BSGatlas

sigW

BSGatlas-gene-241

BSGatlas

Description	Information
Coordinates	194849..195412
Genomic Size	564 bp
Name	sigW
Outside Links	SubtiWiki
	BsubCyc
Strand	+
Type	CDS

SubtiWiki

Description	Information
Alternative Name	sigW
	sigW
	ybbL
Category	SW 3 Information processing
	SW 3.2 RNA synthesis and degradation
	SW 3.2.1 Transcription
	SW 3.2.1.2 Sigma factors
	SW 3.4 Regulation of gene expression
	SW 3.4.1 Sigma factors and their control
	SW 3.4.1.1 Sigma factors
	SW 4 Lifestyles
	SW 4.3 Coping with stress
	SW 4.3.2 Cell envelope stress proteins (controlled by SigM, V, W, X, Y)
Description	[SW\|RNA polymerase] ECF-type [SW\|sigma factor] SigW, required for the adaptation to membrane active agents, activated by alkaline shock and by polymyxin B, vancomycin, cephalosporin C, D-cycloserine, and triton X-100
Function	adaptation to membrane-active compounds
Is essential?	no
Isoelectric point	8.61
Locus Tag	BSU_01730
Molecular weight	21.5682
Name	sigW
Product	[SW\|RNA polymerase] ECF-type [SW\|sigma factor] SigW

RefSeq

Description	Information
Alternative Locus Tag	BSU01730
Description	Evidence 1a: Function from experimental evidencesin the studied strain; PubMedId: 11866510, 15130127,16629676, 21542858, 28319136, 22720735; Product type r :regulator
Functions	16.3: Control
Locus Tag	BSU_01730
Name	sigW
Title	RNA polymerase ECF(extracytoplasmicfunction)-type sigma factor W
Type	CDS

BsubCyc

Description	Information
Alternative Name	ybbL
Citation	Blom EJ;Ridder AN;Lulko AT;Roerdink JB;Kuipers OP Time-Resolved Transcriptomics and Bioinformatic Analyses Reveal Intrinsic Stress Responses during Batch Culture of Bacillus subtilis. PLoS One 6(11);e27160 (2011) PUBMED: 22087258
	Hashimoto M;Seki T;Matsuoka S;Hara H;Asai K;Sadaie Y;Matsumoto K Induction of extracytoplasmic function sigma factors in Bacillus subtilis cells with defects in lipoteichoic acid synthesis. Microbiology 159(Pt 1);23-35 (2013) PUBMED: 23103977
	Kingston AW;Liao X;Helmann JD Contributions of the σ(W) , σ(M) and σ(X) regulons to the lantibiotic resistome of Bacillus subtilis. Mol Microbiol 90(3);502-18 (2013) PUBMED: 23980836
	Kingston AW;Subramanian C;Rock CO;Helmann JD A σW-dependent stress response in Bacillus subtilis that reduces membrane fluidity. Mol Microbiol 81(1);69-79 (2011) PUBMED: 21542858
	Luo Y;Asai K;Sadaie Y;Helmann JD Transcriptomic and phenotypic characterization of a Bacillus subtilis strain without extracytoplasmic function sigma factors. J Bacteriol 192(21);5736-45 (2010) PUBMED: 20817771
	Nagler K;Krawczyk AO;De Jong A;Madela K;Hoffmann T;Laue M;Kuipers OP;Bremer E;Moeller R Identification of Differentially Expressed Genes during Bacillus subtilis Spore Outgrowth in High-Salinity Environments Using RNA Sequencing. Front Microbiol 7;1564 (2016) PUBMED: 27766092
	Nicholson WL Increased competitive fitness of Bacillus subtilis under nonsporulating conditions via inactivation of pleiotropic regulators AlsR, SigD, and SigW. Appl Environ Microbiol 78(9);3500-3 (2012) PUBMED: 22344650
	Souza BM;Castro TL;Carvalho RD;Seyffert N;Silva A;Miyoshi A;Azevedo V σ(ECF) factors of gram-positive bacteria: a focus on Bacillus subtilis and the CMNR group. Virulence 5(5);587-600 (2014) PUBMED: 24921931
	Yu WB;Ye BC High-level iron mitigates fusaricidin-induced membrane damage and reduces membrane fluidity leading to enhanced drug resistance in Bacillus subtilis. J Basic Microbiol 56(5);502-9 (2016) PUBMED: 26467177
	Yu WB;Yin CY;Zhou Y;Ye BC Prediction of the mechanism of action of fusaricidin on Bacillus subtilis. PLoS One 7(11);e50003 (2012) PUBMED: 23185515
	Yu X;Xu J;Liu X;Chu X;Wang P;Tian J;Wu N;Fan Y Identification of a highly efficient stationary phase promoter in Bacillus subtilis. Sci Rep 5;18405 (2015) PUBMED: 26673679
	Zweers JC;Nicolas P;Wiegert T;van Dijl JM;Denham EL Definition of the σ(W) Regulon of Bacillus subtilis in the Absence of Stress. PLoS One 7(11);e48471 (2012) PUBMED: 23155385
Comment	Review: \|CITS: [22381678]\| One or more strains containing mutant alleles of this gene can be obtained from the Bacillus Genetic Stock Center. Click here to see the list of available strains at BGSC. From GenBank annotation: Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 11866510, 15130127, 16629676; Product type r: regulator
Description	RNA polymerase ECF(extracytoplasmic function)-type sigma factor W
Gene Ontology	GO:0003677 DNA binding
	GO:0003700 DNA-binding transcription factor activity
	GO:0006351 transcription, DNA-templated
	GO:0006352 DNA-templated transcription, initiation
	GO:0006355 regulation of transcription, DNA-templated
	GO:0006950 response to stress
	GO:0016987 sigma factor activity
Locus Tag	BSU01730
Molecular weight	21.713
Name	sigW

