Genome-wide expression profiling in leaves and roots of date palm Phoenix dactylifera L. exposed to salinityReportar como inadecuado

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BMC Genomics

, 18:246

Plant genomics


BackgroundDate palm, as one of the most important fruit crops in North African and West Asian countries including Oman, is facing serious growth problems due to salinity, arising from persistent use of saline water for irrigation. Although date palm is a relatively salt-tolerant plant species, its adaptive mechanisms to salt stress are largely unknown.

ResultsIn order to get an insight into molecular mechanisms of salt tolerance, RNA was profiled in leaves and roots of date palm seedlings subjected to NaCl for 10 days. Under salt stress, photosynthetic parameters were differentially affected; all gas exchange parameters were decreased but the quantum yield of PSII was unaffected while non-photochemical quenching was increased. Analyses of gene expression profiles revealed 2630 and 4687 genes were differentially expressed in leaves and roots, respectively, under salt stress. Of these, 194 genes were identified as commonly responding in both the tissue sources. Gene ontology GO analysis in leaves revealed enrichment of transcripts involved in metabolic pathways including photosynthesis, sucrose and starch metabolism, and oxidative phosphorylation, while in roots genes involved in membrane transport, phenylpropanoid biosynthesis, purine, thiamine, and tryptophan metabolism, and casparian strip development were enriched. Differentially expressed genes DEGs common to both tissues included the auxin responsive gene, GH3, a putative potassium transporter 8 and vacuolar membrane proton pump.

ConclusionsLeaf and root tissues respond differentially to salinity stress and this study has revealed genes and pathways that are associated with responses to elevated NaCl levels and thus may play important roles in salt tolerance providing a foundation for functional characterization of salt stress-responsive genes in the date palm.

Keywordsdate palm differentially expressed genes DEGs leaves RNA-seq roots salinity AbbreviationsATPAdenosine triphosphate

DEGsDifferentially Expressed Genes

dS.mdeci Siemens per meter

FRDFalse Discovery Rate

GAPDHGlyceraldehyde 3-phosphate dehydrogenase

GOGene Ontology

KEGGKyoto Encyclopedia of Genes and Genomes

NADHNicotinamide adenine dinucleotide

NPQNon-photochemical quenching

PEPCPhosphoenol pyruvate carboxylase

PSIIphotosystem II

qPCRReverse transcriptase-quantitative polymerase chain reaction

RNA-seqRNA sequencing

ROSReactive oxygen species

SODSuperoxide dismutase

Electronic supplementary materialThe online version of this article doi:10.1186-s12864-017-3633-6 contains supplementary material, which is available to authorized users.

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Autor: Mahmoud W. Yaish - Himanshu V. Patankar - Dekoum V. M. Assaha - Yun Zheng - Rashid Al-Yahyai - Ramanjulu Sunkar


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