ArticleProceedings of the National Academy of Sciences of the United States of America2011
An experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 205 papers.
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205 citing papers in PubMed, 368 citations in OpenAlex.
- A set of constitutive promoters with graded strengths for gene expression in diverse cyanobacterial strains.Applied and environmental microbiology · 2026Article
- Systematic and Functional Identification of Small Non-Coding RNAs Associated with Excess Ammonium Stress in CyanobacteriumInternational journal of molecular sciences · 2026Article
- From pond to platform: howJournal of bacteriology · 2026Review
- Important role in transcription start site selection for the RNA polymerase II-TFIIE-TFIIH interface in Saccharomyces cerevisiae.Genetics · 2026Article
- A set of constitutive promoters with graded strengths for gene expression in diverse cyanobacterial strains.bioRxiv : the preprint server for biology · 2026Article
- RNA polymerase II-TFIIE-TFIIH interface functions in transcription start site selection inbioRxiv : the preprint server for biology · 2025Article
- Deciphering guanidine assimilation and riboswitch-based gene regulation in cyanobacteria for synthetic biology applications.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Diurnal rhythm causes metabolic crises in the cyanobacterial mutants of c-di-AMP signaling cascade.iScience · 2025Article
- Establishing a Malonyl-CoA Biosensor for the Two Model CyanobacteriaACS synthetic biology · 2025Article
- dCas12a-mediated CRISPR interference for multiplex gene repression in cyanobacteria for enhanced isobutanol and 3-methyl-1-butanol production.Microbial cell factories · 2025Article
- Photosynthesis in Synechocystis sp. PCC 6803 is not optimally regulated under very high COApplied microbiology and biotechnology · 2025Article
- Protein NirP1 regulates nitrite reductase and nitrite excretion in cyanobacteria.Nature communications · 2024Article
- Using Publicly Available RNA-seq Data for Expression Analysis of Genes of Interest.Methods in molecular biology (Clifton, N.J.) · 2024Article
- The role of the 5' sensing function of ribonuclease E in cyanobacteria.RNA biology · 2024Article
- CRISPR interference screens reveal growth-robustness tradeoffs in Synechocystis sp. PCC 6803 across growth conditions.The Plant cell · 2023Article
- Improved RNA stability estimation indicates that transcriptional interference is frequent in diverse bacteria.Communications biology · 2023Article
- Incorporation, fate, and turnover of free fatty acids in cyanobacteria.FEMS microbiology reviews · 2023Review
- Deacylation of galactolipids decomposes photosystem II dimers to enhance degradation of damaged D1 protein.Plant physiology · 2023Article
- Regulation of pSYSA defense plasmid copy number inFrontiers in microbiology · 2023Article
- The Molecular Toolset and Techniques Required to Build Cyanobacterial Cell Factories.Advances in biochemical engineering/biotechnology · 2023Article
145 more citing papers are in PubMed but not listed here.
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Authors and funding
11 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
There has been an increasing interest in cyanobacteria because these photosynthetic organisms convert solar energy into biomass and because of their potential for the production of biofuels. However, the exploitation of cyanobacteria for bioengineering requires knowledge of their transcriptional organization. Using differential RNA sequencing, we have established a genome-wide map of 3,527 transcriptional start sites (TSS) of the model organism Synechocystis sp. PCC6803. One-third of all TSS were located upstream of an annotated gene; another third were on the reverse complementary strand of 866 genes, suggesting massive antisense transcription. Orphan TSS located in intergenic regions led us to predict 314 noncoding RNAs (ncRNAs). Complementary microarray-based RNA profiling verified a high number of noncoding transcripts and identified strong ncRNA regulations. Thus, ∼64% of all TSS give rise to antisense or ncRNAs in a genome that is to 87% protein coding. Our data enhance the information on promoters by a factor of 40, suggest the existence of additional small peptide-encoding mRNAs, and provide corrected 5' annotations for many genes of this cyanobacterium. The global TSS map will facilitate the use of Synechocystis sp. PCC6803 as a model organism for further research on photosynthesis and energy research.
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