ArticleGenetics2015
Identification of AGO3-associated miRNAs and computational prediction of their targets in the green alga Chlamydomonas reinhardtii.
Article in Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 33 citations in OpenAlex.
- Global identification of AGO3-RNA interactions reveals targets of small RNA-mediated gene regulation in Chlamydomonas reinhardtii.Plant & cell physiology · 2025Article
- Review
- Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity.Nucleic acids research · 2024Article
- Small RNAs >26 nt in length associate with AGO1 and are upregulated by nutrient deprivation in the alga Chlamydomonas.The Plant cell · 2023Article
- The small RNA family gets bigger: AGO1-bound noncanonical sRNAs are upregulated under nutrient deprivation in Chlamydomonas.The Plant cell · 2023Article
- Small RNA-mediated silencing of phototropin suppresses the induction of photoprotection in the green algaProceedings of the National Academy of Sciences of the United States of America · 2023Article
- A putative AGO protein, OsAGO17, positively regulates grain size and grain weight through OsmiR397b in rice.Plant biotechnology journal · 2020Article
- An ortholog of the Vasa intronic gene is required for small RNA-mediated translation repression inProceedings of the National Academy of Sciences of the United States of America · 2020Article
- The small RNA locus map for Chlamydomonas reinhardtii.PloS one · 2020Article
- Distinct roles of Argonaute in the green alga Chlamydomonas reveal evolutionary conserved mode of miRNA-mediated gene expression.Scientific reports · 2019Article
- Identification and Characterization of MiRNAs inInternational journal of molecular sciences · 2019Article
- Mechanisms of microRNA-mediated gene regulation in unicellular model algaBiotechnology for biofuels · 2018Review
- miRNAs in the alga Chlamydomonas reinhardtii are not phylogenetically conserved and play a limited role in responses to nutrient deprivation.Scientific reports · 2017Article
- Cooperative processing of primary miRNAs by DUS16 and DCL3 in the unicellular green algaCommunicative & integrative biology · 2017Article
- MicroRNAs modulate adaption to multiple abiotic stresses in Chlamydomonas reinhardtii.Scientific reports · 2016Article
- Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants.BMC genomics · 2016Article
- RNA-binding protein DUS16 plays an essential role in primary miRNA processing in the unicellular alga Chlamydomonas reinhardtii.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Most microRNAs in the single-cell alga Chlamydomonas reinhardtii are produced by Dicer-like 3-mediated cleavage of introns and untranslated regions of coding RNAs.Genome research · 2016Article
- Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii.Biotechnology for biofuels · 2015Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The unicellular green alga Chlamydomonas reinhardtii harbors many types of small RNAs (sRNAs) but little is known about their role(s) in the regulation of endogenous genes and cellular processes. To define functional microRNAs (miRNAs) in Chlamydomonas, we characterized sRNAs associated with an argonaute protein, AGO3, by affinity purification and deep sequencing. Using a stringent set of criteria for canonical miRNA annotation, we identified 39 precursor miRNAs, which produce 45 unique, AGO3-associated miRNA sequences including 13 previously reported miRNAs and 32 novel ones. Potential miRNA targets were identified based on the complementarity of miRNAs with candidate binding sites on transcripts and classified, depending on the extent of complementarity, as being likely to be regulated through cleavage or translational repression. The search for cleavage targets identified 74 transcripts. However, only 6 of them showed an increase in messenger RNA (mRNA) levels in a mutant strain almost devoid of sRNAs. The search for translational repression targets, which used complementarity criteria more stringent than those empirically required for a reduction in target protein levels, identified 488 transcripts. However, unlike observations in metazoans, most predicted translation repression targets did not show appreciable changes in transcript abundance in the absence of sRNAs. Additionally, of three candidate targets examined at the protein level, only one showed a moderate variation in polypeptide amount in the mutant strain. Our results emphasize the difficulty in identifying genuine miRNA targets in Chlamydomonas and suggest that miRNAs, under standard laboratory conditions, might have mainly a modulatory role in endogenous gene regulation in this alga.
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