Multi-target regulation by small RNAs synchronizes gene expression thresholds and may enhance ultrasensitive behavior. [PDF]
PLoS ONE, 2012 Cells respond to external cues by precisely coordinating multiple molecular events. Co-regulation may be established by the so-called single-input module (SIM), where a common regulator controls multiple targets.
Jörn Matthias Schmiedel +2 more
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Post-transcriptional regulation of gene expression in bacterial pathogens by toxin-antitoxin systems
Frontiers in Cellular and Infection Microbiology, 2014 Toxin-antitoxin (TA) systems are small genetic elements ubiquitous in prokaryotic genomes that encode toxic proteins targeting various vital cellular functions.
Ralph eBertram, Christopher F Schuster
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Orthologous transcription factors in bacteria have different functions and regulate different genes. [PDF]
PLoS Computational Biology, 2007 Transcription factors (TFs) form large paralogous gene families and have complex evolutionary histories. Here, we ask whether putative orthologs of TFs, from bidirectional best BLAST hits (BBHs), are evolutionary orthologs with conserved functions.
Morgan N Price +2 more
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Distance matters: the impact of gene proximity in bacterial gene regulation [PDF]
Phys Rev Lett 110, 198101 (2013), 2013 Following recent discoveries of colocalization of downstream-regulating genes in living cells, the impact of the spatial distance between such genes on the kinetics of gene product formation is increasingly recognized. We here show from analytical and numerical analysis that the distance between a transcription factor (TF) gene and its target gene ...
arxiv +1 more source
Do small RNAs unlock the below ground microbiome-plant interaction mystery?
Frontiers in Molecular Biosciences, 2022 Over the past few decades, regulatory RNAs, such as small RNAs (sRNAs), have received increasing attention in the context of host-microbe interactions due to their diverse roles in controlling various biological processes in eukaryotes.
Roshan Regmi +8 more
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Functional Characteristics of Gene Expression Motifs with Single and Dual Strategies of Regulation [PDF]
Biomed. Phys. Eng. Express, 2 , 025009(2016), 2016 Transcriptional regulation by transcription factors and post-transcriptional regulation by microRNAs constitute two major modes of regulation of gene expression. While gene expression motifs incorporating solely transcriptional regulation are well investigated, the dynamics of motifs with dual strategies of regulation, i.e., both transcriptional and ...
arxiv +1 more source
Control of Bacterial Sulfite Detoxification by Conserved and Species-Specific Regulatory Circuits
Frontiers in Microbiology, 2019 Although sulfite, a by-product of the degradation of many sulfur compounds, is highly reactive and can cause damage to DNA, proteins and lipids, comparatively little is known about the regulation of sulfite-oxidizing enzyme (SOEs) expression.
Yi Jie Chelsea Tan +8 more
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mBio, 2022 Despite being in a golden age of bacterial epigenomics, little work has systematically examined the plasticity and functional impacts of the bacterial DNA methylome.
Jeffrey S. Bourgeois +7 more
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Mechanism of Gene Regulation by a
mBio, 2016 The virulence of many bacterial pathogens, including the important human pathogen Staphylococcus aureus, depends on the secretion of frequently large amounts of toxins. Toxin production involves the need for the bacteria to make physiological adjustments
Hwang-Soo Joo +8 more
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MicroRNAs preferentially target the genes with high transcriptional regulation complexity [PDF]
Biochem Biophys Res Commun., 352:733-738, 2007, 2006 Over the past few years, microRNAs (miRNAs) have emerged as a new prominent class of gene regulatory factors that negatively regulate expression of approximately one-third of the genes in animal genomes at post-transcriptional level. However, it is still unclear why some genes are regulated by miRNAs but others are not, i.e.
arxiv +1 more source