Identification of reference genes for quantitative real-time PCR in date palm (Phoenix dactylifera L.) subjected to drought and salinity

Himanshu V. Patankar, Dekoum V M Assaha, Rashid Al-Yahyai, Ramanjulu Sunkar, Mahmoud W. Yaish

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Date palm is an important crop plant in the arid and semi-arid regions supporting human population in the Middle East and North Africa. These areas have been largely affected by drought and salinity due to insufficient rainfall and improper irrigation practices. Date palm is a relatively salt- and drought-tolerant plant and more recently efforts have been directed to identifying genes and pathways that confer stress tolerance in this species. Quantitative real-time PCR (qPCR) is a promising technique for the analysis of stress-induced differential gene expression, which involves the use of stable reference genes for normalizing gene expression. In an attempt to find the best reference genes for date palm's drought and salinity research, we evaluated the stability of 12 most commonly used reference genes using the geNorm, NormFinder, BestKeeper statistical algorithms and the comparative ÄCT method. The comprehensive results revealed that HEAT SHOCK PROTEIN (HSP), UBIQUITIN (UBQ) and YTH domain-containing family protein (YT521) were stable in drought-stressed leaves whereas GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGE-NASE (GAPDH), ACTIN and TUBULIN were stable in drought-stressed roots. On the other hand, SMALL SUBUNIT RIBOSOMAL RNA (25S), YT521 and 18S ribosomal RNA (18S); and UBQ, ACTIN and ELONGATION FACTOR 1-ALPHA (eEF1a) were stable in leaves and roots, respectively, under salt stress. The stability of these reference genes was verified by using the abiotic stress-responsive CYTOSOLIC Cu/Zn SUPEROXIDE DISMUT-ASE (Cyt-Cu/Zn SOD), an ABA RECEPTOR, and a PROLINE TRANSPORTER 2 (PRO) genes. A combination of top 2 or 3 stable reference genes were found to be suitable for normalization of the target gene expression and will facilitate gene expression analysis studies aimed at identifying functional genes associated with drought and salinity tolerance in date palm.

Original languageEnglish
Article numbere0166216
JournalPLoS One
Volume11
Issue number11
DOIs
Publication statusPublished - Nov 1 2016

Fingerprint

Phoenix dactylifera
Drought
Droughts
Salinity
Real-Time Polymerase Chain Reaction
quantitative polymerase chain reaction
Genes
drought
salinity
Gene expression
genes
Gene Expression
gene expression
ubiquitin
Ubiquitin
Salt-Tolerant Plants
Salts
18S Ribosomal RNA
glyceraldehyde 3-phosphate
Glyceraldehyde 3-Phosphate

ASJC Scopus subject areas

  • Medicine(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Identification of reference genes for quantitative real-time PCR in date palm (Phoenix dactylifera L.) subjected to drought and salinity. / Patankar, Himanshu V.; Assaha, Dekoum V M; Al-Yahyai, Rashid; Sunkar, Ramanjulu; Yaish, Mahmoud W.

In: PLoS One, Vol. 11, No. 11, e0166216, 01.11.2016.

Research output: Contribution to journalArticle

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