Escherichia coli K-12 substr. MG1655 Polypeptide: protein involved in biofilm formation

Gene: ymgA Accession Numbers: G6605 (EcoCyc), b1165, ECK1152

Regulation Summary Diagram: ?

Regulation summary diagram for ymgA

Deletion of ymgA increases biofilm formation and motility [Lee07d]. When placed on a low copy number plasmid at low temperature, ymgA increases production of capsule material and reduces expression of curli [Tschowri09].

Expression of ymgA is regulated under conditions of biofilm formation. The presence of AI-2 [Ren04a] or the stationary phase biofilm signal indole [Lee07e] repress ymgA expression. ymgA is repressed in young and mature biofilms, but is induced in the intermediate, developed biofilms [Domka07], by rapid acid treatment [Kannan08] and under low temperature growth conditions [WhiteZiegler08]. Expression of ymgA is regulated by the repressor BluR [Tschowri09] and the alternative sigma factor RpoS [Weber05, Tschowri09].

Map Position: [1,215,291 -> 1,215,563] (26.19 centisomes, 94°)
Length: 273 bp / 90 aa

Molecular Weight of Polypeptide: 10.345 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0003909 , EchoBASE:EB4037 , EcoGene:EG14289 , EcoliWiki:b1165 , OU-Microarray:b1165 , PortEco:ymgA , Protein Model Portal:P75992 , RefSeq:NP_415683 , RegulonDB:G6605 , String:511145.b1165 , UniProt:P75992

Genetic Regulation Schematic: ?

Genetic regulation schematic for ymgA

GO Terms:

Biological Process: GO:1900191 - negative regulation of single-species biofilm formation Inferred from experiment [Lee07d]

Gene Class: ORFs

Essentiality data for ymgA knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Last-Curated ? 17-Jul-2012 by Keseler I , SRI International

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Domka07: Domka J, Lee J, Bansal T, Wood TK (2007). "Temporal gene-expression in Escherichia coli K-12 biofilms." Environ Microbiol 9(2);332-46. PMID: 17222132

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Kannan08: Kannan G, Wilks JC, Fitzgerald DM, Jones BD, Bondurant SS, Slonczewski JL (2008). "Rapid acid treatment of Escherichia coli: transcriptomic response and recovery." BMC Microbiol 8;37. PMID: 18302792

Lee07d: Lee J, Page R, Garcia-Contreras R, Palermino JM, Zhang XS, Doshi O, Wood TK, Peti W (2007). "Structure and Function of the Escherichia coli Protein YmgB: A Protein Critical for Biofilm Formation and Acid-resistance." J Mol Biol 373(1);11-26. PMID: 17765265

Lee07e: Lee J, Jayaraman A, Wood TK (2007). "Indole is an inter-species biofilm signal mediated by SdiA." BMC Microbiol 7;42. PMID: 17511876

Ren04a: Ren D, Bedzyk LA, Ye RW, Thomas SM, Wood TK (2004). "Differential gene expression shows natural brominated furanones interfere with the autoinducer-2 bacterial signaling system of Escherichia coli." Biotechnol Bioeng 88(5);630-42. PMID: 15470704

Tschowri09: Tschowri N, Busse S, Hengge R (2009). "The BLUF-EAL protein YcgF acts as a direct anti-repressor in a blue-light response of Escherichia coli." Genes Dev 23(4);522-34. PMID: 19240136

Weber05: Weber H, Polen T, Heuveling J, Wendisch VF, Hengge R (2005). "Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity." J Bacteriol 187(5);1591-603. PMID: 15716429

WhiteZiegler08: White-Ziegler CA, Um S, Perez NM, Berns AL, Malhowski AJ, Young S (2008). "Low temperature (23 degrees C) increases expression of biofilm-, cold-shock- and RpoS-dependent genes in Escherichia coli K-12." Microbiology 154(Pt 1);148-66. PMID: 18174134

Other References Related to Gene Regulation

Attila09: Attila C, Ueda A, Wood TK (2009). "5-Fluorouracil reduces biofilm formation in Escherichia coli K-12 through global regulator AriR as an antivirulence compound." Appl Microbiol Biotechnol 82(3);525-33. PMID: 19172264

GamaCastro08: Gama-Castro S, Jimenez-Jacinto V, Peralta-Gil M, Santos-Zavaleta A, Penaloza-Spinola MI, Contreras-Moreira B, Segura-Salazar J, Muniz-Rascado L, Martinez-Flores I, Salgado H, Bonavides-Martinez C, Abreu-Goodger C, Rodriguez-Penagos C, Miranda-Rios J, Morett E, Merino E, Huerta AM, Trevino-Quintanilla L, Collado-Vides J (2008). "RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation." Nucleic Acids Res 36(Database issue);D120-4. PMID: 18158297

Majdalani07: Majdalani N, Gottesman S (2007). "Genetic dissection of signaling through the Rcs phosphorelay." Methods Enzymol 423;349-62. PMID: 17609140

Tschowri12: Tschowri N, Lindenberg S, Hengge R (2012). "Molecular function and potential evolution of the biofilm-modulating blue light-signalling pathway of Escherichia coli." Mol Microbiol 85(5);893-906. PMID: 22783906

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 19.0 on Wed Oct 7, 2015, biocyc12.