ArticleScientific reports2014
The primary transcriptome of the marine diazotroph Trichodesmium erythraeum IMS101.
Article in Scientific reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Article
- Targeted hypermutation of putative antigen sensors in multicellular bacteria.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Review
- CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria.Nucleic acids research · 2022Article
- Distinct Expansion of Group II Introns During Evolution of Prokaryotes and Possible Factors Involved in Its Regulation.Frontiers in microbiology · 2022Article
- Long-Term m5C Methylome Dynamics Parallel Phenotypic Adaptation in the Cyanobacterium Trichodesmium.Molecular biology and evolution · 2021Article
- Role of diversity-generating retroelements for regulatory pathway tuning in cyanobacteria.BMC genomics · 2020Article
- Aquatic and terrestrial cyanobacteria produce methane.Science advances · 2020Article
- Multiscale Multiobjective Systems Analysis (MiMoSA): an advanced metabolic modeling framework for complex systems.Scientific reports · 2019Article
- 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
- High-throughput detection of RNA processing in bacteria.BMC genomics · 2018Article
- The primary transcriptome of the fast-growing cyanobacteriumBiotechnology for biofuels · 2018Article
- Plasticity first: molecular signatures of a complex morphological trait in filamentous cyanobacteria.BMC evolutionary biology · 2017Article
- Retroelement-guided protein diversification abounds in vast lineages of Bacteria and Archaea.Nature microbiology · 2017Article
- The use of genome-scale metabolic network reconstruction to predict fluxes and equilibrium composition of N-fixing versus C-fixing cells in a diazotrophic cyanobacterium, Trichodesmium erythraeum.BMC systems biology · 2017Article
- Small Antisense RNA RblR Positively Regulates RuBisCo inFrontiers in microbiology · 2017Article
- Desert Dust as a Source of Iron to the Globally Important DiazotrophFrontiers in microbiology · 2017Article
- Small proteins in cyanobacteria provide a paradigm for the functional analysis of the bacterial micro-proteome.BMC microbiology · 2016Article
- Trimethylated homoserine functions as the major compatible solute in the globally significant oceanic cyanobacterium Trichodesmium.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
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5 authors.
Funding
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Abstract
Blooms of the dinitrogen-fixing marine cyanobacterium Trichodesmium considerably contribute to new nitrogen inputs into tropical oceans. Intriguingly, only 60% of the Trichodesmium erythraeum IMS101 genome sequence codes for protein, compared with ~85% in other sequenced cyanobacterial genomes. The extensive non-coding genome fraction suggests space for an unusually high number of unidentified, potentially regulatory non-protein-coding RNAs (ncRNAs). To identify the transcribed fraction of the genome, here we present a genome-wide map of transcriptional start sites (TSS) at single nucleotide resolution, revealing the activity of 6,080 promoters. We demonstrate that T. erythraeum has the highest number of actively splicing group II introns and the highest percentage of TSS yielding ncRNAs of any bacterium examined to date. We identified a highly transcribed retroelement that serves as template repeat for the targeted mutation of at least 12 different genes by mutagenic homing. Our findings explain the non-coding portion of the T. erythraeum genome by the transcription of an unusually high number of non-coding transcripts in addition to the known high incidence of transposable elements. We conclude that riboregulation and RNA maturation-dependent processes constitute a major part of the Trichodesmium regulatory apparatus.
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