The blossoming of RNA biology: Novel insights from plant systems

Bove, Jérôme; Hord, Carey L.H.; Mullen, Melissa A.

doi:10.1261/rna.303806

Cited by 3 publications

(2 citation statements)

References 121 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The result of DCL action is the production of 20–24-base-pair (bp) RNA duplexes with 2 nt long 3′ overhangs (Vazquez, 2006). After stabilization by 3′OH methylation (Bove et al, 2006), one strand of the smRNA duplex is loaded onto a silencing effector complex (called RISC/RITS), that contains one ARGONAUTE (AGO) protein, to mediate gene silencing by base pairing with their targets (Vazquez, 2006; Vaucheret, 2008; Mallory and Vaucheret, 2010). In Arabidopsis thaliana , 4 DCL and 10 AGO genes have been described and play different roles in smRNA biogenesis and action.…”

Section: Introductionmentioning

confidence: 99%

Small RNA pathways and diversity in model legumes: lessons from genomics

et al. 2013

View full text Add to dashboard Cite

Small non-coding RNAs (smRNA) participate in the regulation of development, cell differentiation, adaptation to environmental constraints and defense responses in plants. They negatively regulate gene expression by degrading specific mRNA targets, repressing their translation or modifying chromatin conformation through homologous interaction with target loci. MicroRNAs (miRNA) and short-interfering RNAs (siRNA) are generated from long double stranded RNA (dsRNA) that are cleaved into 20–24-nucleotide dsRNAs by RNase III proteins called DICERs (DCL). One strand of the duplex is then loaded onto effective complexes containing different ARGONAUTE (AGO) proteins. In this review, we explored smRNA diversity in model legumes and compiled available data from miRBAse, the miRNA database, and from 22 reports of smRNA deep sequencing or miRNA identification genome-wide in three legumes: Medicago truncatula, soybean (Glycine max) and Lotus japonicus. In addition to conserved miRNAs present in other plant species, 229, 179, and 35 novel miRNA families were identified respectively in these 3 legumes, among which several seems legume-specific. New potential functions of several miRNAs in the legume-specific nodulation process are discussed. Furthermore, a new category of siRNA, the phased siRNAs, which seems to mainly regulate disease-resistance genes, was recently discovered in legumes. Despite that the genome sequence of model legumes are not yet fully completed, further analysis was performed by database mining of gene families and protein characteristics of DCLs and AGOs in these genomes. Although most components of the smRNA pathways are conserved, identifiable homologs of key smRNA players from non-legumes, like AGO10 or DCL4, could not yet be detected in M. truncatula available genomic and expressed sequence (EST) databases. In contrast to Arabidopsis, an important gene diversification was observed in the three legume models (for DCL2, AGO4, AGO2, and AGO10) or specifically in soybean for DCL1 and DCL4. Functional significance of these variant isoforms may reflect peculiarities of smRNA biogenesis and functions in legumes.

show abstract

Section: Introductionmentioning

confidence: 99%

Small RNA pathways and diversity in model legumes: lessons from genomics

et al. 2013

View full text Add to dashboard Cite

show abstract

“…However, these genes have become more and more distinctive in female gametophyte development. Quite a few mutations in these genes have been reported in the last 10 years (Chekanova et al 2002; Christensen et al 1998; Shi et al 2005; Bove et al 2006; Li et al 2009; Liu et al 2009). This implies that RNA processing is crucial to plant development.…”

Section: Discussionmentioning

confidence: 99%

SLOW WALKER3, Encoding a Putative DEAD‐box RNA Helicase, is Essential for Female Gametogenesis in Arabidopsis

Liu

Shi

et al. 2010

JIPB

View full text Add to dashboard Cite

RNA helicases are adenosine tri-phosphatases that unwind the secondary structures of RNAs and are required in almost any aspect of RNA metabolism. They are highly conserved from prokaryotic to eukaryotic organisms. However, their precise roles in plant physiology and development remain to be clarified. Here we report that the mutation in the gene SLOW WALKER3 (SWA3) results in the slow and retarded progression of mitosis during megagametogenesis in Arabidopsis. SWA3 is a putative RNA helicase of the DEAD-box subfamily. Mutant megagametophyte development is arrested at fouror eight-nucleate stages, furthermore, one of the synergids in about half of the mutant embryo sacs displays abnormal polarity, with its nucleus locating at the chalazal end, instead of the micropylar end in the wild-type. Transmission of the mutation through female gametophytes is severely reduced in swa3. However, a small portion of mutant embryo sacs are able to develop into mature and functional female gametophytes when pollination was postponed. The SWA3 in Arabidopsis is a homolog of Dbp8 in yeast. Dbp8 interacts with Efs2 and is essential for biogenesis of 18S rRNA in yeast. Our data suggest that SWA3 may form a complex with AtEfs2 and take roles in ribosomal biogenesis as RNA helicase during megagametogenesis in Arabidopsis.

show abstract