priA:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK3927, b3935, JW3906, srgA''<ref name='LIB:Riley_2006'/>
''ECK3927, b3935, JW3906, srgA''<ref name='LIB:Riley_2006'/>, srgA''


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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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W3110: 3509871..3512069<br /><gbrowseImage>
W3110: 3509871..3512069<br /><gbrowseImage>
name=AC_000091:3509871..3512069
name=NC_007779:3509871..3512069
source=W3110
source=W3110
preset=GeneLocation
preset=GeneLocation
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{{GBrowseLink|W3110|AC_000091|3508871|3513069|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|3508871|3513069|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|3509871|3512069|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|3509871|3512069|FASTA Dump}}  
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{|   id="B46aa02b12a2b1"  class=" tableEdit Gene_sequence_features_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="B46aa02b12a2b1"  class=" tableEdit Gene_sequence_features_table"   
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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{| {{Prettytable}} id="R46aa02b174f09"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="R46aa02b174f09"  class=" tableEdit Gene_allele_table dataTable"   
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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&Delta;priA (Keio:JW3906)
priA(del) (Keio:JW3906)
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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=109101 CGSC10820]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen][http://cgsc2.biology.yale.edu/Strain.php?ID=109101 CGSC10820]<ref name='LIB:cgsc'/>  
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PMID:11459954
PMID:11459954
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priA in [[MDS42]]
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deletion
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Sensitivity to
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increases sensitivity to [[Bicyclomycin]]
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PMID:21183718
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fig. 2
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''recF4101'' ''priA2:kan''
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Growth Phenotype
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Double mutation decreases cell viability from wildtype, table 1.
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PMID:8820655
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experimental strain: JC18991
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''recF4115'' ''priA2:kan''
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Growth Phenotype
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Double mutation decreases cell viability, table 1.
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PMID:8820655
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experimental strain: JC18996
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''recF143'' ''priA2::kan''
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Growth Phenotype
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Double mutation causes decreased cell viability, table 1.
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PMID:8820655
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JC18989
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''priA2::kan''
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Sensitivity to
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Mutations shows increase in UV-inducible SOS expression, fig 1A.
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PMID:8820655
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''priA::kan<sup>r</sup>''
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Cell Shape
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Inactivation of ''priA'' showed huge multinucleoid cell filaments, Fig 4B.
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PMID:1938875
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priA::kan<sup>r</sup>
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Growth Phenotype
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Inactivation causes slow growth rate, fig 3.
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PMID:1938875
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{|   id="Z4e04c1720fca8"  class=" tableEdit Genetic_interaction_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z4e04c1720fca8"  class=" tableEdit Genetic_interaction_table dataTable"   
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=538 Genobase]
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=538 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:4H12|4H12]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=539 Genobase]
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PMID:3038334  
PMID:3038334  
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est. P1 cotransduction: 47% <ref name='LIB:Nichols_linked_Tn'/> <br />  
est. P1 cotransduction: 47% <ref name='LIB:Nichols_linked_Tn'/> <br />  
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).  
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).  
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[[:Category:Kohara_Phage:4H12|4H12]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=539 Genobase]
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PMID:3038334


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{|   id="C46aa02b2dafbf"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46aa02b2dafbf"  class=" tableEdit Gene_accessions_table"   
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10763 EcoCyc:EG10763]
EcoCyc:EG10763
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0756 EchoBASE:EB0756]
EcoGene:EG10763
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
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[http://chase.ou.edu/macro/searchlink.php?bnum=b3935 EcoliGenExpDB:b3935]
RegulonDB:ECK120000754
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C4888 ECOL199310CYC:C4888]
[http://www.ncbi.nlm.nih.gov/gene?term=948426 GeneID:948426]
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Escherichia coli str. K-12 substr. MG1655
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10763 EcoGene:EG10763]
EchoBASE:EB0756
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
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[http://BioCyc.org/ECOO157/new-image?object=PRIA ECOO157CYC:PRIA]
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
ASAP:ABE-0012860
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/27611 CGSC:27611]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012860&formSubmitReturn=1 ASAP:ABE-0012860]
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!|Name!!URL!!Comments
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Latest revision as of 20:50, 19 September 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

priA

Mnemonic

Primosome

Synonyms

ECK3927, b3935, JW3906, srgA[1], srgA

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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

88.86 minutes 

MG1655: 4124833..4122635
<gbrowseImage> name=NC_000913:4122635..4124833 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4106293..4104095
<gbrowseImage> name=NC_012967:4104095..4106293 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4012304..4014502
<gbrowseImage> name=NC_012759:4012304..4014502 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3509871..3512069
<gbrowseImage> name=NC_007779:3509871..3512069 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4224530..4222332
<gbrowseImage> name=NC_010473:4222332..4224530 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

