DRB2 Is Required for MicroRNA Biogenesis in Arabidopsis thaliana

Eamens, Andrew L.; Kim, Ki Wook; Curtin, Shaun J.; Waterhouse, Peter M.

doi:10.1371/journal.pone.0035933

Cited by 74 publications

(97 citation statements)

References 49 publications

(106 reference statements)

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“…Double-stranded RNA binding domain containing proteins play an integral role in all the small RNA pathways of the plants [15][16][17]. Arabidopsis genome encodes five members of DRBs.…”

Section: Discussionmentioning

confidence: 99%

“…Unlike in Arabidopsis where DRB1 interacts with Dicer-like 1 (DCL1) thus participating in miRNA biogenesis, the presence of four members of DRB1 in rice is a clear indication of the aimed specialization and complexity of the miRNA biogenesis pathway in rice. The specialization achieved may be in terms of spatio-temporal accumulation as in the case of the Arabidopsis Shoot Apical Meristem (SAM) region where DRB2 interacts with DCL1 to regulate miRNA biogenesis [16] or in terms of stress responses and developmental conditions. For instance, the miRNAs can be roughly classified into different groups based on their functional roles.…”

Section: Discussionmentioning

confidence: 99%

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MicroRNA biogenesis factor DRB1 is a phosphorylation target of mitogen activated protein kinase MPK3 in both rice and Arabidopsis

et al. 2014

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MicroRNA (miRNA) biogenesis requires AtDRB1 (double-stranded RNA binding protein)/HYL1 (Hyponastic Leaves1) protein for processing and maturation of miRNA precursors. The AtDRB1/HYL1 protein associates with AtDCL1 (Dicer-Like1) and accurately processes primary-miRNAs (pri-mRNAs) first to precursor-miRNAs (pre-miRNAs) and finally to mature miRNAs. The dephosphorylation of AtDRB1/HYL1 protein is very important for the precise processing of miRNA precursors. The monocot model crop plant Oryza sativa encodes four orthologues of AtDRB1/HYL1 protein, the only one encoded by Arabidopsis thaliana. The present study focuses on the functionality of the O. sativa DRBs as the orthologues of AtDRB1/HYL1 by using RNA binding assays and in planta protein-protein interaction analysis. Further, mitogen-activated protein kinase MPK3 is established as the kinase phosphorylating DRB1 protein in both the model plants, O. sativa and Arabidopsis. MicroRNA microarray analysis in atmpk3 and atmpk6 mutants indicate the importance of AtMPK3 in maintaining the level of miRNAs in the plant.

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“…Double-stranded RNA binding domain containing proteins play an integral role in all the small RNA pathways of the plants [15][16][17]. Arabidopsis genome encodes five members of DRBs.…”

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

MicroRNA biogenesis factor DRB1 is a phosphorylation target of mitogen activated protein kinase MPK3 in both rice and Arabidopsis

et al. 2014

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“…A. thaliana encodes four additional dsRNA-binding proteins, DRB2-5, which are closely related to HYL1. These DRBs also function in canonical and noncanonical miRNA biogenesis pathways (30,31).…”

Section: Significancementioning

confidence: 99%

RNA-binding protein DUS16 plays an essential role in primary miRNA processing in the unicellular alga Chlamydomonas reinhardtii

Yamasaki

Onishi

Kim

et al. 2016

Proc. Natl. Acad. Sci. U.S.A.

