mRNA Localization in Plant Cells

Tian, Li; Chou, Hong Li; Fukuda, M; Kumamaru, Toshihiro; Okita, Thomas W.

doi:10.1104/pp.19.00972

Cited by 44 publications

(44 citation statements)

References 144 publications

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“…VDAC3 mRNA targeting does not change the efficiency of VDAC3 protein import [7]. A hypothesis for VDAC3 mRNA localization at MOM is that it could favor a specific localization of the protein into particular MOM microdomains or specific interactions with other proteins, similar to that proposed for prolamin and glutelin mRNAs at the endoplasmic reticulum [34]. VDAC3, more than any other VDAC, has been shown to interact with different proteins such as glycolytic enzymes [35,36], proteins involved in ROS response [26,37] or proteins associated with cytoskeleton [38].…”

Section: Discussionmentioning

confidence: 75%

Arabidopsis Voltage-Dependent Anion Channels (VDACs): Overlapping and Specific Functions in Mitochondria

Hémono

Ubrig

Azeredo

et al. 2020

Cells

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Voltage-dependent anion channels (VDACs) are essential components of the mitochondrial outer membrane. VDACs are involved in the exchange of numerous ions and molecules, from ATP to larger molecules such as tRNAs, and are supposed to adjust exchanges in response to cell signals and stresses. Four major VDACs have been identified in Arabidopsis thaliana. The goal of this study was to explore the specific functions of these proteins, in particular, in tRNA import into mitochondria and stress response. The main results were: (i) VDACs appeared to differentially interact with tRNAs, and VDAC4 could be the major tRNA channel on the outer membrane, (ii) a VDAC3 mRNA isoform was found induced by different stresses, suggesting that VDAC3 might be specifically involved in early steps of stress response and (iii) an analysis of vdac3 and vdac1 mutant lines showed that VDAC3 and VDAC1 shared some, but not all functions. In conclusion, this work brings new knowledge on VDACs, which do not appear as interchangeable pores of the outer membrane and each VDAC has its own specificity.

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Section: Discussionmentioning

confidence: 75%

Arabidopsis Voltage-Dependent Anion Channels (VDACs): Overlapping and Specific Functions in Mitochondria

Hémono

Ubrig

Azeredo

et al. 2020

Cells

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“…This is particularly uncertain in P. peruviana which currently lacks a reference genome sequence. Thus, plants present a large variety of mRNAs which can be very related and induced to the wrong amplification ( Tian et al, 2020 ). In this study, from the 17 primer pairs designed, eight showed a high efficiency and were selected for further validation.…”

Section: Discussionmentioning

confidence: 99%

Combining transcriptome analysis and GWAS for identification and validation of marker genes in thePhysalis peruviana-Fusarium oxysporumpathosystem

Garzón-Martínez

Arias

Enciso-Rodríguez

et al. 2021

PeerJ

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Vascular wilt, caused by the pathogen Fusarium oxysporum f. sp. physali (Foph), is a major disease of cape gooseberry (Physalis peruviana L.) in Andean countries. Despite the economic losses caused by this disease, there are few studies related to molecular mechanisms in the P. peruviana—Foph pathosystem as a useful tool for crop improvement. This study evaluates eight candidate genes associated with this pathosystem, using real-time quantitative PCR (RT-qPCR). The genes were identified and selected from 1,653 differentially expressed genes (DEGs) derived from RNA-Seq analysis and from a previous genome-wide association study (GWAS) of this plant-pathogen interaction. Based on the RT-qPCR analysis, the tubuline (TUB) reference gene was selected for its highly stable expression in cape gooseberry. The RT-qPCR validation of the candidate genes revealed the biological variation in their expression according to their known biological function. Three genes related to the first line of resistance/defense responses were highly expressed earlier during infection in a susceptible genotype, while three others were overexpressed later, mostly in the tolerant genotype. These genes are mainly involved in signaling pathways after pathogen recognition, mediated by hormones such as ethylene and salicylic acid. This study provided the first insight to uncover the molecular mechanism from the P. peruviana—Foph pathosystem. The genes validated here have important implications in the disease progress and allow a better understanding of the defense response in cape gooseberry at the molecular level. Derived molecular markers from these genes could facilitate the identification of tolerant/susceptible genotypes for use in breeding schemes.

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“…In rice endosperm, it was shown that two zipcode RBPs binding glutelin mRNA form a quaternary structure with two membrane fusion factors [ 102 ]. RBP-P and RBP-L, as discussed in Section 2.1.1 , participate in the coopting of endosomal trafficking for mRNA translocation [ 103 , 104 ]. Mutant lines of RBP-P proteins in rice showed mis-localized glutelin and prolamine mRNAs (coding for the two most prominent seed storage proteins), as well as altered regulation of biological processes during seed development [ 104 ].…”

Section: Rna-protein Interactions In Plants As Unearthed By Classimentioning

confidence: 99%

The Landscape of RNA-Protein Interactions in Plants: Approaches and Current Status

Burjoski

Reddy

2021

IJMS

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RNAs transmit information from DNA to encode proteins that perform all cellular processes and regulate gene expression in multiple ways. From the time of synthesis to degradation, RNA molecules are associated with proteins called RNA-binding proteins (RBPs). The RBPs play diverse roles in many aspects of gene expression including pre-mRNA processing and post-transcriptional and translational regulation. In the last decade, the application of modern techniques to identify RNA–protein interactions with individual proteins, RNAs, and the whole transcriptome has led to the discovery of a hidden landscape of these interactions in plants. Global approaches such as RNA interactome capture (RIC) to identify proteins that bind protein-coding transcripts have led to the identification of close to 2000 putative RBPs in plants. Interestingly, many of these were found to be metabolic enzymes with no known canonical RNA-binding domains. Here, we review the methods used to analyze RNA–protein interactions in plants thus far and highlight the understanding of plant RNA–protein interactions these techniques have provided us. We also review some recent protein-centric, RNA-centric, and global approaches developed with non-plant systems and discuss their potential application to plants. We also provide an overview of results from classical studies of RNA–protein interaction in plants and discuss the significance of the increasingly evident ubiquity of RNA–protein interactions for the study of gene regulation and RNA biology in plants.

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mRNA Localization in Plant Cells

Cited by 44 publications

References 144 publications

Arabidopsis Voltage-Dependent Anion Channels (VDACs): Overlapping and Specific Functions in Mitochondria

Arabidopsis Voltage-Dependent Anion Channels (VDACs): Overlapping and Specific Functions in Mitochondria

Combining transcriptome analysis and GWAS for identification and validation of marker genes in thePhysalis peruviana-Fusarium oxysporumpathosystem

The Landscape of RNA-Protein Interactions in Plants: Approaches and Current Status

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