Nicolas et al. predictions

Description	Information
Expression neg. correlated with	BSU14000, new_1054654_1054745, BSU33590, BSU38350, BSU06930, BSU28330, BSU17740, BSU20620, new_1907202_1907287, BSU40820
Expression pos. correlated with	BSU01740, new_1357486_1357852_c, BSU30010, BSU30000, BSU38790, BSU36090, BSU38940, BSU04590, new_3983174_3984118, BSU25390
Highly expressed condition	(T-0.40H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T0.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T0.30H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T1.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T1.30H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T2.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T2.30H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T3.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T3.30H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
	(T4.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H].
Lowely expressed condition	(Heat) Cells were grown in a synthetic medium (J. Stülke, R. Hanschke, M. Hecker, J Gen Microbiol 139, 2041, Sep, 1993) with 0.2 % glucose as carbon source (Belitsky Minimal Medium/BMM) at 37 °C with vigorous shaking. Stress was applied to exponentially growing cultures at OD500nm of 0.4. Samples were harvested before stress [BMM]; after a rapid temperature up-shift from 37 °C to 48 °C [Heat]; after a temperature down-shift from 37 °C to 18 °C [Cold]. Ethanol stress was imposed by adding ethanol to a final concentration of 4 % (v/v) and cells were harvested 10 minutes after ethanol addition [Etha].
	(LBGtran) Cells were grown in Luria-Bertani medium (Sigma) supplemented with glucose 0.3 % [LBG] at 37°C with vigorous shaking in flasks. Overnight cultures were diluted 2000-fold in fresh pre-warmed medium and samples were collected during the exponential [exp], transition [tran] and stationary [stat] phases of the growth cycle .
	(LPhT) Cells were harvested (i) during exponential growth in high phosphate defined medium [HPh]; (ii) during exponential growth in low phosphate defined medium [LPh] (J. P. Muller, Z. An, T. Merad, I. C. Hancock, C. R. Harwood, Microbiology 143, 947, Mar, 1997);and (iii) at three hours after the outset of the phosphate-limitation induced stationary phase [LPhT].
	(M0t90) Cells were grown in LB medium at 37°C with vigorous shaking. An exponentially growing culture (O.D.600 approx. 0.25) was divided: one culture acted as the control [no mitomycin C , M0] while mitomycin was added to the second culture to a final concentration of 40 ng/ml [mitomycin, M40]. Samples were harvested at 0, 45 and 90 minutes after mitomycin addition [t0, t45 and t90].
	(M40t90) Cells were grown in LB medium at 37°C with vigorous shaking. An exponentially growing culture (O.D.600 approx. 0.25) was divided: one culture acted as the control [no mitomycin C , M0] while mitomycin was added to the second culture to a final concentration of 40 ng/ml [mitomycin, M40]. Samples were harvested at 0, 45 and 90 minutes after mitomycin addition [t0, t45 and t90].
	(S3) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments.
	(S4) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments.
	(S5) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments.
	(S6) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments.
	(S7) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments.
Name	sigW

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