Bifurcation- and noise-induced tipping in two-parametric gene transcriptional regulatory system

2021 ◽  
Vol 137 (1) ◽  
Author(s):  
Yi Song ◽  
Wei Xu ◽  
Yiyu Jiao
Keyword(s):  
Regulatory System ◽  
Transcriptional Regulatory

scholarly journals A Novel CO-Responsive Transcriptional Regulator and Enhanced H2Production by an Engineered Thermococcus onnurineus NA1 Strain

2014 ◽  
Vol 81 (5) ◽  
pp. 1708-1714 ◽  
Author(s):  
Min-Sik Kim ◽  
Ae Ran Choi ◽  
Seong Hyuk Lee ◽  
Hae-Chang Jung ◽  
Seung Seob Bae ◽  
...  
Keyword(s):  
Production Rate ◽  
Gene Cluster ◽  
Type Strain ◽  
Wild Type Strain ◽  
Regulatory System ◽  
Transcriptional Regulator ◽  
Bioreactor Culture ◽  
Wild Type ◽  
Content Type ◽  
Transcriptional Regulatory

ABSTRACTGenome analysis revealed the existence of a putative transcriptional regulatory system governing CO metabolism inThermococcus onnurineusNA1, a carboxydotrophic hydrogenogenic archaeon. The regulatory system is composed of CorQ with a 4-vinyl reductase domain and CorR with a DNA-binding domain of the LysR-type transcriptional regulator family in close proximity to the CO dehydrogenase (CODH) gene cluster. Homologous genes of the CorQR pair were also found in the genomes ofThermococcusspecies and “CandidatusKorarchaeum cryptofilum” OPF8. In-frame deletion of eithercorQorcorRcaused a severe impairment in CO-dependent growth and H2production. WhencorQandcorRdeletion mutants were complemented by introducing thecorQRgenes under the control of a strong promoter, the mRNA and protein levels of the CODH gene were significantly increased in a ΔCorR strain complemented with integratedcorQR(ΔCorR/corQR↑) compared with those in the wild-type strain. In addition, the ΔCorR/corQR↑strain exhibited a much higher H2production rate (5.8-fold) than the wild-type strain in a bioreactor culture. The H2production rate (191.9 mmol liter−1h−1) and the specific H2production rate (249.6 mmol g−1h−1) of this strain were extremely high compared with those of CO-dependent H2-producing prokaryotes reported so far. These results suggest that thecorQRgenes encode a positive regulatory protein pair for the expression of a CODH gene cluster. The study also illustrates that manipulation of the transcriptional regulatory system can improve biological H2production.

scholarly journals Quorum Sensing: a Transcriptional Regulatory System Involved in the Pathogenicity of Burkholderia mallei

2004 ◽  
Vol 72 (11) ◽  
pp. 6589-6596 ◽  
Author(s):  
Ricky L. Ulrich ◽  
David DeShazer ◽  
Harry B. Hines ◽  
Jeffrey A. Jeddeloh
Keyword(s):  
Quorum Sensing ◽  
Virulence Factor ◽  
Regulatory System ◽  
In Silico Analysis ◽  
Homoserine Lactone ◽  
Burkholderia Mallei ◽  
Wild Type ◽  
Transcriptional Regulatory ◽  
A Cell

ABSTRACT Numerous gram-negative bacterial pathogens regulate virulence factor expression by using a cell density mechanism termed quorum sensing (QS). An in silico analysis of the Burkholderia mallei ATCC 23344 genome revealed that it encodes at least two luxI and four luxR homologues. Using mass spectrometry, we showed that wild-type B. mallei produces the signaling molecules N-octanoyl-homoserine lactone and N-decanoyl-homoserine lactone. To determine if QS is involved in the virulence of B. mallei, we generated mutations in each putative luxIR homologue and tested the pathogenicities of the derivative strains in aerosol BALB/c mouse and intraperitoneal hamster models. Disruption of the B. mallei QS alleles, especially in RJ16 (bmaII) and RJ17 (bmaI3), which are luxI mutants, significantly reduced virulence, as indicated by the survival of mice who were aerosolized with 104 CFU (10 50% lethal doses [LD50s]). For the B. mallei transcriptional regulator mutants (luxR homologues), mutation of the bmaR5 allele resulted in the most pronounced decrease in virulence, with 100% of the challenged animals surviving a dose of 10 LD50s. Using a Syrian hamster intraperitoneal model of infection, we determined the LD50s for wild-type B. mallei and each QS mutant. An increase in the relative LD50 was found for RJ16 (bmaI1) (>967 CFU), RJ17 (bmaI3) (115 CFU), and RJ20 (bmaR5) (151 CFU) compared to wild-type B. mallei (<13 CFU). These findings demonstrate that B. mallei carries multiple luxIR homologues that either directly or indirectly regulate the biosynthesis of an essential virulence factor(s) that contributes to the pathogenicity of B. mallei in vivo.

