-phase cells underlies recombination-dependent adaptive mutation

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Separate DNA Pol II- and Pol IV-dependent pathways of stress-induced mutation during double-strand-break repair in Escherichia coli are controlled by RpoS.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Adaptive reversion of a frameshift mutation in Escherichia coli by simple base deletions in homopolymeric runs

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Adaptive mutation by deletions in small mononucleotide repeats.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Adaptive amplification: an inducible chromosomal instability mechanism.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Different characteristics distinguish early versus late arising adaptive mutations in Escherichia coli FC40.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Evolving responsively: adaptive mutation

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Analysis of cell size and DNA content in exponentially growing and stationary-phase batch cultures of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Mutations in gyrA and parC genes in nalidixic acid-resistant Escherichia coli strains from food products, humans and animals.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

RpoS-regulated genes of Escherichia coli identified by random lacZ fusion mutagenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Growth phase-dependent regulation of the extracytoplasmic stress factor, sigmaE, by guanosine 3',5'-bispyrophosphate (ppGpp).

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The two-component network and the general stress sigma factor RpoS (sigma S) in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The groES and groEL heat shock gene products of Escherichia coli are essential for bacterial growth at all temperatures

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Regulation of RpoS proteolysis in Escherichia coli: the response regulator RssB is a recognition factor that interacts with the turnover element in RpoS

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The RssB response regulator directly targets sigma(S) for degradation by ClpXP

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

A defect in cell wall recycling triggers autolysis during the stationary growth phase of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Polyphosphate kinase regulates error-prone replication by DNA polymerase IV in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Error-prone DNA polymerase IV is regulated by the heat shock chaperone GroE in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The transcription elongation factor NusA is required for stress-induced mutagenesis in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The SOS response regulates adaptive mutation

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Roles of E. coli double-strand-break-repair proteins in stress-induced mutation

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

General stress response regulator RpoS in adaptive mutation and amplification in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

SOS mutator DNA polymerase IV functions in adaptive mutation and not adaptive amplification

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Lambda nutR mutations convert HK022 Nun protein from a transcription termination factor to a suppressor of termination

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Stress-induced beta-lactam antibiotic resistance mutation and sequences of stationary-phase mutations in the Escherichia coli chromosome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

arcA (dye), a global regulatory gene in Escherichia coli mediating repression of enzymes in aerobic pathways

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Multimerization of phosphorylated and non-phosphorylated ArcA is necessary for the response regulator function of the Arc two-component signal transduction system

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The arginine regulon of Escherichia coli: whole-system transcriptome analysis discovers new genes and provides an integrated view of arginine regulation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

ArgR-independent induction and ArgR-dependent superinduction of the astCADBE operon in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Transcriptional regulation by cAMP and its receptor protein

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Identification of the CRP regulon using in vitro and in vivo transcriptional profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Novel members of the Cra regulon involved in carbon metabolism in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Decrypting the H-NS-dependent regulatory cascade of acid stress resistance in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

H-NS-Dependent regulation of flagellar synthesis is mediated by a LysR family protein

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The role of integration host factor in gene expression in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Adaptation to famine: a family of stationary-phase genes revealed by microarray analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

MalI, a novel protein involved in regulation of the maltose system of Escherichia coli, is highly homologous to the repressor proteins GalR, CytR, and LacI.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Different regions of Mlc and NagC, homologous transcriptional repressors controlling expression of the glucose and N-acetylglucosamine phosphotransferase systems in Escherichia coli, are required for inducer signal recognition

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Error‐prone DNA polymerase IV is controlled by the stress‐response sigma factor, RpoS, in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The role of the trehalose system in regulating the maltose regulon of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Identification of UvrY as the cognate response regulator for the BarA sensor kinase in Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Hfq structure, function and ligand binding

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

ATP hydrolysis-dependent protease activity of the lon (capR) protein of Escherichia coli K-12.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Purification and characterization of protease Re, a cytoplasmic endoprotease in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Linkage of polynucleotides through phosphodiester bonds by an enzyme from Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Recombination in adaptive mutation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Bacterial electron transport chains

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Probing a role of subunit IV of the Escherichia coli bo-type ubiquinol oxidase by deletion and cross-linking analyses.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The Escherichia coli hemL gene encodes glutamate 1-semialdehyde aminotransferase

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Hsc66 and Hsc20, a new heat shock cognate molecular chaperone system from Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Genetic analysis of the isc operon in Escherichia coli involved in the biogenesis of cellular iron-sulfur proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Direct transfer of NADH from malate dehydrogenase to complex I in Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Isolation and characterization of the proton-translocating NADH: ubiquinone oxidoreductase from Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The role of UbiX in Escherichia coli coenzyme Q biosynthesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Lipoic acid metabolism in Escherichia coli: isolation of null mutants defective in lipoic acid biosynthesis, molecular cloning and characterization of the E. coli lip locus, and identification of the lipoylated protein of the glycine cleavage system

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The Escherichia coli lipB gene encodes lipoyl (octanoyl)-acyl carrier protein:protein transferase

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Identification of the Escherichia coli K-12 ybhE gene as pgl, encoding 6-phosphogluconolactonase

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Spermidine biosynthesis in Escherichia coli: promoter and termination regions of the speED operon

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Insertion of inverted Ter sites into the terminus region of the Escherichia coli chromosome delays completion of DNA replication and disrupts the cell cycle.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Identification of a protein required for disulfide bond formation in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

An in vivo pathway for disulfide bond isomerization in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

From cell membrane to nucleotides: the phosphate regulon in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The bacterial twin-arginine translocation pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The ZnuABC high-affinity zinc uptake system and its regulator Zur in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The gene for Escherichia coli diadenosine tetraphosphatase is located immediately clockwise to folA and forms an operon with ksgA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Escherichia coli K-12: a cooperatively developed annotation snapshot--2005

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

YqiC of Salmonella enterica serovar Typhimurium is a membrane fusogenic protein required for mice colonization

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

An Escherichia coli membrane protein with a unique signal sequence.

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The complete genome sequence of Escherichia coli K-12

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Induction of the Escherichia coli aidB gene under oxygen-limiting conditions requires a functional rpoS (katF) gene

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

The dinB operon and spontaneous mutation in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Adaptive amplification and point mutation are independent mechanisms: evidence for various stress-inducible mutation mechanisms

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Control of the alternative sigma factor sigmaE in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

Regulation by destruction: design of the sigmaE envelope stress response

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1226683

21 January 2018

Identifiers

DOI

10.1126/SCIENCE.1226683

1 reference

11 November 2017

1 reference

11 November 2017

PubMed publication ID

23224554

1 reference