atoS:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

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Nomenclature

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

Standard name

atoS

Mnemonic

Acetoacetate

Synonyms

ECK2212, b2219, JW2213[1], JW2213

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Notes

Location(s) and DNA Sequence

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<protect> 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

49.96 minutes 

MG1655: 2318065..2319891
<gbrowseImage> name=NC_000913:2318065..2319891 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2266743..2268569
<gbrowseImage> name=NC_012967:2266743..2268569 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2203870..2205696
<gbrowseImage> name=NC_012759:2203870..2205696 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2324713..2326539
<gbrowseImage> name=NC_007779:2324713..2326539 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2409053..2410879
<gbrowseImage> name=NC_010473:2409053..2410879 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

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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

ΔatoS (Keio:JW2213)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9784[3]

atoS::Tn5KAN-2 (FB20716)

Insertion at nt 923 in Minus orientation

PMID:15262929[4]

E. coli Genome Project:FB20716

contains pKD46

atoS::Tn5KAN-2 (FB20717)

Insertion at nt 923 in Minus orientation

PMID:15262929[4]

E. coli Genome Project:FB20717

does not contain pKD46

ΔatoS::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[5]

ΔatoS::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[5]

atoS298::Tn10

Insertion at 2,318,296 bp in MG1655 (NC_000913)

adapted from Nichols et al.[6]

CAG12177 gyrA = CGSC7525[3]

Synonyms: zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

atoS298::Tn10

PMID:2540407[7] PMID:9829956[8]

CGSC:8751

atoS3142::Tn10kan

PMID:2540407[7] PMID:9829956[8]

CGSC:40008

ΔatoS773::kan

PMID:16738554[2]

CGSC:100132


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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

JW2213

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCCATTATATGAAGTGGATTTA

Primer 2:CCTACAGTCTGATTTCCCTGCGG

5A1

Kohara Phage

Genobase

PMID:3038334[10]

4F12

Kohara Phage

Genobase

PMID:3038334[10]

napA722::Tn10

Linked marker

CAG12098 = CGSC7400[3]

est. P1 cotransduction: 55% [6]
Synonyms:zeg-722, zei-722::Tn10

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[3]

est. P1 cotransduction: 39% [6]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

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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

EcoCyc:EG11667

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11667

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001610

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:949011

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1618

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007341

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. 2.0 2.1 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
  3. 3.0 3.1 3.2 3.3 CGSC: The Coli Genetics Stock Center
  4. 4.0 4.1 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  5. 5.0 5.1 Ito, M et al. (2005) Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab. Eng. 7 318-27 PubMed
  6. 6.0 6.1 6.2 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).
  7. 7.0 7.1 Singer, M et al. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53 1-24 PubMed
  8. 8.0 8.1 Nichols, BP et al. (1998) Sequence analysis of Tn10 insertion sites in a collection of Escherichia coli strains used for genetic mapping and strain construction. J. Bacteriol. 180 6408-11 PubMed
  9. 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
  10. 10.0 10.1 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

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