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Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Brevundimonas subvibrioides

PROVIDER: GSE138847 | GEO | 2020/02/01

REPOSITORIES: GEO

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Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria.

Project description: Not available

| S-EPMC7987155 | biostudies-literature

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

Project description:Transcriptional rewiring is the regulation of different targets genes by orthologous regulators in different organisms. While this phenomenon has been observed, it has not been extensively studied, particularly in core regulatory systems. Several global cell cycle regulators are conserved in the Alphaproteobacteria, providing an excellent model to study this phenomenon. First characterized in Caulobacter crescentus, GcrA and CcrM compose a DNA methylation-based regulatory system that helps coordinate the complex life cycle of this organism. These regulators are well-conserved across Alphaproteobacteria, but the extent to which their regulatory targets are conserved is not known. In this study, the regulatory targets of GcrA and CcrM were analyzed by SMRT-seq, RNA-seq, and ChIP-seq technologies in the Alphaproteobacterium Brevundimonas subvibrioides, and then compared to those of its close relative C. crescentus that inhabits the same environment. Although the regulators themselves are highly conserved, the genes they regulate are vastly different. GcrA directly regulates 204 genes in C. crescentus, and though B. subvibrioides has orthologs to 147 of those genes, only 48 genes retained GcrA binding in their promoter regions. Additionally, only 12 of those 48 genes demonstrated significant transcriptional change in a gcrA mutant, suggesting extensive transcriptional rewiring between these organisms. Similarly, out of hundreds of genes CcrM regulates in each of these organisms, only 2 genes were found in common. When multiple Alphaproteobacterial genomes were analyzed bioinformatically for potential GcrA regulatory targets, the regulation of genes involved in DNA replication and cell division was well conserved across the Caulobacterales but not outside this order. This work suggests that significant transcriptional rewiring can occur in cell cycle regulatory systems even over short evolutionary distances.

2020-02-01 | GSE138845 | GEO

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

2020-02-01 | GSE138844 | GEO

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

Project description:Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

| PRJNA577588 | ENA

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

Project description:Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

| PRJNA577593 | ENA

Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

Project description:Transcriptional rewiring of the GcrA/CcrM bacterial epigenetic regulatory system in closely related bacteria

| PRJNA577594 | ENA

Transfer of noncoding DNA drives regulatory rewiring in bacteria.

Project description: Not available

| S-EPMC4234569 | biostudies-literature

Transfer of Non-coding DNA Drives Regulatory Rewiring in Bacteria

Project description:The rapid pace of evolution in bacteria is widely attributed to the promiscuous horizontal transfer and recombination of protein-coding genes. However, it is not known whether the same forces also drive the evolution of non-coding regulatory regions. Here we demonstrate that regulatory region can M-bM-^@M-^XswitchM-bM-^@M-^Y between non-homologous alternatives and that such switching is ubiquitous, occurring across the bacterial domain. We show that such regulatory switching strongly impacts promoter architecture and expression divergence. We further show that regulatory transfer facilitates rapid phenotypic diversification of a human pathogen. This regulatory mobility enables bacterial genes to access a vast pool of potential regulatory elements, facilitating efficient exploration of the regulatory landscape. Examination of 2 E. coli strains in 2 conditions

2014-11-04 | E-GEOD-59468 | biostudies-arrayexpress

Variability of Bacterial Essential Genes Among Closely Related Bacteria: The Case of <i>Escherichia coli</i>.

Project description: Not available

| S-EPMC5992433 | biostudies-literature

Evolution of transcriptional regulation in closely related bacteria.

Project description: Not available

| S-EPMC3735044 | biostudies-literature