The small RNA locus map for Chlamydomonas reinhardtii

Sebastian Y Muller, Nick Matthews, Adrian A Valli, David C Balcombe

Research output: Contribution to journalArticlepeer-review

Abstract

Small (s)RNAs play crucial roles in the regulation of gene expression and genome stability across eukaryotes where they direct epigenetic modifications, post-transcriptional gene silencing, and defense against both endogenous and exogenous viruses. It is known that Chlamydomonas reinhardtii, a well-studied unicellular green algae species, possesses sRNA-based mechanisms that are distinct from those of land plants. However, definition of sRNA loci and further systematic classification is not yet available for this or any other algae. Here, using data-driven machine learning
approaches including Multiple Correspondence Analysis (MCA) and clustering, we have generated a comprehensively annotated and classified sRNA locus map for C. reinhardtii. This map shows some common characteristics with higher plants and animals, but it also reveals distinct features. These results are consistent with the idea that there was diversification in sRNA mechanisms after the evolutionary divergence of algae from higher plant lineages.
Original languageEnglish
Article numbere0242516
JournalPLoS ONE
Volume15
Issue number11
DOIs
Publication statusPublished - 19 Nov 2020

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