KEGG   PATHWAY: eck02026
Entry
eck02026                    Pathway                                
Name
Biofilm formation - Escherichia coli - Escherichia coli 55989 (EAEC)
Description
Bacteria inhabiting a biofilm are protected from physical stress, antimicrobials, and the host immune system, and thereby cause severe medical, environmental, and technical problems. Biofilm formation in Escherichia coli is regulated by two inversely controlled transcriptional feedforward cascades, the FlhDC/FliA cascade and the sigmaS/MlrA/CsgD cascade, which are active in post-exponentially growing and in stationary phase cells, respectively. Their final outputs, flagella production or the synthesis of the biofilm matrix components curli and cellulose, are mutually exclusive due to complementary sigma factor requirements, the abundant DNA-binding regulator FliZ, and opposite regulation by c-di-GMP. The RNA-binding protein CsrA, a central component of the global regulatory system, inhibits synthesis of the poly-N-acetyl-glucosamine (PGA) exopolysaccharide and glycogen and stimulates the expression of the flagellar master regulator FlhDC. CsrA activity is counteracted by two sRNAs, CsrB and CsrC. The lower figure shows that FlhDC, sigmaS, and CsgD, the transcription factors that control large regulons involved in flagellar and biofilm formation, serve as regulatory hubs for multiple environmental signal integration with a series of sRNAs providing distinct inputs.
Class
Cellular Processes; Cellular community - prokaryotes
Pathway map
eck02026  Biofilm formation - Escherichia coli
eck02026

Organism
Escherichia coli 55989 (EAEC) [GN:eck]
Gene
EC55989_0139  dksA; DNA-binding transcriptional regulator of rRNA transcription, DnaK suppressor protein [KO:K06204]
EC55989_0394  yaiC; putative diguanylate cyclase [KO:K18968] [EC:2.7.7.65]
EC55989_1091  yccZ; putative exopolysaccharide export protein [KO:K01991]
EC55989_1132  pgaD; putative inner membrane protein associated with biofilm formation [KO:K11937]
EC55989_1133  pgaC; putative glycosyl transferase associated with biofilm formation [KO:K11936] [EC:2.4.1.-]
EC55989_1134  pgaB; putative polysaccharide deacetylase associated with biofilm formation; putative lipoprotein [KO:K11931] [EC:3.5.1.-]
EC55989_1135  pgaA; putative outer membrane protein associated with biofilm formation [KO:K11935]
EC55989_1153  csgD; DNA-binding transcriptional activator in two-component regulatory system [KO:K04333]
EC55989_1154  csgB; curlin nucleator protein, minor subunit in curli complex [KO:K04335]
EC55989_1155  csgA; cryptic curlin major subunit [KO:K04334]
EC55989_1156  csgC; putative curli production protein [KO:K04336]
EC55989_1184  flgM; anti-sigma factor for FliA (sigma 28) [KO:K02398]
EC55989_1290  ycgR; protein involved in flagellar function [KO:K21087]
EC55989_1447  gmr; modulator of Rnase II stability [KO:K14051] [EC:3.1.4.52]
EC55989_1506  ydaM; putative diguanylate cyclase, GG[D/E]EF domain signalling protein [KO:K21088] [EC:2.7.7.65]
EC55989_1645  lsrR; DNA-binding transcriptional regulator [KO:K11531]
EC55989_1988  adrB; putative cyclic di-GMP phosphodiesterase [KO:K21090] [EC:3.1.4.52]
EC55989_2070  flhC; DNA-binding transcriptional dual regulator with FlhD [KO:K02402]
EC55989_2071  flhD; DNA-binding transcriptional dual regulator with FlhC [KO:K02403]
EC55989_2134  uvrY; DNA-binding response regulator in two-component regulatory system with BarA [KO:K07689]
EC55989_2137  sdiA; DNA-binding transcriptional activator [KO:K07782]
EC55989_2142  fliZ; putative regulator of FliA activity [KO:K02425]
EC55989_2143  fliA; RNA polymerase, sigma 28 (sigma F) factor [KO:K02405]
EC55989_2171  rcsA; DNA-binding transcriptional activator, co-regulator with RcsB [KO:K07781]
EC55989_2318  wza; lipoprotein required for capsular polysaccharide translocation through the outer membrane [KO:K01991]
EC55989_2323  yegE; putative diguanylate cyclase, GGDEF domain signalling protein [KO:K21084] [EC:2.7.7.65]
EC55989_2376  mlrA; DNA-binding transcriptional regulator [KO:K21089]
EC55989_2471  rcsD; phosphotransfer intermediate protein in two-component regulatory system with RcsBC [KO:K07676] [EC:2.7.13.3]
EC55989_2472  rcsB; DNA-binding response regulator in two-component regulatory system with RcsC and YojN [KO:K07687]
EC55989_2473  rcsC; hybrid sensory kinase in two-component regulatory system with RcsB and YojN [KO:K07677] [EC:2.7.13.3]
EC55989_2707  crr; glucose-specific enzyme IIA component of PTS [KO:K02777] [EC:2.7.1.-]
