A genome-wide identification of the miRNAome in response to salinity stress in date palm (Phoenix dactylifera L.)

Mahmoud W. Yaish, Ramanjulu Sunkar, Yun Zheng, Bo Ji, Rashid Al-Yahyai, Sardar A. Farooq

Research output: Contribution to journalArticle

27 Citations (Scopus)

Abstract

Although date palm is relatively salt-tolerant, little is known about the underlying molecular mechanisms that contribute to its salt tolerance. Only recently, investigators have uncovered microRNA-mediated post-transcriptional gene regulation, which is critical for typical plant development and adaptation to stress conditions such as salinity. To identify conserved and novel miRNAs in date palm and to characterize miRNAs that could play a role in salt tolerance, we have generated sRNA libraries from the leaves and roots of NaCl-treated and untreated seedlings of date palm. Deep sequencing of these four sRNA libraries yielded approximately 251 million reads. The bioinformatics analysis has identified 153 homologs of conserved miRNAs, 89 miRNA variants, and 180 putative novel miRNAs in date palm. Expression profiles under salinity revealed differential regulation of some miRNAs in date palm. In leaves, 54 of the identified miRNAs were significantly affected and the majority (70%) of them were upregulated, whereas in roots, 25 of the identified miRNAs were significantly affected and 76% of them were upregulated by the salinity stress. The salt-responsiveness of some of these miRNAs was further validated using semi-quantitative PCR (qPCR). Some of the predicted targets for the identified miRNA include genes with known functions in plant salt tolerance, such as potassium channel AKT2-like proteins, vacuolar protein sorting-associated protein, calcium-dependent and mitogen-activated proteins. As one of the first cultivated trees in the world that can tolerate a wide range of abiotic stresses, date palm contains a large population of conserved and non-conserved miRNAs that function at the post-transcriptional level. This study provided insights into miRNA-mediated gene expression that are important for adaptation to salinity in date palms.

Original languageEnglish
Article number946
JournalFrontiers in Plant Science
Volume6
Issue numberNOVEMBER
DOIs
Publication statusPublished - Nov 5 2015

Fingerprint

Phoenix dactylifera
salt stress
genome
microRNA
salt tolerance
salinity
salts
plant adaptation
protein transport
proteins
potassium channels
bioinformatics
abiotic stress
plant development
leaves
quantitative polymerase chain reaction
genes
calcium
gene expression
seedlings

Keywords

  • Date palm
  • Genomics
  • miRNA
  • Phoenix dactylifera L
  • Salinity

ASJC Scopus subject areas

  • Plant Science

Cite this

A genome-wide identification of the miRNAome in response to salinity stress in date palm (Phoenix dactylifera L.). / Yaish, Mahmoud W.; Sunkar, Ramanjulu; Zheng, Yun; Ji, Bo; Al-Yahyai, Rashid; Farooq, Sardar A.

In: Frontiers in Plant Science, Vol. 6, No. NOVEMBER, 946, 05.11.2015.

Research output: Contribution to journalArticle

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