Small RNA profiling in Chlamydomonas: insights into chloroplast RNA metabolism
| Autor: | Cavaiuolo, Marina, Kuras, Richard, Wollman, Francis‐André, Choquet, Yves, Vallon, Olivier |
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| Přispěvatelé: | Physiologie membranaire et moléculaire du chloroplaste (PMMC), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS) |
| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
[PHYS]Physics [physics]
RNA Chloroplast Transcription Genetic Sequence Analysis RNA Gene Expression Profiling [SDV]Life Sciences [q-bio] Chloroplast Proteins Phototrophic Processes RNA Transfer RNA Ribosomal Protein Biosynthesis RNA and RNA-protein complexes RNA Small Untranslated [CHIM]Chemical Sciences RNA Antisense RNA Messenger Transcriptome Ribosomes Chlamydomonas reinhardtii Nucleic Acid Synthesis Inhibitors Plant Proteins |
| Zdroj: | Nucleic Acids Research Nucleic Acids Research, Oxford University Press, 2017, 45 (18), pp.10783-10799. ⟨10.1093/nar/gkx668⟩ Nucleic Acids Research, 2017, 45 (18), pp.10783-10799. ⟨10.1093/nar/gkx668⟩ |
| ISSN: | 0305-1048 1362-4962 |
| DOI: | 10.1093/nar/gkx668⟩ |
| Popis: | International audience; In Chlamydomonas reinhardtii, regulation of chloro-plast gene expression is mainly post-transcriptional. It requires nucleus-encoded transacting protein factors for maturation/stabilization (M factors) or translation (T factors) of specific target mRNAs. We used long-and small-RNA sequencing to generate a detailed map of the transcriptome. Clusters of sRNAs marked the 5 end of all mature mRNAs. Their absence in M-factor mutants reflects the protection of transcript 5 end by the cognate factor. Enzymatic removal of 5-triphosphates allowed identifying those cosRNA that mark a transcription start site. We detected another class of sRNAs derived from low abundance transcripts, antisense to mRNAs. The formation of antisense sRNAs required the presence of the complementary mRNA and was stimulated when translation was inhibited by chloramphenicol or lin-comycin. We propose that they derive from degradation of double-stranded RNAs generated by pairing of antisense and sense transcripts, a process normally hindered by the traveling of the ribosomes. In addition, chloramphenicol treatment, by freezing ri-bosomes on the mRNA, caused the accumulation of 32–34 nt ribosome-protected fragments. Using this 'in vivo ribosome footprinting', we identified the function and molecular target of two candidate transacting factors. |
| Databáze: | OpenAIRE |
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