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Table 1 Classification of up- or down-regulated 80 genes when YmdB was overexpressed

From: Escherichia coliYmdB regulates biofilm formation independently of its role as an RNase III modulator

Functions Gene No. of gene Go term ID
Transport dppA, emrA, exbB, exuT, fdx, fecI, gutM, icd, mntH, nrfA2, proP, srlA2, srlB2, srlE2, srlR, sucA2, sucC2, sucD2, tdcC, tolB, tolR, yhbE, ynfM 23 GO:0006810
GO:0006811
GO:0006855
GO:0006865
GO:0006099
GO:0009401
GO:0015031
GO:0015992
GO:0017038
GO:0022900
GO:0043213
    GO:0055085
Transcription/replication cspB, cspG, fecI, gutM, lacI, mprA, mukF, mqsR 3 , pspB 1,2 , pspC 1,3 , relE 3 , rpoA, rpoB, rpoC, rplD, rpoE 3 , rseB, srlR, yoeB, ygiT 3 20 GO:0006260
GO:0006351
GO:0006352
GO:0006355
GO:0045892
    GO:0055072
Cellular responses cspB, cspG, emrA, mprA, nusA, pspB 1,3 , pspC 1,3 , pspD 1,3 , 13 GO:0006950
GO:0009266
GO:0009271
relE 3 , rplD, rpoE 3 , rseA 3 , sseA GO:0009408
GO:0009409
    GO:0046677
Modification csdA, iscA, iscU, mqsR 3 , pheT, 11 GO:0006432
GO:0016226
relE 3 , srlB 2 , srlE 2
GO:0016310
GO:0090305
  ydaL 3 , yfhJ, ygdK   
Translation mqsR 3 , pheT, rplC, rplD, rpsA, rpsJ, yhbC, relE 3 8 GO:0006412
GO:0017148
Metabolic process fabD, lacI, srlA 2 , srlB 2 , srlD 2 , srlE 2 , sucA 2 , ycjM 8 GO:0008152
Oxidation-reduction ahpC 3 , nrfA 2 , srlD 2 , sucA 2 , torZ, ygjR 6 GO:0055114
Biosynthesis fabD 1 GO:0006633
GO:0006654
    GO:0008610
Cell cycle mukF 1 GO:0007049
    GO:0051301
Nucleotide binding yeeZ 3 1 GO:0000166
    GO:0005524
  1. Genes 1up- (>3-fold) or 2down-(<0.5-fold) regulated by YmdB overexpression were indicated. Detailed quantitative data are shown in Additional file 1: Table S3.
  2. 3Gene is related to biofilm formation in literature, even though GO term analysis (http://www.ecocyc.org) did not classify it as such.