EC55989_2762  gcvR; DNA-binding transcriptional repressor, regulatory protein accessory to GcvA [KO:K03567]
EC55989_2954  luxS; S-ribosylhomocysteinase [KO:K07173] [EC:4.4.1.21]
EC55989_2958  csrA; pleiotropic regulatory protein for carbon source metabolism [KO:K03563]
EC55989_3012  rpoS; RNA polymerase, sigma S (sigma 38) factor [KO:K03087]
EC55989_3087  gcvA; DNA-binding transcriptional dual regulator [KO:K03566]
EC55989_3357  flu; antigen 43 (Ag43) phase-variable biofilm formation autotransporter; CP4-44 prophage [KO:K12687]
EC55989_3628  arcB; hybrid sensory histidine kinase in two-component regulatory system with ArcA [KO:K07648] [EC:2.7.13.3]
EC55989_3763  crp; DNA-binding transcriptional dual regulator [KO:K10914]
EC55989_3812  envZ; sensory histidine kinase in two-component regulatory system with OmpR [KO:K07638] [EC:2.7.13.3]
EC55989_3813  ompR; DNA-binding response regulator in two-component regulatory system with EnvZ [KO:K07659]
EC55989_3825  malP; maltodextrin phosphorylase [KO:K00688] [EC:2.4.1.1]
EC55989_3838  glgP; glycogen phosphorylase [KO:K00688] [EC:2.4.1.1]
EC55989_3839  glgA; glycogen synthase [KO:K00703] [EC:2.4.1.21]
EC55989_3840  glgC; glucose-1-phosphate adenylyltransferase [KO:K00975] [EC:2.7.7.27]
EC55989_3971  yhjH; EAL domain containing protein involved in flagellar function [KO:K21086] [EC:3.1.4.52]
EC55989_3980  bcsA; cellulose synthase, catalytic subunit [KO:K00694] [EC:2.4.1.12]
EC55989_4276  cyaA; adenylate cyclase [KO:K05851] [EC:4.6.1.1]
EC55989_4446  oxyR; DNA-binding transcriptional dual regulator [KO:K04761]
EC55989_5063  arcA; DNA-binding response regulator in two-component regulatory system with ArcB or CpxA [KO:K07773]
EC55989miscRNA30  isrA; IsrA [KO:K21091]
EC55989miscRNA33  rydC; RydC [KO:K18509]
EC55989miscRNA38  rprA; RprA [KO:K18518]
EC55989miscRNA44  dsrA; DsrA [KO:K18502]
EC55989miscRNA65  csrB; CsrB [KO:K18515]
EC55989miscRNA66  gcvB; GcvB [KO:K18521]
EC55989miscRNA67  omrA; OmrA [KO:K18522]
EC55989miscRNA68  omrB; OmrB [KO:K18523]
EC55989miscRNA84  ryhA; RyhA [KO:K18504]
EC55989miscRNA94  csrC; CsrC [KO:K18516]
EC55989miscRNA95  oxyS; OxyS [KO:K18528]
Compound
C00037  Glycine
C00575  3',5'-Cyclic AMP
C01228  Guanosine 3',5'-bis(diphosphate)
C04494  Guanosine 3'-diphosphate 5'-triphosphate
C16463  3',5'-Cyclic diGMP
C21382  R-THMF
Reference
  Authors
Mika F, Hengge R
  Title
Small RNAs in the control of RpoS, CsgD, and biofilm architecture of Escherichia coli.
  Journal
RNA Biol 11:494-507 (2014)
DOI:10.4161/rna.28867
Reference
  Authors
Mika F, Hengge R
  Title
Small Regulatory RNAs in the Control of Motility and Biofilm Formation in E. coli and Salmonella.
  Journal
Int J Mol Sci 14:4560-79 (2013)
DOI:10.3390/ijms14034560
Reference
  Authors
Hengge R
  Title
Principles of c-di-GMP signalling in bacteria.
  Journal
Nat Rev Microbiol 7:263-73 (2009)
DOI:10.1038/nrmicro2109
Reference
  Authors
Chambers JR, Sauer K
  Title
Small RNAs and their role in biofilm formation.
  Journal
Trends Microbiol 21:39-49 (2013)
DOI:10.1016/j.tim.2012.10.008
Reference
  Authors
Martinez LC, Vadyvaloo V
  Title
Mechanisms of post-transcriptional gene regulation in bacterial biofilms.
  Journal
Front Cell Infect Microbiol 4:38 (2014)
DOI:10.3389/fcimb.2014.00038
Reference
  Authors
Kalia D, Merey G, Nakayama S, Zheng Y, Zhou J, Luo Y, Guo M, Roembke BT, Sintim HO
  Title
Nucleotide, c-di-GMP, c-di-AMP, cGMP, cAMP, (p)ppGpp signaling in bacteria and implications in pathogenesis.
  Journal
Chem Soc Rev 42:305-41 (2013)
DOI:10.1039/c2cs35206k
Reference
  Authors
Seyll E, Van Melderen L
  Title
The ribonucleoprotein Csr network.
  Journal
Int J Mol Sci 14:22117-31 (2013)
DOI:10.3390/ijms141122117
Reference
  Authors
Pesavento C, Becker G, Sommerfeldt N, Possling A, Tschowri N, Mehlis A, Hengge R
  Title
Inverse regulatory coordination of motility and curli-mediated adhesion in Escherichia coli.
  Journal
Genes Dev 22:2434-46 (2008)
DOI:10.1101/gad.475808
Reference
  Authors
Huang YH, Ferrieres L, Clarke DJ
  Title
The role of the Rcs phosphorelay in Enterobacteriaceae.
  Journal
Res Microbiol 157:206-12 (2006)
DOI:10.1016/j.resmic.2005.11.005
Reference
  Authors
Li J, Attila C, Wang L, Wood TK, Valdes JJ, Bentley WE
  Title
Quorum sensing in Escherichia coli is signaled by AI-2/LsrR: effects on small RNA and biofilm architecture.
  Journal
J Bacteriol 189:6011-20 (2007)
DOI:10.1128/JB.00014-07
Related
pathway
eck02024  Quorum sensing
eck02040  Flagellar assembly
KO pathway
ko02026   

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