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Table 3 List of differentially expressed genes related to bacteriophages, mobile elements and hypothetical functions in E. coli O157:H7 Congo red-positive isolate

From: Disruption of rcsB by a duplicated sequence in a curli-producing Escherichia coli O157:H7 results in differential gene expression in relation to biofilm formation, stress responses and metabolism

Gene group/genea Gene IDb Known or predicted functionb Fold change P value
Bacteriophage related
  Z0309 Putative cI repressor protein for prophage CP-933H +1.43 0.03
Z1460 Hypothetical protein encoded by bacteriophage Bp-933 W −4.12 0.01
Z1922 Hypothetical protein encoded by bacteriophage CP-933X −2.23 −0.03
Z1923 Hypothetical protein encoded by bacteriophage CP-933X −2.38 −0.04
 intO Z2036 Integrase for bacteriophage CP-933O −1.26 0.01
 coxT Z2970 Regulator for prophage CP-933 T +4.42 0.04
Z2971 Phage CP-933 T encoded hypothetical protein +3.48 0.03
Z2972 Phage CP-933 T encoded hypothetical protein +3.70 0.01
Z2973 Phage CP-933 T encoded hypothetical protein +4.10 0.01
Z2974 Phage CP-933 T encoded hypothetical protein +2.83 0.04
Z3305 Bacteriophage CP-933 V encoded protein −1.62 0.01
Z4330 Transposase +1.94 0.03
Hypothetical
  Z0005 Unknown −7.49 4.7E-08
 yagU Z0353 Putative acid resistance 2.29 0.004
 yagY Z0359 Predicted pilus chaperone (cryptic) −2.13 0.04
 yagZ Z0360 Predicted pilus major subunit −2.83 0.001
 yaiY Z0475 Predicted inner membrane protein −33.49 1.6E-12
 yaiE Z0487 Unknown −1.49 0.01
 yajI Z0513 Unknown −3.71 1.3E-06
 ybcI Z0682 Predicted inner membrane protein −2.48 0.004
Z0879 Unknown −2.95 0.04
 ybjO Z1085 Predicted inner membrane protein −2.35 4.3E-04
 ybjX Z1112 Unknown −1.51 0.01
 ymcD Z1404 Unknown +1.48 3.7E-03
Z1528 Unknown +2.11 0.03
 yceI Z1692 Unknown −2.24 5.0E-03
 yceB Z1700 Unknown −1.89 5.0E-04
 ycfJ Z1749 Unknown −24.98 1.5E-14
Z2283 Unknown −4.39 3.0#-06
 ydeH Z2292 Unknown +2.69 2.0E-04
 ydeF Z2308 Unknown +2.83 2.7E-06
Z2421 Unknown +1.79 0.03
 yoaG Z2838 Unknown +2.54 0.02
Z2839 Unknown +2.36 0.04
Z2893 Unknown −1.61 0.01
 rcnB Z3275 Putative nickel/cobalt efflux protein −1.61 0.02
 ypeC Z3656 Unknown −23.74 1.9E-17
 ypfG Z3722 Unknown −4.58 9.0E-09
Z3965 Unknown −2.33 1.5E-03
Z4126 Unknown −4.31 3.0E-04
Z4151 Unknown −3.84 7.4E-07
Z4267 Unknown +5.52 2.3E-03
Z4268 Unknown +4.92 4.3E-06
 yggG Z4280 Unknown −1.71 0.02
Z4318 Unknown +1.30 0.04
 ygjT Z4441 Unknown −2.25 5.0E-03
 yhaM Z4462 Unknown +2.34 0.03
 yiaB Z4988 Unknown −4.71 5.0E-03
 yiiF Z5432 Unknown +1.52 0.04
 yjcO Z5677 Unknown +1.28 0.04
Z5694 Unknown −12.64 6.7E-09
 yjdA Z5711 Putative DNA replication function +2.23 6.4E-06
 yjcJ Z5712 Unknown +2.79 9.4E-05
 yjfN Z5795 Unknown −2.58 8.0E-04
  1. aGene group/gene designations were selected from RAST Server [44]
  2. bGene ID and known or predicted functions are based on the annotated sequence of E. coli O157:H7 EDL 933 [92]. Symbols + and – represent upregulated and downregulated gene expression, respectively