ArticleGenome biology2010
Short RNA half-lives in the slow-growing marine cyanobacterium Prochlorococcus.
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 50 papers.
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Who cites it
50 citing papers in PubMed.
- Article
- Exploring the regulatory potential of RNA structures in 202 cyanobacterial genomes.Nucleic acids research · 2026Article
- Resolving spatiotemporal dynamics in bacterial multicellular populations: approaches and challenges.Microbiology and molecular biology reviews : MMBR · 2025Review
- Critical factors for precise and efficient RNA cleavage by RNase Y in Staphylococcus aureus.PLoS genetics · 2024Article
- Substrate uptake patterns shape niche separation in marine prokaryotic microbiome.Science advances · 2024Article
- A conserved protein inhibitor brings under check the activity of RNase E in cyanobacteria.Nucleic acids research · 2024Article
- Improved RNA stability estimation indicates that transcriptional interference is frequent in diverse bacteria.Communications biology · 2023Article
- Article
- Review
- One Cell at a Time: Advances in Single-Cell Methods and Instrumentation for Discovery in Aquatic Microbiology.Frontiers in microbiology · 2022Article
- Genome-Wide Analysis of RNA Decay in the CyanobacteriummSystems · 2020Article
- Regulation of mRNA Stability During Bacterial Stress Responses.Frontiers in microbiology · 2020Review
- Highly variable mRNA half-life time within marine bacterial taxa and functional genes.Environmental microbiology · 2019Article
- Widespread Antisense Transcription in Prokaryotes.Microbiology spectrum · 2018Review
- Article
- Nitrogen cost minimization is promoted by structural changes in the transcriptome of N-deprived Prochlorococcus cells.The ISME journal · 2017Article
- Expression patterns of elemental cycling genes in the Amazon River Plume.The ISME journal · 2017Article
- Transcriptional Control in Marine Copiotrophic and Oligotrophic Bacteria with Streamlined Genomes.Applied and environmental microbiology · 2016Article
- Bacterial Dormancy Is More Prevalent in Freshwater than Hypersaline Lakes.Frontiers in microbiology · 2016Article
- A Sample-to-Sequence Protocol for Genus Targeted Transcriptomic Profiling: Application to MarineFrontiers in microbiology · 2016Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRNA turnover plays an important role in the gene regulation of microorganisms and influences their speed of acclimation to environmental changes. We investigated whole-genome RNA stability of Prochlorococcus, a relatively slow-growing marine cyanobacterium doubling approximately once a day, which is extremely abundant in the oceans.
resultsUsing a combination of microarrays, quantitative RT-PCR and a new fitting method for determining RNA decay rates, we found a median half-life of 2.4 minutes and a median decay rate of 2.6 minutes for expressed genes - twofold faster than that reported for any organism. The shortest transcript half-life (33 seconds) was for a gene of unknown function, while some of the longest (approximately 18 minutes) were for genes with high transcript levels. Genes organized in operons displayed intriguing mRNA decay patterns, such as increased stability, and delayed onset of decay with greater distance from the transcriptional start site. The same phenomenon was observed on a single probe resolution for genes greater than 2 kb.
conclusionsWe hypothesize that the fast turnover relative to the slow generation time in Prochlorococcus may enable a swift response to environmental changes through rapid recycling of nucleotides, which could be advantageous in nutrient poor oceans. Our growing understanding of RNA half-lives will help us interpret the growing bank of metatranscriptomic studies of wild populations of Prochlorococcus. The surprisingly complex decay patterns of large transcripts reported here, and the method developed to describe them, will open new avenues for the investigation and understanding of RNA decay for all organisms.
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