ArticleNucleic acids research2014
Transcriptome analysis reveals novel regulatory mechanisms in a genome-reduced bacterium.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 54 citations in OpenAlex.
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- WhiA transcription factor provides feedback loop between translation and energy production in a genome-reduced bacterium.Frontiers in microbiology · 2024Article
- Unraveling the adaptive strategies ofFrontiers in cellular and infection microbiology · 2024Article
- Gene Silencing through CRISPR Interference in Mycoplasmas.Microorganisms · 2022Article
- Thymidine utilisation pathway is a novel phenotypic switch ofJournal of medical microbiology · 2022Article
- Role of DNA modifications in Mycoplasma gallisepticum.PloS one · 2022Article
- The Dynamics ofFrontiers in microbiology · 2021Article
- Integrative characterization of the near-minimal bacterium Mesoplasma florum.Molecular systems biology · 2020Article
- Transcriptional Landscape ofViruses · 2020Article
- Current status of vaccine research, development, and challenges of vaccines for Mycoplasma gallisepticum.Poultry science · 2020Review
- Gene Networks Underlying the Resistance ofFrontiers in immunology · 2020Article
- Distinct types of short open reading frames are translated in plant cells.Genome research · 2019Article
- RAIL: A new tool for defining bacterial promoter regions.Journal of bacteriology · 2018Article
- Data-independent proteome profile ofData in brief · 2018Article
- BAC-BROWSER: The Tool for Visualization and Analysis of Prokaryotic Genomes.Frontiers in microbiology · 2018Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The avian bacterial pathogen Mycoplasma gallisepticum is a good model for systems studies due to small genome and simplicity of regulatory pathways. In this study, we used RNA-Seq and MS-based proteomics to accurately map coding sequences, transcription start sites (TSSs) and transcript 3'-ends (T3Es). We used obtained data to investigate roles of TSSs and T3Es in stress-induced transcriptional responses. We identified 1061 TSSs at a false discovery rate of 10% and showed that almost all transcription in M. gallisepticum is initiated from classic TATAAT promoters surrounded by A/T-rich sequences. Our analysis revealed the pronounced operon structure complexity: on average, each coding operon has one internal TSS and T3Es in addition to the primary ones. Our transcriptomic approach based on the intervals between the two nearest transcript ends allowed us to identify two classes of T3Es: strong, unregulated, hairpin-containing T3Es and weak, heat shock-regulated, hairpinless T3Es. Comparing gene expression levels under different conditions revealed widespread and divergent transcription regulation in M. gallisepticum. Modeling suggested that the core promoter structure plays an important role in gene expression regulation. We have shown that the heat stress activation of cryptic promoters combined with the hairpinless T3Es suppression leads to widespread, seemingly non-functional transcription.
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