ArticleScientific reports2015
Variations in the non-coding transcriptome as a driver of inter-strain divergence and physiological adaptation in bacteria.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
25 citing papers in PubMed.
- Transcriptional regulatory network differences between six industrialMetabolic engineering communications · 2026Article
- Very high CONAR genomics and bioinformatics · 2026Article
- Epigenetic control of tetrapyrrole biosynthesis by m4C DNA methylation in a cyanobacterium.DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
- Adaptation of the Mycobacterium tuberculosis transcriptome to biofilm growth.PLoS pathogens · 2024Article
- Protein NirP1 regulates nitrite reductase and nitrite excretion in cyanobacteria.Nature communications · 2024Article
- Article
- Genome-wide identification and characterization of Fur-binding sites in the cyanobacteria Synechocystis sp. PCC 6803 and PCC 6714.DNA research : an international journal for rapid publication of reports on genes and genomes · 2021Article
- Discovery of a small protein factor involved in the coordinated degradation of phycobilisomes in cyanobacteria.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- The Primary Antisense Transcriptome ofGenes · 2019Article
- The Distinctive Regulation of Cyanobacterial Glutamine Synthetase.Life (Basel, Switzerland) · 2018Review
- Small RNAs Involved in Regulation of Nitrogen Metabolism.Microbiology spectrum · 2018Review
- Widespread Antisense Transcription in Prokaryotes.Microbiology spectrum · 2018Review
- Benefit from decline: the primary transcriptome of Alteromonas macleodii str. Te101 during Trichodesmium demise.The ISME journal · 2018Article
- Ethylene causes transcriptomic changes inPlant direct · 2018Article
- The primary transcriptome of the fast-growing cyanobacteriumBiotechnology for biofuels · 2018Article
- Termination factor Rho: From the control of pervasive transcription to cell fate determination in Bacillus subtilis.PLoS genetics · 2017Article
- Global Transcriptional Responses to Osmotic, Oxidative, and Imipenem Stress Conditions in Pseudomonas putida.Applied and environmental microbiology · 2017Article
- Small proteins in cyanobacteria provide a paradigm for the functional analysis of the bacterial micro-proteome.BMC microbiology · 2016Article
- mdRNA-Seq analysis of marine microbial communities from the northern Red Sea.Scientific reports · 2016Article
- Type II Toxin-Antitoxin Systems in the Unicellular Cyanobacterium Synechocystis sp. PCC 6803.Toxins · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In all studied organisms, a substantial portion of the transcriptome consists of non-coding RNAs that frequently execute regulatory functions. Here, we have compared the primary transcriptomes of the cyanobacteria Synechocystis sp. PCC 6714 and PCC 6803 under 10 different conditions. These strains share 2854 protein-coding genes and a 16S rRNA identity of 99.4%, indicating their close relatedness. Conserved major transcriptional start sites (TSSs) give rise to non-coding transcripts within the sigB gene, from the 5'UTRs of cmpA and isiA, and 168 loci in antisense orientation. Distinct differences include single nucleotide polymorphisms rendering promoters inactive in one of the strains, e.g., for cmpR and for the asRNA PsbA2R. Based on the genome-wide mapped location, regulation and classification of TSSs, non-coding transcripts were identified as the most dynamic component of the transcriptome. We identified a class of mRNAs that originate by read-through from an sRNA that accumulates as a discrete and abundant transcript while also serving as the 5'UTR. Such an sRNA/mRNA structure, which we name 'actuaton', represents another way for bacteria to remodel their transcriptional network. Our findings support the hypothesis that variations in the non-coding transcriptome constitute a major evolutionary element of inter-strain divergence and capability for physiological adaptation.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.