KEGG   PATHWAY: eld02026
Entry
eld02026                    Pathway                                
Name
Biofilm formation - Escherichia coli - Escherichia coli clone D i2
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
eld02026  Biofilm formation - Escherichia coli
eld02026

Organism
Escherichia coli clone D i2 [GN:eld]
Gene
i02_2750  crr; glucose-specific PTS system component [KO:K02777] [EC:2.7.1.-]
i02_4318  cyaA; adenylate cyclase [KO:K05851] [EC:4.6.1.1]
i02_3804  crp; cAMP-regulatory protein [KO:K10914]
i02_2125  flhD; transcriptional activator FlhD [KO:K02403]
i02_2124  flhC; transcriptional activator FlhC [KO:K02402]
i02_1224  flgM; anti-sigma28 factor FlgM [KO:K02398]
i02_2152  fliA; flagellar biosynthesis sigma factor [KO:K02405]
i02_2151  fliZ; flagella biosynthesis protein FliZ [KO:K02425]
i02_0163  dksA; DnaK transcriptional regulator DksA [KO:K06204]
i02_3034  hypothetical protein [KO:K03087]
i02_2392  yegE; putative sensor protein [KO:K21084] [EC:2.7.7.65]
i02_2187  yedQ; hypothetical protein [KO:K21085] [EC:2.7.7.65]
i02_4006  yhjH; EAL domain-containing protein [KO:K21086] [EC:3.1.4.52]
i02_1474  ycgR; hypothetical protein [KO:K21087]
i02_1640  ydaM; hypothetical protein [KO:K21088] [EC:2.7.7.65]
i02_1586  yciR; RNase II stability modulator [KO:K14051] [EC:3.1.4.52]
i02_2455  yehV; MerR-like regulator A [KO:K21089]
i02_1188  csgD; DNA-binding transcriptional regulator CsgD [KO:K04333]
i02_1191  csgB; curlin minor subunit [KO:K04335]
i02_1192  csgA; cryptic curlin major subunit [KO:K04334]
i02_1193  csgC; putative autoagglutination protein [KO:K04336]
i02_0474  adrA; diguanylate cyclase AdrA [KO:K18968] [EC:2.7.7.65]
i02_2040  yoaD; hypothetical protein [KO:K21090] [EC:3.1.4.52]
i02_4014  bcsA; cellulose synthase catalytic subunit [KO:K00694] [EC:2.4.1.12]
i02_2974  ygaG; S-ribosylhomocysteinase [KO:K07173] [EC:4.4.1.21]
i02_2387  hypothetical protein [KO:K01991]
i02_1166  antigen 43 precursor [KO:K12687]
i02_3351  antigen 43 precursor [KO:K12687]
i02_4885a  antigen 43 precursor (AG43) (Fluffing protein) [KO:K12687]
i02_2146  sdiA; DNA-binding transcriptional activator SdiA [KO:K07782]
i02_3074  barA; hybrid sensory histidine kinase BarA [KO:K07678] [EC:2.7.13.3]
i02_2143  uvrY; response regulator [KO:K07689]
i02_2979  csrA; carbon storage regulator [KO:K03563]
i02_3888  glgC; glucose-1-phosphate adenylyltransferase [KO:K00975] [EC:2.7.7.27]
i02_3887  glgA; glycogen synthase [KO:K00703] [EC:2.4.1.21]
i02_3865  malP; maltodextrin phosphorylase [KO:K00688] [EC:2.4.1.1]
i02_3886  glgP; glycogen phosphorylase [KO:K00688] [EC:2.4.1.1]
i02_1063  pgaA; outer membrane protein PgaA [KO:K11935]
i02_1062  ycdR; lipoprotein ycdR precursor [KO:K11931] [EC:3.5.1.-]
i02_1061  ycdQ; N-glycosyltransferase PgaC [KO:K11936] [EC:2.4.1.-]
i02_1060  ycdP; hypothetical protein [KO:K11937]
i02_4513  oxyR; DNA-binding transcriptional regulator OxyR [KO:K04761]
i02_3654  arcB; aerobic respiration control sensor protein ArcB [KO:K07648] [EC:2.7.13.3]
i02_5001  arcA; two-component response regulator [KO:K07773]
i02_2559  rcsC; hybrid sensory kinase in two-component [KO:K07677] [EC:2.7.13.3]
i02_2557  yojN; phosphotransfer intermediate protein [KO:K07676] [EC:2.7.13.3]
i02_2558  rcsB; transcriptional regulator RcsB [KO:K07687]
i02_0344  hypothetical protein [KO:K07687]
i02_2183  rcsA; colanic acid capsular biosynthesis activation protein [KO:K07781]
i02_3101  gcvA; DNA-binding transcriptional activator GcvA [KO:K03566]
i02_2803  gcvR; putative transcriptional regulator [KO:K03567]
i02_3851  envZ; osmolarity sensor protein [KO:K07638] [EC:2.7.13.3]
i02_3852  ompR; osmolarity response regulator [KO:K07659]
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
eld02024  Quorum sensing
eld02040  Flagellar assembly
KO pathway
ko02026   
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