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Canonical microRNAs (miRNAs) are embedded in duplexed stemloops in long precursor transcripts and are excised by sequential cleavage by DICER nuclease(s). In this miRNA biogenesis pathway, dsRNA-binding proteins play important roles in animals and plants by assisting DICER. However, these RNA-binding proteins are poorly characterized in unicellular organisms. Here we report that a unique RNA-binding protein, Dull slicer-16 (DUS16), plays an essential role in processing of primary-miRNA (pri-miRNA) transcripts in the unicellular green alga Chlamydomonas reinhardtii. In animals and plants, dsRNA-binding proteins involved in miRNA biogenesis harbor two or three dsRNA-binding domains (dsRBDs), whereas DUS16 contains one dsRBD and also an ssRNA-binding domain (RRM). The null mutant of DUS16 showed a drastic reduction in most miRNA species. Production of these miRNAs was complemented by expression of full-length DUS16, but the expression of RRM-or dsRBDtruncated DUS16 did not restore miRNA production. Furthermore, DUS16 is predominantly localized to the nucleus and associated with nascent (unspliced form) pri-miRNAs and the DICER-LIKE 3 protein. These results suggest that DUS16 recognizes pri-miRNA transcripts cotranscriptionally and promotes their processing into mature miRNAs as a component of a microprocessor complex. We propose that DUS16 is an essential factor for miRNA production in Chlamydomonas and, because DUS16 is functionally similar to the dsRNA-binding proteins involved in miRNA biogenesis in animals and land plants, our report provides insight into this mechanism in unicellular eukaryotes.Chlamydomonas | microRNA biogenesis | dsRNA-binding protein | small RNA-seq | mutagenesis

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“…DCL1 interacts with HYL1, Serrate, Dawdle, HEN1 and DRB proteins, DCL2 with HYL1 and DRB5, DCL3 with HYL1, DRB proteins, Dawdle and RDR2, DCL4 with DRB4, HYL1 and Dawdle. Hyponastic leaves 1 (HYL1/DRB1) combines with DCL to produce pre-small RNA (precursor small RNA) from pri-small RNA (primary small RNA) molecules [5,6,7,8,9,11,12,14]. Serrate associates with DCL1/HYL1 complex for splicing of primary miRNAs [9,10].…”

Section: Introductionmentioning

confidence: 99%

“…Serrate associates with DCL1/HYL1 complex for splicing of primary miRNAs [9,10]. These small RNAs are protected by 2'O methylation by Hua enhancer 1 (HEN1) [7,12,16]. Dawdle (DDL) associates with DCL and helps in accumulation of sRNA molecules [9].…”

Section: Introductionmentioning

confidence: 99%

DCL and Associated Proteins of <i>Arabidopsis thaliana </i>- An Interaction Study

Roy

Datta²

2017

ILNS

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Abstract. During RNA interference in plants, Dicer-like/DCL proteins process longer doublestranded RNA (dsRNA) precursors into small RNA molecules. In Arabidopsis thaliana there are four DCLs (DCL1, DCL2, DCL3, and DCL4) that interact with various associated proteins to carry out this processing. The lack of complete structural-functional information and characterization of DCLs and their associated proteins leads to this study where we have generated the structures by modelling, analysed the structures and studied the interactions of Arabidopsis thaliana DCLs with their associated proteins with the homology-derived models to screen the interacting residues. Structural analyses indicate existence of significant conserved domains that may play imperative roles during protein-protein interactions. The interaction study shows some key domain-domain (including multi-domains and inter-residue interactions) interfaces and specific residue biases (like arginine and leucine) that may help in augmenting the protein expression level during stress responses. Results point towards plausible stable associations to carry out RNA processing in a synchronised pattern by elucidating the structural properties and protein-protein interactions of DCLs that may hold significance for RNAi researchers.

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DRB2 Is Required for MicroRNA Biogenesis in Arabidopsis thaliana

Cited by 74 publications

References 49 publications

MicroRNA biogenesis factor DRB1 is a phosphorylation target of mitogen activated protein kinase MPK3 in both rice and Arabidopsis

MicroRNA biogenesis factor DRB1 is a phosphorylation target of mitogen activated protein kinase MPK3 in both rice and Arabidopsis

RNA-binding protein DUS16 plays an essential role in primary miRNA processing in the unicellular alga Chlamydomonas reinhardtii

DCL and Associated Proteins of <i>Arabidopsis thaliana </i>- An Interaction Study

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