The 1.2 Å structure of a novel quorum-sensing protein, Bacillus subtilis LuxS 1 1Edited by J. Thornton

Ruzheinikov, S.N.; Das, Sumit Kumar; Sedelnikova, Svetlana E.; Hartley, Andrew; Foster, Simon J.; Horsburgh, Malcolm J.; Cox, Alan G.; McCleod, C.W.; Mekhalfia, Abdelaziz; Blackburn, G. Michael; Rice, David W.; Baker, Patrick J.

doi:10.1006/jmbi.2001.5027

Cited by 74 publications

(100 citation statements)

References 21 publications

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“…For example, the chemotaxis and motility genes were down regulated in B. atrophaeus (see also the supplementary Table S1) The similarity between B. atrophaeus UCMB-5137 and B. amyloliquefaciens FZB42 was in activation of the genes ymcA and luxS controlling biofilm formation (Nicolas et al, 2012). It is known that luxS is also an activator of synthesis of the quorum sensing autoinducer AI-2 (Ruzheinikov et al, 2001). Activation of ylbF, which is an antagonist of the biofilm repressor SinR (Kearns et al, 2005), was also observed in B. atrophaeus UCMB-5137 treated by the root exudates.…”

Section: Comparison Of the Gene Expression Profiles Of B Atrophaeus mentioning

confidence: 99%

Gene expression regulation in the plant growth promoting Bacillus atrophaeus UCMB-5137 stimulated by maize root exudates

Mwita

Chan

Pretorius

et al. 2016

Gene

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Despite successful use of Plant Growth Promoting Rhizobacteria (PGPR) in agriculture, little is known about specific mechanisms of gene regulation facilitating the effective communication between bacteria and plants during plant colonization. Active PGPR strain B. atrophaeus UCMB-5137 was studied in this research. RNA sequencing profiles were generated in experiments where root exudate stimulations were used to mimic interactions between bacteria and plants. It was found that the gene regulation in B. atrophaeus UCMB-5137 in response to the root exudate stimuli differed from the reported gene regulation at similar conditions in B. amyloliquefaciens FZB42, which was considered as a paradigm PGPR. This difference was explained by hypersensitivity of UCMB-5137 to the root exudate stimuli impelling it to a sessile root colonization behavior through the CcpA-CodY-AbrB regulation. It was found that the transcriptional factor DegU also could play an important role in gene regulations during plant colonization. A significant stress caused by the root exudates on in vitro cultivated B. atrophaeus UCMB-5137 was noticed and discussed. Multiple cases of conflicted gene regulations showed scantiness of our knowledge on the regulatory network in Bacillus. Some of these conflicted regulations could be explained by interference of non-coding RNA (ncRNA). Search through differential expressed intergenic regions revealed 49 putative loci of ncRNA regulated by the root exudate stimuli. Possible target mRNA were predicted and a general regulatory network of B. atrophaeus UCMB-5137 genome was designed.1 Highlights  Plant colonizing PGPR Bacillus responded differently to the root exudate stimuli;  In UCMB-5137 the CcpA-CodY-AbrB regulation caused fast cell immobilization;  DegU regulon is important for plant colonization behavior in PGPR Bacillus;  ncRNA involved in regulation of plant colonization were identified;  A comprehensive model of gene regulation in UCMB-5137 was developed;

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Section: Comparison Of the Gene Expression Profiles Of B Atrophaeus mentioning

confidence: 99%

Gene expression regulation in the plant growth promoting Bacillus atrophaeus UCMB-5137 stimulated by maize root exudates

Mwita

Chan

Pretorius

et al. 2016

Gene

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Section: Introductionmentioning

confidence: 99%

“…The monomer has approximate dimensions 25 Å x 35 Å x 45 Å (Ruzheinikov et al 2001). Each monomer is mainly composed of a four-stranded antiparallel β-sheet and three α-helices (Ruzheinikov et al 2001). In the unique dimer structure, the β-sheets face each other at the dimer interface to form a β-barrel, which is flanked by the α-helices (Ruzheinikov et al 2001 (Miller and Duerre 1968).…”

Section: Introductionmentioning

confidence: 99%

“…Each monomer is mainly composed of a four-stranded antiparallel β-sheet and three α-helices (Ruzheinikov et al 2001). In the unique dimer structure, the β-sheets face each other at the dimer interface to form a β-barrel, which is flanked by the α-helices (Ruzheinikov et al 2001 (Miller and Duerre 1968). SRH is formed from Sadenosylhomocysteine (SAH) by the nucleosidase Pfs (Della Ragione et al 1985).…”

Section: Introductionmentioning

confidence: 99%

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Tyrosine‐based “Activatable Pro‐Tag”: Enzyme‐catalyzed protein capture and release

Lewandowski

Small

Chen

et al. 2006

Biotech & Bioengineering

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Fusion tags are widely used in the recovery and purification of recombinant proteins. We have investigated the capture and release of two fusion proteins from cell extracts using the aminopolysaccharide chitosan. We have fused to green fluorescent protein (GFP) and to S-ribosylhomocysteinase (LuxS) a "pro-tag" consisting of five tyrosine residues that are "activated" by tyrosinase-catalyzed conversion into reactive oquinones. The o-quinones react with the amino groups of chitosan, resulting in the covalent conjugation of the fusion protein to chitosan. The fusion protein is captured from solution by precipitation of the protein-chitosan conjugate due to the decrease in solubility of chitosan at higher pH. Additionally, chitosan is used to "pre-precipitate" cell extract contaminants such as nucleic acids and phospholipids, and thus, crudely purify the fusion protein remaining in solution. Finally, we released the fusion protein from chitosan back into solution using the chitosan-hydrolyzing enzyme chitosanase as an alternative to protease cleavage.

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“…[46][47][48] All LuxS proteins are homodimers. Each subunit is a single polypeptide chain which share a novel α-β fold consisting of four-stranded antiparallel β-sheet bordered by 3 α helices on one side and a short 3 10 helix on the other side.…”

Section: S-ribosylhomocysteinase (Luxs)mentioning

confidence: 99%

The 4-aza-S-ribosyl-L-homocysteine Derivatives and the Related Gamma-lactam and Azahemiacetal Analogs: Synthesis, Inhibition and Quorum Sensing Activity

Ms¹,

Venkata²

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The 1.2 Å structure of a novel quorum-sensing protein, Bacillus subtilis LuxS 1 1Edited by J. Thornton

Cited by 74 publications

References 21 publications

Gene expression regulation in the plant growth promoting Bacillus atrophaeus UCMB-5137 stimulated by maize root exudates

Gene expression regulation in the plant growth promoting Bacillus atrophaeus UCMB-5137 stimulated by maize root exudates

Tyrosine‐based “Activatable Pro‐Tag”: Enzyme‐catalyzed protein capture and release

The 4-aza-S-ribosyl-L-homocysteine Derivatives and the Related Gamma-lactam and Azahemiacetal Analogs: Synthesis, Inhibition and Quorum Sensing Activity

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