ArticleGenome biology2010
Premature terminator analysis sheds light on a hidden world of bacterial transcriptional attenuation.
Article in Genome biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 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
18 citing papers in PubMed, 35 citations in OpenAlex.
- The discovery of novel noncoding RNAs in 50 bacterial genomes.Nucleic acids research · 2024Article
- From a large-scale genomic analysis of insertion sequences to insights into their regulatory roles in prokaryotes.BMC genomics · 2022Article
- Emerging insights into the function and structure of the Integrator complex.Transcription · 2021Review
- Extensive Reannotation of the Genome of the Model StreptomyceteFrontiers in microbiology · 2021Article
- Autoregulation ofInternational journal of molecular sciences · 2019Article
- Molecular mechanism of mRNA repression inThe EMBO journal · 2017Article
- Computational prediction of regulatory, premature transcription termination in bacteria.Nucleic acids research · 2017Article
- Genome-Wide Detection of Small Regulatory RNAs in Deep-Sea BacteriumFrontiers in microbiology · 2017Article
- Disruption of the carA gene in Pseudomonas syringae results in reduced fitness and alters motility.BMC microbiology · 2016Article
- Term-seq reveals abundant ribo-regulation of antibiotics resistance in bacteria.Science (New York, N.Y.) · 2016Article
- NusA-dependent transcription termination prevents misregulation of global gene expression.Nature microbiology · 2016Article
- Article
- Finding consensus stable local optimal structures for aligned RNA sequences and its application to discovering riboswitch elements.International journal of bioinformatics research and applications · 2014Article
- RNA structures regulating ribosomal protein biosynthesis in bacilli.RNA biology · 2013Article
- A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium.Nucleic acids research · 2013Article
- Article
- Alterations in the β flap and β' dock domains of the RNA polymerase abolish NusA-mediated feedback regulation of the metY-nusA-infB operon.Journal of bacteriology · 2011Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundBacterial transcription attenuation occurs through a variety of cis-regulatory elements that control gene expression in response to a wide range of signals. The signal-sensing structures in attenuators are so diverse and rapidly evolving that only a small fraction have been properly annotated and characterized to date. Here we apply a broad-spectrum detection tool in order to achieve a more complete view of the transcriptional attenuation complement of key bacterial species.
resultsOur protocol seeks gene families with an unusual frequency of 5' terminators found across multiple species. Many of the detected attenuators are part of annotated elements, such as riboswitches or T-boxes, which often operate through transcriptional attenuation. However, a significant fraction of candidates were not previously characterized in spite of their unmistakable footprint. We further characterized some of these new elements using sequence and secondary structure analysis. We also present elements that may control the expression of several non-homologous genes, suggesting co-transcription and response to common signals. An important class of such elements, which we called mobile attenuators, is provided by 3' terminators of insertion sequences or prophages that may be exapted as 5' regulators when inserted directly upstream of a cellular gene.
conclusionsWe show here that attenuators involve a complex landscape of signal-detection structures spanning the entire bacterial domain. We discuss possible scenarios through which these diverse 5' regulatory structures may arise or evolve.
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.