ArticleThe Plant cell2021
Analysis of a photosynthetic cyanobacterium rich in internal membrane systems via gradient profiling by sequencing (Grad-seq).
Article in The Plant cell, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 1 citations in OpenAlex.
- Systematic and Functional Identification of Small Non-Coding RNAs Associated with Excess Ammonium Stress in CyanobacteriumInternational journal of molecular sciences · 2026Article
- Antisense RNA controls the degradation of phycobilisomes in heterocyst-forming cyanobacteria by a transcriptional interference mechanism.Nucleic acids research · 2026Article
- From pond to platform: howJournal of bacteriology · 2026Review
- Molecular genetic characterization of bacterial KH-domain proteins.bioRxiv : the preprint server for biology · 2026Article
- RAPDOR: Using Jensen-Shannon Distance for the computational analysis of complex proteomics datasets.Nature communications · 2025Article
- The RRM domain-containing protein Rbp3 interacts with ribosomes and the 3' ends of mRNAs encoding photosynthesis proteins.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- What makes a small RNA work?Nucleic acids research · 2025Review
- CyanoTag: Discovery of protein function facilitated by high-throughput endogenous tagging in a photosynthetic prokaryote.Science advances · 2025Article
- R-DeeP/TripepSVM identifies the RNA-binding OB-fold-like protein PatR as regulator of heterocyst patterning.Nucleic acids research · 2025Article
- Temperature changes are signaled in cyanobacteria through the PipX interaction network.Frontiers in microbiology · 2025Article
- Nutraceutical prospects of genetically engineered cyanobacteria- technological updates and significance.World journal of microbiology & biotechnology · 2024Review
- Analysing the Cyanobacterial PipX Interaction Network Using NanoBiT Complementation inInternational journal of molecular sciences · 2024Article
- A conserved protein inhibitor brings under check the activity of RNase E in cyanobacteria.Nucleic acids research · 2024Article
- The role of the 5' sensing function of ribonuclease E in cyanobacteria.RNA biology · 2024Article
- Interactors and effects of overexpressing YlxR/RnpM, a conserved RNA binding protein in cyanobacteria.RNA biology · 2024Article
- Locations of membrane protein production in a cyanobacterium.Journal of bacteriology · 2023Article
- The Signal Transduction Protein PII Controls the Levels of the Cyanobacterial Protein PipX.Microorganisms · 2023Article
- Deep Proteogenomics of a Photosynthetic Cyanobacterium.Journal of proteome research · 2023Article
- Grad-seq analysis ofmicroLife · 2023Article
- An overview of gene regulation in bacteria by small RNAs derived from mRNA 3' ends.FEMS microbiology reviews · 2022Review
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although regulatory small RNAs have been reported in photosynthetic cyanobacteria, the lack of clear RNA chaperones involved in their regulation poses a conundrum. Here, we analyzed the full complement of cellular RNAs and proteins using gradient profiling by sequencing (Grad-seq) in Synechocystis 6803. Complexes with overlapping subunits such as the CpcG1-type versus the CpcL-type phycobilisomes or the PsaK1 versus PsaK2 photosystem I pre(complexes) could be distinguished, supporting the high quality of this approach. Clustering of the in-gradient distribution profiles followed by several additional criteria yielded a short list of potential RNA chaperones that include an YlxR homolog and a cyanobacterial homolog of the KhpA/B complex. The data suggest previously undetected complexes between accessory proteins and CRISPR-Cas systems, such as a Csx1-Csm6 ribonucleolytic defense complex. Moreover, the exclusive association of either RpoZ or 6S RNA with the core RNA polymerase complex and the existence of a reservoir of inactive sigma-antisigma complexes is suggested. The Synechocystis Grad-seq resource is available online at https://sunshine.biologie.uni-freiburg.de/GradSeqExplorer/ providing a comprehensive resource for the functional assignment of RNA-protein complexes and multisubunit protein complexes in a photosynthetic organism.
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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 Socratic graph.