Impact of Climate Change on MicroRNA Expression in Plants

Ghorecha, Vallabhi; Krishnayya, N. S. R.; Sunkar, Ramanjulu

doi:10.1002/9783527675265.ch19

Cited by 2 publications

(2 citation statements)

References 85 publications

(99 reference statements)

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“…Some of these include transcription, processing, biogenesis, and RISC incorporation, which can collectively determine the miRNA levels in a tissue and at a stage [ 12 ]. Furthermore, the environmental conditions at different sampling dates, such as heat, ozone, and drought, also affect miRNA expression [ 77 ].…”

Section: Discussionmentioning

confidence: 99%

Identification of Known and Novel microRNAs and Their Targets in Peach (Prunus persica) Fruit by High-Throughput Sequencing

Zhang

et al. 2016

PLoS ONE

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MicroRNAs (miRNAs) are a group of non-coding RNAs that have functions in post-transcriptional gene regulation in plants. Although the most important economic component of peach trees (Prunus persica) is the fruit, not much is known about miRNAs in this organ. In this study, miRNAs and their targets were identified and characterized from libraries of small RNAs of peach fruit through Solexa based-sequencing and bioinformatics approaches. A total of 557 known peach miRNAs belonging to 34 miRNA families were identified, and some of these miRNAs were found to be highly conserved in at least four other plant species. Using the most current criteria for miRNA annotation, 275 putative novel miRNAs were predicted, and the sequencing frequencies of these novel miRNAs were less than those of the conserved miRNAs. In total, 3959 and 1614 target genes for 349 known and 193 novel miRNAs, respectively, were predicted with the criteria that a single target gene can be targeted by different miRNAs and that a single miRNA can also have a large number of target genes. Three targets were even found to be targeted by 13 novel miRNAs that contained the same complete miRNA sequence at different locations and had different scaffolds. The proteins predicted to be targeted by the miRNAs identified in this study encompass a wide range of transcription factors and are involved in many biological processes and pathways, including development, metabolism, stress responses and signal transduction. A total of 115 and 101 target genes were identified to be cleaved by 60 known miRNAs and 27 novel miRNAs through degradome sequencing, respectively. These miRNAs induce cleavage of their targets precisely at the position between nucleotides 10 and 11 of the miRNA sequences from the 5’ to the 3’ end. Thirty conserved miRNAs and 19 novel miRNAs exhibited differential expression profiles in the peach, and the expression patterns of some miRNAs appeared to be tissue- or developmental stage-specific. The findings of this study provide an important basis for the analysis of miRNAs, their targets and the functions of these targets in peach fruit.

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Section: Discussionmentioning

confidence: 99%

Identification of Known and Novel microRNAs and Their Targets in Peach (Prunus persica) Fruit by High-Throughput Sequencing

Zhang

et al. 2016

PLoS ONE

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“…Moreover, post-transcriptional gene regulation is a less understood phenomenon compared to the transcriptional regulation in response to drought. Several recent studies have shown that miRNAs that act as post-transcriptional regulators are regulated by drought and other abiotic stresses revealing a new layer of gene regulation that is very important for adapting to stress conditions (Sunkar et al 2007Ghorecha et al 2013). Furthermore, miRNA regulation differs between drought sensitive and tolerant genotypes under stress (Kulcheski et al 2011).…”

Section: Introductionmentioning

confidence: 99%

MicroRNA dynamics in a wild and cultivated species of Convolvulaceae exposed to drought stress

Ghorecha

Zheng

Liu

et al. 2017

Physiol Mol Biol Plants

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Agricultural productivity is severely hampered by drought in many parts of the globe. It is well-known that wild plant species can tolerate drought better when compared with their closely related cultivated plant species. Better drought adaptation of wild species over cultivated ones is accounted for their ability to differentially regulate gene expression. miRNAs, known to regulate gene expression at the post-transcriptional level, are admitted to play an important role in plant adaptation to stresses. This study aims at evaluating miRNA dynamics in a droughttolerant wild Ipomoea campanulata L. and drought-sensitive cultivated Jacquemontia pentantha (Jacq.) of the family Convolvulaceae under ex situ drought. Sequencing profiles revealed that 34 conserved miRNA families were analogous between the two species. Drought altered expression levels of several of these miRNAs in both the species. Drought-tolerant I. campanulata showed upregulation of miR398, miR168, miR858, miR162 and miR408, while miR394 and miR171 were downregulated. Droughtsensitive J. pentantha showed upregulation of miR394, miR156, miR160, miR164, miR167, miR172, miR319, miR395, miR396, miR403 and downregulation of miR157. Basal miRNA levels and their drought mediated regulation were very different between the two species. Differential drought sensitivities of these two plant species can be attributed to these innate variations in miRNA levels and their expression.

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Impact of Climate Change on MicroRNA Expression in Plants

Cited by 2 publications

References 85 publications

Identification of Known and Novel microRNAs and Their Targets in Peach (Prunus persica) Fruit by High-Throughput Sequencing

Identification of Known and Novel microRNAs and Their Targets in Peach (Prunus persica) Fruit by High-Throughput Sequencing

MicroRNA dynamics in a wild and cultivated species of Convolvulaceae exposed to drought stress

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