Genome-wide identification and characterization of aquaporin gene family in moso bamboo (Phyllostachys edulis)

Abstract

Aquaporins (AQPs) are known to play a major role in maintaining water and hydraulic conductivity balance in the plant system. Numerous studies have showed AQPs execute multi-function throughout plant growth and development, including water transport, nitrogen, carbon, and micronutrient acquisition etc. However, little information on AQPs is known in bamboo. In this study, we present the first genome-wide identification and characterization of AQP genes in moso bamboo (Phyllostachys edulis) using bioinformatics. In total, 26 AQP genes were identified by homologous analysis, which were divided into four groups (PIPs, TIPs, NIPs, and SIPs) based on the phylogenetic analysis. All the genes were located on 26 different scaffolds respectively on basis of the gene mapped to bamboo genome. Evolutionary analysis indicated that Ph. edulis was more close to Oryza sativa than Zea mays in the genetic relationship. Besides, qRT-PCR was used to analyze gene expression profiles, which revealed that AQP genes were expressed constitutively in all the detected tissues, and were all responsive to the environmental cues such as drought, water, and NaCl stresses. This data suggested that AQPs may play fundamental roles in maintaining normal growth and development of bamboo, which would contribute to better understanding for the complex regulation mechanism involved in the fast-growing process of bamboo. Furthermore, the result could provide valuable information for further research on bamboo functional genomics.

Genome-Wide Identification and Transcriptional Regulation of Aquaporin Genes in Bread Wheat (Triticum aestivum L.) under Water Stress

“…The increasing number of sequenced genomes opens new horizons in the study of functional genomics and the precision of annotating new genes [ 71 , 72 ]. In this sense, genome-wide identification methods allow greater accuracy in the characterization of multiple gene families, such as AQPs.…”

The apoplasmic pathway via the root apex and lateral roots contributes to Cd hyperaccumulation in the hyperaccumulatorSedum alfredii

“…The slightly higher hydraulic conductivity in the NH ecotype in the absence of Cd may be attributable to an enhanced occurrence of pits in the endodermal suberin lamellae (Waduwara et al, 2008), an altered chemical composition of the suberin (Thomas et al , 2007), and/or an increased expression of aquaporins in the plasma membrane and tonoplast of endodermal cells that would permit rapid transcellular flow, particularly in the root apical region (Barrieu et al , 1998; Gambetta et al , 2013). Aquaporins (AQPs) are water-selective channels that affect the balance in Lp r (Aroca et al , 2011; Sun et al , 2016), and whose activity can be inhibited upon exposure to anoxia induced by the presence of N 2 (Gloser et al , 2007). Upon N 2 exposure, a more pronounced decrease in Lp r was observed in control (i.e.…”

The R2R3MYB Gene Family in Phyllostachys edulis: Genome-Wide Analysis and Identification of Stress or Development-Related R2R3MYBs

“…We used the MYB mRNA sequences of Oryza sativa and Zea mays , obtained from NCBI Nucleotide database 1 , as query sequences to blast against the moso bamboo transcriptome database (downloaded from the bamboo genome database) 2 ( Peng et al, 2013a ; Zhao et al, 2014 ) with the e -value cut-off of 10 -5 . The resulting sequences were further subjected to annotation to NCBI non-redundant database with e -value cut-off of 10 -10 using Blast2GO ( Conesa et al, 2005 ; Conesa and Götz, 2008 ) to confirm the identification, and the wrong annotated sequences were removed ( Cao et al, 2016 ; Deokar and Tar’an, 2016 ; Sun et al, 2016 ). Finally, the putative proteins were manually analyzed for the intact MYB domain (PF00249) using the Pfam database 3 and Conserved Domains Database 4 with e -values < 0.001.…”