In-silico prediction of novel genes responsive to drought and salinity stress tolerance in bread wheat (Triticum aestivum)

Abstract

Common wheat (Triticum aestivum) is the most widely grown cereal crop and is cultivated extensively in dry regions. Water shortage, resulting from either drought or salinity, leads to slow growth and loss of wheat yield. In order to predict new genes responsive to the drought and salt stresses in wheat, 6,717 expressed sequence tags (ESTs), expressed in drought and salinity stress conditions were collected from the National Center for Biotechnology Information (NCBI). The downloaded ESTs were clustered and assembled into 354 contigs; 14 transcription factor families in 29 contigs were identified. In addition, 119 contigs were organized in five enzyme classes. Biological functions were obtained for only 324 of the 354 contigs using gene ontology. In addition, using Kyoto Encyclopedia of Genes and Genomes database, 191 metabolic pathways were identified. The remaining contigs were used for further analysis and the search for new genes responsive to drought and salt stresses. These contigs were mapped on the International Wheat Genome Sequencing Consortium RefSeq v1.0 assembly, the most complete version of the reference sequence of the bread wheat variety Chinese Spring. They were found to have from one to three locations on the subgenomes A, B, and D. Full-length gene sequences were designed for these contigs, which were further validated using promoter analysis. These predicted genes may have applications in molecular breeding programs and wheat drought and salinity research.

Removal of evolutionarily conserved functional MYC domains in a tilapia cell line using a vector-based CRISPR/Cas9 system

“…This modulation is mediated via key hormonal signaling pathways important for plant salinity tolerance 11 . Such salinity stress-induced, non-canonical roles of MYC TF in plants were also indicated by an in-silico prediction study using bread wheat ( Triticum aestivum ) 12 . Moreover, microarray analyses of MYC ko rat cell lines revealed inositol monophosphatase (IMPA, A2 isoform), a key enzyme in the myo -inositol biosynthesis (MIB) compatible osmolyte pathway, as a target gene of MYC 13 .…”

Identification of genes associated with abiotic stress tolerance in sweetpotato using weighted gene co‐expression network analysis

“…PEG and salt stress treatments had slightly higher number of shared up regulated (190 genes) and down regulated DEGs (589 genes) compared to PEG versus heat treatment (134 genes and 570 genes in up and down regulated categories respectively) or salt and heat treatments (52 genes up regulated and 315 genes down regulated). A high degree of similarity in several different ways, also in their molecular and genetic effects has been observed in drought and salinity stresses (Bartels & Sunkar, 2005;Dabab Nahas et al, 2019). These similarities include but are not limited to metabolic processes, such as increased levels of plant hormonal processes (e.g., ABA) or decrease in photosynthesis.…”

In-silico analysis of AREB1 gene in tomato for draught resistance

“…During the process of plant response to drought stress, a large number of genes were induced. These genes were classified into two major groups according to their putative functional modes (Laila et al, 2019) [10] . The first group comprises the genes encoding structural proteins, which were downstream effectors in the stress response pathway including osmoregulatory genes, antioxidant proteins, and late embryogenesis abundant (LEA) proteins, whereas, the second group consists of the genes encoding regulatory proteins, which were early response transcriptional activators including transcription factors and protein kinesis including gbZIP, WRKY, MYB, and AP2/EREBP proteins have been proved to play important roles in the regulation of drought tolerance (Wang et al, 2006) [15] .…”