ArticleBMC genomics2013
The Clostridium small RNome that responds to stress: the paradigm and importance of toxic metabolite stress in C. acetobutylicum.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
25 citing papers in PubMed, 59 citations in OpenAlex.
- Metabolic interplay in a synthetic consortium: insights into the mediating role of a minority species.Frontiers in microbiology · 2026Article
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- The potential of native and engineered Clostridia for biomass biorefining.Frontiers in bioengineering and biotechnology · 2024Review
- Current progress on engineering microbial strains and consortia for production of cellulosic butanol through consolidated bioprocessing.Microbial biotechnology · 2023Review
- Review
- Metabolic changes of the acetogenFrontiers in microbiology · 2022Article
- Editorial: Microorganisms for Consolidated 2nd Generation Biorefining.Frontiers in microbiology · 2022Article
- Identification of a non-coding RNA and its putative involvement in the regulation of tetanus toxin synthesis in Clostridium tetani.Scientific reports · 2021Article
- Article
- The Small RNA sr8384 Is a Crucial Regulator of Cell Growth in Solventogenic Clostridia.Applied and environmental microbiology · 2020Article
- Pathway dissection, regulation, engineering and application: lessons learned from biobutanol production by solventogenic clostridia.Biotechnology for biofuels · 2020Review
- A transcriptional response ofBiotechnology for biofuels · 2019Article
- Mechanisms of Bacterial Tolerance and Persistence in the Gastrointestinal and Respiratory Environments.Clinical microbiology reviews · 2018Review
- Small and Low but Potent: the Complex Regulatory Role of the Small RNA SolB in Solventogenesis in Clostridium acetobutylicum.Applied and environmental microbiology · 2018Article
- Synthetic Biology of Small RNAs and Riboswitches.Microbiology spectrum · 2018Review
- A novel small RNA CoaR regulates coenzyme A biosynthesis and tolerance ofBiotechnology for biofuels · 2017Article
- A Quantitative System-Scale Characterization of the Metabolism of Clostridium acetobutylicum.mBio · 2015Article
- Transcriptional analysis of micronutrient zinc-associated response for enhanced carbohydrate utilization and earlier solventogenesis in Clostridium acetobutylicum.Scientific reports · 2015Article
- Complex and extensive post-transcriptional regulation revealed by integrative proteomic and transcriptomic analysis of metabolite stress response in Clostridium acetobutylicum.Biotechnology for biofuels · 2015Article
- Transcriptomic analysis of Clostridium thermocellum Populus hydrolysate-tolerant mutant strain shows increased cellular efficiency in response to Populus hydrolysate compared to the wild type strain.BMC microbiology · 2014Article
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSmall non-coding RNAs (sRNA) are emerging as major components of the cell's regulatory network, several possessing their own regulons. A few sRNAs have been reported as being involved in general or toxic-metabolite stress, mostly in Gram- prokaryotes, but hardly any in Gram+ prokaryotes. Significantly, the role of sRNAs in the stress response remains poorly understood at the genome-scale level. It was previously shown that toxic-metabolite stress is one of the most comprehensive and encompassing stress responses in the cell, engaging both the general stress (or heat-shock protein, HSP) response as well as specialized metabolic programs.
resultsUsing RNA deep sequencing (RNA-seq) we examined the sRNome of C. acetobutylicum in response to the native but toxic metabolites, butanol and butyrate. 7.5% of the RNA-seq reads mapped to genome outside annotated ORFs, thus demonstrating the richness and importance of the small RNome. We used comparative expression analysis of 113 sRNAs we had previously computationally predicted, and of annotated mRNAs to set metrics for reliably identifying sRNAs from RNA-seq data, thus discovering 46 additional sRNAs. Under metabolite stress, these 159 sRNAs displayed distinct expression patterns, a select number of which was verified by Northern analysis. We identified stress-related expression of sRNAs affecting transcriptional (6S, S-box &solB) and translational (tmRNA & SRP-RNA) processes, and 65 likely targets of the RNA chaperone Hfq.
conclusionsOur results support an important role for sRNAs for understanding the complexity of the regulatory network that underlies the stress response in Clostridium organisms, whether related to normophysiology, pathogenesis or biotechnological applications.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.