4122635

Edman degradation

PMID:2162049[2]
PMID:2162050[3]


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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

priA(del) (Keio:JW3906)

deletion

deletion

PMID:16738554[4]

ShigenCGSC10820[5]

priA1::KanR

  • reduced P1 transduction frequency
  • chronic expression of sulA gene
  • defective in transductional recombination
  • defective in conjugative recombination
  • hypersensitive to mitomycin C
  • hypersensitive to gamma rays

PMID:1938875[6] PMID:10713144[7] PMID:8631700[8]

CGSC:27573

ΔpriA722::kan

PMID:16738554[4]

CGSC:102454

priA2::kan

inserted kan gene fragment

  • reduced P1 transduction frequency
  • chronic expression of sulA gene
  • defective in transductional recombination
  • defective in conjugative recombination
  • hypersensitive to mitomycin C
  • hypersensitive to gamma rays

PMID:8631700[8]

priA2::kan ftsKC

Growth Phenotype

synthetically lethal

PMID:11459954[9]

priA in MDS42

deletion

Sensitivity to

increases sensitivity to Bicyclomycin

PMID:21183718[10]

fig. 2

recF4101 priA2:kan

Growth Phenotype

Double mutation decreases cell viability from wildtype, table 1.

PMID:8820655[11]

experimental strain: JC18991

recF4115 priA2:kan

Growth Phenotype

Double mutation decreases cell viability, table 1.

PMID:8820655[11]

experimental strain: JC18996

recF143 priA2::kan

Growth Phenotype

Double mutation causes decreased cell viability, table 1.

PMID:8820655[11]

JC18989

priA2::kan

Sensitivity to

Mutations shows increase in UV-inducible SOS expression, fig 1A.

PMID:8820655[11]

priA::kanr

Cell Shape

Inactivation of priA showed huge multinucleoid cell filaments, Fig 4B.

PMID:1938875[6]

priA::kanr

Growth Phenotype

Inactivation causes slow growth rate, fig 3.

PMID:1938875[6]


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Notes

spa-47 (dnaC) suppresses the recombination and DSB repair defects seen in the priA1::kan mutant [8]


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

JW3906

Plasmid clone

Shigen

PMID:16769691[12]

Status:Clone OK

Primer 1:GCCCCCGTTGCCCACGTTGCCTT

Primer 2:CCACCCTCAATCGGATCAACATC

12E3

Kohara Phage

Genobase

PMID:3038334[13]

4H12

Kohara Phage

Genobase

PMID:3038334[13]

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[5]

est. P1 cotransduction: 5% [14]

pflD501::Tn10

Linked marker

CAG18477 = CGSC7470[5]

est. P1 cotransduction: 47% [14]
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (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:EG10763

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10763

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000754

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948426

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0756

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012860

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

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. ↑ Nurse, P et al. (1990) Molecular cloning and DNA sequence analysis of Escherichia coli priA, the gene encoding the primosomal protein replication factor Y. Proc. Natl. Acad. Sci. U.S.A. 87 4615-9 PubMed
  3. ↑ Lee, EH et al. (1990) The priA gene encoding the primosomal replicative n' protein of Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 87 4620-4 PubMed
  4. ↑ 4.0 4.1 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
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 6.2 Nurse, P et al. (1991) Inactivation of the Escherichia coli priA DNA replication protein induces the SOS response. J. Bacteriol. 173 6686-93 PubMed
  7. ↑ Xu, L & Marians, KJ (2000) Purification and characterization of DnaC810, a primosomal protein capable of bypassing PriA function. J. Biol. Chem. 275 8196-205 PubMed
  8. ↑ 8.0 8.1 8.2 Kogoma, T et al. (1996) The DNA replication priming protein, PriA, is required for homologous recombination and double-strand break repair. J. Bacteriol. 178 1258-64 PubMed
  9. ↑ McCool, JD & Sandler, SJ (2001) Effects of mutations involving cell division, recombination, and chromosome dimer resolution on a priA2::kan mutant. Proc. Natl. Acad. Sci. U.S.A. 98 8203-10 PubMed
  10. ↑ Washburn, RS & Gottesman, ME (2011) Transcription termination maintains chromosome integrity. Proc. Natl. Acad. Sci. U.S.A. 108 792-7 PubMed
  11. ↑ 11.0 11.1 11.2 11.3 Sandler, SJ (1996) Overlapping functions for recF and priA in cell viability and UV-inducible SOS expression are distinguished by dnaC809 in Escherichia coli K-12. Mol. Microbiol. 19 871-80 PubMed
  12. ↑ 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
  13. ↑ 13.0 13.1 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
  14. ↑ 14.0 14.1 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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