Table I.
Genes Targeted and Represented in Bar-Coded Deletion Set
| Name | Gene Function |
|---|---|
| ade | Cryptic adenine deaminase |
| alkA | 3-mentyI-adenine DNA glycosylase II, inducible; repairs by single-and double-strand excision of 3-methyI adenine |
| alkB | Alkylated DNA repair enzyme; alpha-ketoglutarate- and Fe(II)-dependent dioxygenase |
| arsB | Arsenite pump, inner membrane; resistance to arsenate, arsenite, and antimonite |
| artl | Periplasmic binding protein of Arg transport system |
| artJ | Periplasmic binding protein of Arg transport system |
| artM | Arg periplasmic transport system; similarity to transmembrane proteins, BPC ATPases |
| artP | Arg periplasmic transport system; similarity to transmembrane proteins, BPC ATPases |
| artQ | Arg periplasmic transport system; similarity to transmembrane proteins, BPC ATPases |
| b1841 | Function unknown |
| corA | Mg2+ (and other divalent metals) uptake transporter |
| cysK | Cysteine synthase A, O-acetylserine sulfhydrylase A |
| cysM | Cysteine synthase B, O-acetylserine sulfhydrylase B |
| dam | DNA-(adenine-N6)-methyltransferase |
| dcd | dCTP deaminase; mutants suppress lethal dut mutants |
| dinF | Induced by UV and mitomycin C, function unknown |
| dinG | ATP-dependent DNA helicase; putative repair and recombination enzyme |
| dinl | Stabilizes RecA filaments |
| dmsA | DMSO reductase subunit A, anaerobic, periplasmic |
| dnaJ | Dnak co-chaperone; stress-related DNA biosynthesis |
| emrA | EmrAB-TolC multidrug resistance pump |
| emrB | EmrAB-TolC multidrug resistance pump |
| emrK | EmrKY-TolC multidrug resistance efflux pump |
| emrY | EmrKY-TolC multidrug resistance efflux pump |
| endA | DNA-specific endonuclease I |
| exoX | Exonuclease X; 3'–5' DNase |
| qpt | Guanine-xanthine phosphoribosyltransferase phosphotransferase |
| gsk | Guanosine kinase |
| guaA | GMP synthase |
| gyrA | DNA gyrase, subunit A |
| helD | ATP-dependent DNA Helicase IV |
| hpt | Hypoxanthine-guanine phosphoribsoyltransferase |
| hscA | Hsc66, Dnak-lie chaperone |
| katE | Catalase hydroperoxidase II |
| mdtM | Multidrug resistance efflux protein |
| mntH | Mn(2+) transporter, role in bacterial response to reactive oxygen species |
| moeA | Molybdopterin (MPT) synthesis; incorporation of molybdenum into MPT; chlorate resistance |
| moeB | Molybdopterin-synthase sulfurylase; probable adenylation/thiocarboxylation of MoaD C-terminus |
| mog | Molybdochelatase incorporating molybdenum into molybdopterin |
| mutH | Methyl-directed mismatch repair |
| mutL | Methyl-directed mismatch repair |
| mutM | Formamidopyrimidine-DNA glycosylase/AP lyase; 5'-terminal deoxyribophodiesterase; DNA repair; GC to TA |
| mutS | Methyl-directed mismatch repair protein |
| mutT | 8-oxo-dGTPase, antimutator; prevents AT-to-GC transversions; dGTP pyrophosphohydrolase |
| mutY | adenine glycosylase, G-A repair, 2-hydroxyadenine DNA glycosylase |
| nei | DNA glycosylase/apurinic lyase, deoxyinosine-specific; endonuclease VIII |
| nfi | Endonuclease V, specific for single-stranded DNA or duplex DNA with damage |
| nfo | AP endodeoxyribonuclease IV; member of soxRs regulon; endonuclease IV |
| nrdD | Ribonucleoside triphosphate reductase, class III, anaerobic |
| nrdE | Ribonucleoside diphosphate reductase 2, subunit alpha, class I |
| nrdF | Ribonucleoside diphosphate reductase 2, subunit beta, class I |
| nrdG | Ribonucleotide reductase activase, generating glycyl radical |
| nth | Endonuclease III, DNA glycosylase/apyrimidinic (AP) lyase |
| ogt | O6-methylguanine-DNA methyltransferase |
| oxyR | Bifunctional regulatory protein sensor for oxidative stress |
| polB | DNA polymerase II, capable of translesion synthesis; role in the resumption of DNA synthesis after UV irradiation |
| purA | Adenylosuccinate synthase, purine synthesis |
| purR | Purine regulon repressor |
| recA | Gerneral recombination and DNA repair; pairing and strand exchange; role in cleavage of LexA repressor, SOS mutagenesis |
| recB | RecBCD Exonuclease V subunit |
| recC | RecBCD Exonuclease V subunit |
| recD | RecBCD Exonuclease V subunit |
| recE | RecET recombinase, exonuclease VIII, Rac prophage; recombination and repair; degrades one strand 5'-3' in duplex DNA |
| recF | Recombination and repair |
| recG | Junction-specific ATP-dependent DNA helicase |
| recJ | ssDNA 5'-3' exonuclease involved in recombination |
| recN | Recombination and repair |
| recO | Conjugational recombination and DNA repair |
| recR | Recombination and DNA repair |
| recT | RecET recombinase, annealing protein, Rac prophage; recombination and repair |
| rihC | Ribonucleoside hydrolase |
| rob | OriC-binding protein, binds to right border of oriC |
| rusA | Endonuclease, Holliday structure resolvase, DLP 12 prophage |
| ruvB | DNA helicase driving branch migration during recombination; hexameric ring |
| sbcB | Exonuclease I |
| sbcC | DNA hairpin dsDNA 3'-exonuclease SbcCD |
| sbcD | DNA hairpin dsDNA 3'-exonuclease SbcCD |
| sodA | Superoxide dismutase |
| sodB | Superoxide dismutase |
| sodC | Superoxide dismutase, Cu, Zn, periplasmic |
| soxR | Regulatory protein of soxRS regulon; induces sox regulon when superoxide levels increase |
| tag | 3-methyladenine DNA glycosylase I |
| topA | Topoisomerase I |
| topB | Topoisomerase III |
| tus | DNA contrahelicase, terminus utilization substance |
| ung | Uracil DNA glycosylase (UDG), excise uracil from DNA by base flipping mechanism; prefers ssDNA over dsDNA |
| upp | Uracil phosphoribosyltransferase |
| uvrA | Excision nuclease subunit A; repair of UV damage to DNA |
| uvrB | Excision nuclease subunit B, ATPase I and helicase II |
| uvrC | Excision nuclease subunit C; repair of UV damage to DNA |
| uvrD | ATP-dependent 3'-5' DNA helicase II |
| uvrY | Response regulator |
| xerC | Tyrosine recombinase XerCD resolves chromosome dimers |
| xerD | Tyrosine recombinase XerCD resolves chromosome dimers |
| xseA | Exonuclease VII, large subunit |
| ygdG | Ssb-binding protein |
| ygfO | Xanthine transporter |
| ygfU | Function unknown |
| ykfG | Function unknown, CP4-6 putative prophage remnanta |