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Browse and analyze data from Al Mamun et al. (Science 2012) Identity and Function of a Large Gene Network Underlying Mutagenic Repair of DNA Breaks 338:1344-1348

This dataset of 93 genes was constructed by screening E. coli for mutants deficient in mutagenic repair of DNA breaks under stress, followed by secondary screens for genes that participate in activation of stress responses. This study identifies a network of genes involved in stress-induced mutagenesis (the SIM Network). This data browser allows you to examine the classification of SIM network genes and explore the data from different assays on individual network genes. You can also download excel versions of the supplemental tables from the paper.



Classification DNA replication and repair
Gene-product description ssDNA and dsDNA binding recombinational repair protein
References PMID:4587405[1]
SIM defect strength Moderate
Previously known Not found [2][3]

Mutagenesis Assays

Papillation assay defect
(fold-decrease in number of papillae compared with WT)
Not tested
Quantitative Lac assay defect
(mean fold decrease in mutation rate compared with WT)
3.1 [3]
Chromosomal Tet assay defect
(mean fold decrease in TetR mutant frequency compared with WT)
Not tested
Chromosomal Nal assay defect
(mean fold decrease in NalR mutant frequency compared with WT)
Not tested

Screens for genes upstream of stress responses

σS upstream
(% decreases σS activity relative to WT)
Suppressed by mutation in arcB
Suppressed by mutation in arcA
Suppressed by mutation in rssB
Epistatic with rpoS mutation
SDS-EDTA sensitive
E upstream candidate)
rpoHP3 promoter use defective
E upstream confirmed; % decreases σE activity relative to WT)
UV sensitive
(SOS response deficient candidate)
Spontaneous SOS-deficient Not
Find more information about recF via PortEco


  1. Horii, Z & Clark, AJ (1973) Genetic analysis of the recF pathway to genetic recombination in Escherichia coli K12: isolation and characterization of mutants. J. Mol. Biol. 80 327-44 PubMed
  2. McKenzie, GJ et al. (2000) The SOS response regulates adaptive mutation. Proc. Natl. Acad. Sci. U.S.A. 97 6646-51 PubMed
  3. 3.0 3.1 He, AS et al. (2006) Roles of E. coli double-strand-break-repair proteins in stress-induced mutation. DNA Repair (Amst.) 5 258-73 PubMed


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Excel versions of supplemental tables: