arcA:Gene: Difference between revisions

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ΔarcA (Keio:JW4364)
''arcA(del)'' (Keio:JW4364)
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deletion
deletion
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PMID:16738554
PMID:16738554
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[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=109398 CGSC11117]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br />[http://cgsc2.biology.yale.edu/Strain.php?ID=109398 CGSC11117]<ref name='LIB:cgsc'/>  
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''&#916;arcA43''
''arcA43(del)''
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''&#916;arcA45''
''arcA45(del)''
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''&#916;arcA44::kan''
''arcA44:(del)'':kan
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''&#916;arcA726::kan''
''arcA726(del)''::kan
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Mutation was comparatively weak with decrease only happening to 33-67% of population.  
Mutation was comparatively weak with decrease only happening to 33-67% of population.  
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CAG45114 ''arcA726(del)''::FRTKanFRT
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deletion
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Sigma<sup>E</sup> Activity
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Decrease in Sigma<sup>E</sup> Activity
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PMID:23224554
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Parental Strain: CAG45114
Experimental Strain:SMR1360
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See Table S11 for experimental Data


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Revision as of 06:06, 4 February 2013

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

arcA

Mnemonic

Aerobic respiration control

Synonyms

ECK4393, b4401, JW4364, dye, fexA, msp, seg, sfrA, cpxC[1], cpxC

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

99.96 minutes 

MG1655: 4638329..4637613
<gbrowseImage> name=NC_000913:4637613..4638329 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4628466..4627750
<gbrowseImage> name=NC_012967:4627750..4628466 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4576097..4576813
<gbrowseImage> name=NC_012759:4576097..4576813 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4644986..4644270
<gbrowseImage> name=AC_000091:4644270..4644986 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4684791..4684075
<gbrowseImage> name=NC_010473:4684075..4684791 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

4637613

Edman degradation

PMID:9298646[2]


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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

arcA(del) (Keio:JW4364)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC11117[4]

arcA43(del)

CGSC:78398

arcA45(del)

CGSC:79752

arcA44:(del):kan

CGSC:90811

arcA726(del)::kan

PMID:16738554[3]

CGSC:100034

arcA

mutation

mutation

represses aerobic function

PMID:2565334[5]

arcA(P)::Tn10dCam

Mutagenesis rate

Decreased stress-induced mutagenesis (SIM) phenotype.

PMID:23224554[6]

Parental Strain: SMR4562

Experimental Strain: SMR12023

Mutation was comparatively weak with decrease only happening to 33-67% of population.

CAG45114 arcA726(del)::FRTKanFRT

deletion

SigmaE Activity

Decrease in SigmaE Activity

PMID:23224554[6]

Parental Strain: CAG45114 Experimental Strain:SMR1360

See Table S11 for experimental Data

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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW4364

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCCAGACCCCGCACATTCTTAT

Primer 2:CCATCTTCCAGATCACCGCAGAA

12A4

Kohara Phage

Genobase

PMID:3038334[8]

15A5

Kohara Phage

Genobase

PMID:3038334[8]

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[4]

est. P1 cotransduction: 14% [9]
Synonyms:zjj-202::Tn10, zji-202::Tn10

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[4]

est. P1 cotransduction: 93% [9]
Synonyms:thr-34::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

ECOCYC:EG10061

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG10061

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948874

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  3. ↑ 3.0 3.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ Iuchi, S et al. (1989) Differentiation of arcA, arcB, and cpxA mutant phenotypes of Escherichia coli by sex pilus formation and enzyme regulation. J. Bacteriol. 171 2889-93 PubMed
  6. ↑ 6.0 6.1 Al Mamun, AA et al. (2012) Identity and function of a large gene network underlying mutagenic repair of DNA breaks. Science 338 1344-8 PubMed
  7. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  8. ↑ 8.0 8.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  9. ↑ 9.0 9.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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