Alternative splicing in plant stress response

Gracz, Joanna

doi:10.5114/bta.2016.57719

Cited by 7 publications

(8 citation statements)

References 46 publications

(37 reference statements)

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“…The overexpression, when put in a comparative paradigm, of 2 out of 6 alternative transcripts of this transcription factor, substantiated the biological roles of alternative splicing in rice gene expression reacting to the drought stress. This finding supports, more reliably, the idea of the presence of mutual relations between the splicing process and various molecular machineries participating in the gene expression regulation (Gracz, 2016).…”

Section: Identification Of Genes Encoding the Transcription Factorsupporting

confidence: 76%

Identification of novel genes potentially involved in rice ( Oryza sativa L.) drought tolerance

Zinati¹

2017

bta

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Drought is a major constraint affecting rice production and causing yield reduction of up to 60% in the major growing areas of Asia. Developing drought-tolerant cultivars in rice is an appropriate strategy to provide food security and hinder the harmful effects of drought. Therefore, particular attention must be directed toward identifying drought-responsive genes. In the present study, based on the microarray analysis results of two rice genotypes with contrasting response to drought stress, 308 probe sets are uniquely upregulated with equal to or greater than 3 symmetric fold changes in drought-tolerant genotype upon exposure to drought stress. As the next step, mapping of the corresponding genes of these probe sets via the web-based tool "QlicRice" is expected to reveal the genes within the drought stress-associated QTLs (quantitative trait loci). To determine the number of probe sets annotated to the transcription factors in various families, the plant transcription factor database (PlnTFDB) is relatively utilized. Finally, the biclustering analysis using Genevestigator is at hand to unveil the biclusters along with the embedded probe sets annotated to 3 transcription factors in different drought stress studies. The survey is also aimed at determining the possible relationships between up-and co-regulated genes and the transcription factors in the obtained biclusters through plant promoter analysis navigator (PlantPAN). To substantiate how the exploration of transcriptomic changes of the genotypes with contrasting drought tolerance could uncover a number of genes associated with rice drought stress is the ultimate goal of the present study.

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Section: Identification Of Genes Encoding the Transcription Factorsupporting

confidence: 76%

Identification of novel genes potentially involved in rice ( Oryza sativa L.) drought tolerance

Zinati¹

2017

bta

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“…The PTC-containing transcripts are then recognized by specific cellular proteins, which mediate the elimination of these transcripts through nonsense-mediated decay (NMD)—a cytoplasmic translation-coupled mechanism that degrades PTC-containing mRNAs [ 36 , 37 ]. Several reports also suggest that PTC-containing mRNAs escape NMD to form truncated translation products with regulatory functions, such as modification of protein interaction networks, negative regulation of protein dimerization, and alteration of post-translational modifications [ 38 ]. The truncated isoforms can also act in autoregulatory loops to control the gene transcription [ 39 ].…”

Section: Introductionmentioning

confidence: 99%

Stress-Induced Changes in Alternative Splicing Landscape in Rice: Functional Significance of Splice Isoforms in Stress Tolerance

Ganie

Reddy

2021

Biology

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Improvements in yield and quality of rice are crucial for global food security. However, global rice production is substantially hindered by various biotic and abiotic stresses. Making further improvements in rice yield is a major challenge to the rice research community, which can be accomplished through developing abiotic stress-resilient rice varieties and engineering durable agrochemical-independent pathogen resistance in high-yielding elite rice varieties. This, in turn, needs increased understanding of the mechanisms by which stresses affect rice growth and development. Alternative splicing (AS), a post-transcriptional gene regulatory mechanism, allows rapid changes in the transcriptome and can generate novel regulatory mechanisms to confer plasticity to plant growth and development. Mounting evidence indicates that AS has a prominent role in regulating rice growth and development under stress conditions. Several regulatory and structural genes and splicing factors of rice undergo different types of stress-induced AS events, and the functional significance of some of them in stress tolerance has been defined. Both rice and its pathogens use this complex regulatory mechanism to devise strategies against each other. This review covers the current understanding and evidence for the involvement of AS in biotic and abiotic stress-responsive genes, and its relevance to rice growth and development. Furthermore, we discuss implications of AS for the virulence of different rice pathogens and highlight the areas of further research and potential future avenues to develop climate-smart and disease-resistant rice varieties.

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“…All this variety comes from distinct processes that add to the complexity of proteins and multiply the number of components and functions, based on the demands of a cell at a given time. These events are: posttranscriptional splicing and alternative splicing, co-and post-translational protein modification or enzymatic activation of proenzymes (Gracz, 2016;Prabakaran 2012;Khan & James, 1998). Moreover, some proteins can be engaged in intra-or intermolecular interactions to form functional oligomers or protein complexes.…”

Section: Proteomementioning

confidence: 99%

Deciphering soybean molecular stress response via high-throughput approach

et al. 2017

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As a result of thousands of years of agriculture, humans had created many crop varieties that became the basis of our daily diet, animal feed and also carry industrial application. Soybean is one of the most important crops worldwide and because of its high economic value the demand for soybean products is constantly growing. In Europe, due to unfavorable climate conditions, soybean cultivation is restricted and we are forced to rely on imported plant material. The development of agriculture requires continuous improvements in quality and yield of crop varieties under changing or adverse conditions, namely stresses. To achieve this goal we need to recognize and understand the molecular dependencies underlying plant stress responses. With the advent of new technologies in studies of plant transcriptomes and proteomes, now we have the tools necessary for fast and precise elucidation of desirable crop traits. Here, we present an overview of high-throughput techniques used to analyze soybean responses to different abiotic (drought, flooding, cold stress, salinity, phosphate deficiency) and biotic (infections by F. oxysporum, cyst nematode, SMV) stress conditions at the level of the transcriptome (mRNAs and miRNAs) and the proteome.

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Alternative splicing in plant stress response

Cited by 7 publications

References 46 publications

Identification of novel genes potentially involved in rice ( Oryza sativa L.) drought tolerance

Identification of novel genes potentially involved in rice ( Oryza sativa L.) drought tolerance

Stress-Induced Changes in Alternative Splicing Landscape in Rice: Functional Significance of Splice Isoforms in Stress Tolerance

Deciphering soybean molecular stress response via high-throughput approach

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