scholarly journals Functional States of the Genome-Scale Escherichia Coli Transcriptional Regulatory System

2009 ◽  
Vol 5 (6) ◽  
pp. e1000403 ◽  
Author(s):  
Erwin P. Gianchandani ◽  
Andrew R. Joyce ◽  
Bernhard Ø. Palsson ◽  
Jason A. Papin
Keyword(s):  
Escherichia Coli ◽  
Regulatory System ◽  
Transcriptional Regulatory ◽  
Functional States ◽  
Genome Scale

scholarly journals Adoption of the Q transcriptional regulatory system for zebrafish transgenesis

Methods ◽  
2014 ◽  
Vol 66 (3) ◽  
pp. 433-440 ◽  
Author(s):  
Abhignya Subedi ◽  
Michelle Macurak ◽  
Stephen T. Gee ◽  
Estela Monge ◽  
Mary G. Goll ◽  
...  
Keyword(s):  
Regulatory System ◽  
Transcriptional Regulatory

Impacts of the cross-correlated noises on the fluctuation behaviors of a gene transcriptional regulatory system

2019 ◽  
Vol 514 ◽  
pp. 580-591 ◽  
Author(s):  
Yun-Feng Yang ◽  
Can-Jun Wang ◽  
Ke-Li Yang ◽  
Ya-Qiang Yang ◽  
Ying-Chun Zheng
Keyword(s):  
Regulatory System ◽  
Transcriptional Regulatory ◽  
The Cross ◽  
Correlated Noises

scholarly journals Lévy noise induced switch in the gene transcriptional regulatory system

2013 ◽  
Vol 23 (1) ◽  
pp. 013110 ◽  
Author(s):  
Yong Xu ◽  
Jing Feng ◽  
JuanJuan Li ◽  
Huiqing Zhang
Keyword(s):  
Regulatory System ◽  
Lévy Noise ◽  
Transcriptional Regulatory ◽  
Levy Noise

Transcriptional regulation by light and phytohormones of the MGD gene in cucumber

2000 ◽  
Vol 28 (6) ◽  
pp. 738-740 ◽  
Author(s):  
Y. Yamaryo ◽  
D. Kanai ◽  
K. Awai ◽  
T. Masuda ◽  
H. Shimada ◽  
...  
Keyword(s):  
Transcriptional Regulation ◽  
Mrna Level ◽  
Regulatory System ◽  
Peak Level ◽  
Enzyme Activation ◽  
Upstream Region ◽  
Cis Acting ◽  
Transcriptional Regulatory ◽  
Cytokinin Treatment ◽  
Luc Reporter Gene

Monogalactosyldiacylglycerol (MGDG) synthase catalyses formation of MGDG, a major structural lipid of chloroplasts. We have already cloned a cDNA for the synthase from a cucumber cDNA library and shown that expression of this gene is regulated by light and a phytohormone, cytokinin. In the present study, we report the molecular basis for transcriptional regulation by light and cytokinin in detail. First, in terms of the enzyme activity, gradual increases in activity mediated by light and cytokinin treatments were observed. At the same time, however, the changes in the mRNA level showed different profiles, with a transient peak during the early stages of light and cytokinin treatment. The interval between the peak level of mRNA and enzyme activation implies the existence of a post-transcriptional regulatory system. In addition, a genomic clone of MGDG synthase isolated from a cucumber genome library was used for a motif search in databases, and this revealed that putative cis-acting elements for light and phytohormones exist in the 5Î-upstream region of the MGD cucumber gene. Detailed analysis of this region for light- and cytokinin-responsive activity was performed using a – 90 truncated 35 S minimal promoter/luciferase (LUC) reporter gene. It resulted in high levels of LUC expression in etiolated cucumber cotyledons in response to illumination and cytokinin treatment. These results indicate that this 5Î-upstream region is involved in light- and cytokinin-enhanced MGD gene expression, and that light- and cytokinin-responsive enhancements of the MGDG synthase activity are regulated, at least in part, at the level of transcription.

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