Genome-wide identification, structure characterization, and expression pattern profiling of aquaporin gene family in cucumber

BMC Plant Biology
Yong-Xing ZhuJun-Liang Yin

Abstract

Aquaporin (AQP) proteins comprise a group of membrane intrinsic proteins (MIPs) that are responsible for transporting water and other small molecules, which is crucial for plant survival under stress conditions including salt stress. Despite the vital role of AQPs, little is known about them in cucumber (Cucumis sativus L.). In this study, we identified 39 aquaporin-encoding genes in cucumber that were separated by phylogenetic analysis into five sub-families (PIP, TIP, NIP, SIP, and XIP). Their substrate specificity was then assessed based on key amino acid residues such as the aromatic/Arginine (ar/R) selectivity filter, Froger's positions, and specificity-determining positions. The putative cis-regulatory motifs available in the promoter region of each AQP gene were analyzed and results revealed that their promoter regions contain many abiotic related cis-regulatory elements. Furthermore, analysis of previously released RNA-seq data revealed tissue- and treatment-specific expression patterns of cucumber AQP genes (CsAQPs). Three aquaporins (CsTIP1;1, CsPIP2;4, and CsPIP1;2) were the most transcript abundance genes, with CsTIP1;1 showing the highest expression levels among all aquaporins. Subcellular localization analysis in ...Continue Reading

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Citations

Jul 11, 2020·Plant Cell Reports·Yan YanXianchang Yu
Jun 18, 2020·International Journal of Molecular Sciences·Mohamed FaizeJean-Stéphane Venisse
Sep 29, 2020·Frontiers in Plant Science·Xiaoyi ZhouYongli Qiao
Dec 17, 2020·International Journal of Molecular Sciences·Yan WangFushun Hao
Dec 19, 2020·Scientific Reports·Alvaro Lopez-ZaplanaGloria Bárzana
Jul 25, 2021·International Journal of Molecular Sciences·Xiaoying YeYonghua Qin

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Datasets Mentioned

BETA
PRJNA511946

Methods Mentioned

BETA
transgenic
RNA-seq
salt
salt treatment
environmental stresses
confocal microscopy

Software Mentioned

ProtParam
TopHat2
R package heatmap
edgeR package
WoLF PSORT
Phyre2
Interactive Tree of Life (
BLASTp
R package “ pheatmap
TBtools

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