An Integrated Database of Small RNAs and Their Interplay With Transcriptional Gene Regulatory Networks in Corynebacteria

Parise, Mariana Teixeira Dornelles; Parise, Doglas; Aburjaile, Flávia Figueira; Gomide, Anne Cybelle Pinto; Kato, Rodrigo Bentes; Raden, Martin; Backofen, Rolf; Azevedo, Vasco; Baumbach, Jan

doi:10.3389/fmicb.2021.656435

Cited by 3 publications

(2 citation statements)

References 90 publications

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“…In recent years, the application of deep RNA sequencing has revealed the presence of hundreds of additional RNA candidates in a wide swath of bacterial species [83]. Nevertheless, more studies that characterize new bacterial RNA species and their interactions in the transcriptional regulatory networks of bacterial species are needed [108]. In order to characterize these sRNAs, several computational or experimental tools to identify regulatory targets of sRNAs have been developed.…”

Section: Importance Of the Identification And Characterization Of Small Rnas In Bacteriamentioning

confidence: 99%

MicroRNAs Encoded by Virus and Small RNAs Encoded by Bacteria Associated with Oncogenic Processes

et al. 2021

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Cancer is a deadly disease and, globally, represents the second leading cause of death in the world. Although it is a disease where several factors can help its development, virus induced infections have been associated with different types of neoplasms. However, in bacterial infections, their participation is not known for certain. Among the proposed approaches to oncogenesis risks in different infections are microRNAs (miRNAs). These are small molecules composed of RNA with a length of 22 nucleotides capable of regulating gene expression by directing protein complexes that suppress the untranslated region of mRNA. These miRNAs and other recently described, such as small RNAs (sRNAs), are deregulated in the development of cancer, becoming promising biomarkers. Thus, resulting in a study possibility, searching for new tools with diagnostic and therapeutic approaches to multiple oncological diseases, as miRNAs and sRNAs are main players of gene expression and host–infectious agent interaction. Moreover, sRNAs with limited complementarity are similar to eukaryotic miRNAs in their ability to modulate the activity and stability of multiple mRNAs. Here, we will describe the regulatory RNAs from viruses that have been associated with cancer and how sRNAs in bacteria can be related to this disease.

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Section: Importance Of the Identification And Characterization Of Small Rnas In Bacteriamentioning

confidence: 99%

MicroRNAs Encoded by Virus and Small RNAs Encoded by Bacteria Associated with Oncogenic Processes

et al. 2021

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“…Bacterial small regulatory RNAs (sRNAs), which typically range from 50 to 500 nucleotides in length, serve as significant post-transcriptional regulators of gene expression in response to environmental stimuli stressors [27][28][29][30][31][32]. sRNAs, which are transcribed from intergenic regions and do not undergo translation, exhibit a high degree of conservation among homologs [33].…”

Section: Introductionmentioning

confidence: 99%

Understanding the Effect of Different Glucose Concentrations in the Oligotrophic Bacterium Bacillus subtilis BS-G1 through Transcriptomics Analysis

Chen,

Wang,

2023

Microorganisms

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Glucose is an important carbon source for microbial growth, and its content in infertile soils is essential for the growth of bacteria. Since the mechanism of oligotrophic bacterium adaptation in barren soils is unclear, this research employed RNA-seq technology to examine the impact of glucose concentration on the oligotrophic bacterium B. subtilis BS-G1 in soil affected by desertification. A global transcriptome analysis (RNA-Seq) revealed that the significantly differentially expressed genes (DEGs) histidine metabolism, glutamate synthesis, the HIF-1 signaling pathway, sporulation, and the TCA cycle pathway of B. subtilis BS-G1 were significantly enriched with a 0.015 g/L glucose concentration (L group), compared to a 10 g/L glucose concentration (H group). The DEGs amino acid system, two-component system, metal ion transport, and nitrogen metabolism system of B. subtilis BS-G1 were significantly enriched in the 5 g/L glucose concentration (M group), compared with the H group. In addition, the present study identified the regulation pattern and key genes under a low-glucose environment (7 mRNAs and 16 sRNAs). This study primarily investigates the variances in the regulatory pathways of the oligotrophic B. subtilis BS-G1, which holds substantial importance in comprehending the mechanism underlying the limited sugar tolerance of oligotrophic bacteria.

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Regulatory Small RNAs as Antimicrobial Drug Targets

Ribeiro,

de Oliveira Cerqueira e Costa,

Farias

et al. 2024

Computer-Aided Drug Discovery and Design

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An Integrated Database of Small RNAs and Their Interplay With Transcriptional Gene Regulatory Networks in Corynebacteria

Cited by 3 publications

References 90 publications

MicroRNAs Encoded by Virus and Small RNAs Encoded by Bacteria Associated with Oncogenic Processes

MicroRNAs Encoded by Virus and Small RNAs Encoded by Bacteria Associated with Oncogenic Processes

Understanding the Effect of Different Glucose Concentrations in the Oligotrophic Bacterium Bacillus subtilis BS-G1 through Transcriptomics Analysis

Regulatory Small RNAs as Antimicrobial Drug Targets

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