scholarly journals Genome-Wide Identification and Evolutionary Analysis of Argonaute Genes in Hexaploid Bread Wheat

2021 ◽  
Vol 2021 ◽  
pp. 1-9
Author(s):  
Yan-Feng Liu ◽  
Li-Min Wang ◽  
Li-Zi Zhao ◽  
Wei Wang ◽  
Hong-Xia Zhang
Keyword(s):  
Gene Expression ◽  
Bread Wheat ◽  
Evolutionary Analysis ◽  
Homoeologous Gene ◽  
Gene Copies ◽  
Genome Wide ◽  
Expression Bias ◽  
Core Components ◽  
High Conservation ◽  
Drought And Salt Stresses

Argonaute (AGO) proteins play a pivotal role in plant growth and development as the core components of RNA-induced silencing complex (RISC). However, no systematic characterization of AGO genes in wheat has been reported to date. In this study, a total number of 69 TaAGO genes in the hexaploid bread wheat (Triticum aestivum cv. Chinese Spring) genome, divided into 10 subfamilies, were identified. Compared to all wheat genes, TaAGOs showed a significantly lower evolutionary rate, which is consistent with their high conservation in eukaryotes. However, the homoeolog retention was remarkably higher than the average, implying the nonredundant biological importance of TaAGO genes in bread wheat. Further homoeologous gene expression bias analyses revealed that TaAGOs may have undergone neofunctionalization after polyploidization and duplication through the divergent expression of homoeologous gene copies, to provide new opportunities for the generation of adaptive traits. Moreover, quantitative real-time polymerase chain reaction (qRT-PCR) analyses indicated that TaAGO gene expression was involved in response to heat, drought, and salt stresses. Our results would provide a theoretical basis for future studies on the biological functions of TaAGO genes in wheat and other gramineous species.

scholarly journals Patterns of homoeologous gene expression shown by RNA sequencing in hexaploid bread wheat

BMC Genomics ◽  
2014 ◽  
Vol 15 (1) ◽  
pp. 276 ◽  
Author(s):  
Lindsey J Leach ◽  
Eric J Belfield ◽  
Caifu Jiang ◽  
Carly Brown ◽  
Aziz Mithani ◽  
...  
Keyword(s):  
Gene Expression ◽  
Rna Sequencing ◽  
Bread Wheat ◽  
Homoeologous Gene

scholarly journals Genome-wide classification, evolutionary analysis and gene expression patterns of the kinome in Gossypium

PLoS ONE ◽  
2018 ◽  
Vol 13 (5) ◽  
pp. e0197392 ◽  
Author(s):  
Jun Yan ◽  
Guilin Li ◽  
Xingqi Guo ◽  
Yang Li ◽  
Xuecheng Cao
Keyword(s):  
Gene Expression ◽  
Expression Patterns ◽  
Gene Expression Patterns ◽  
Evolutionary Analysis ◽  
Genome Wide

scholarly journals Carotenoid Biosynthetic Genes in Cabbage: Genome-Wide Identification, Evolution, and Expression Analysis

Genes ◽  
2021 ◽  
Vol 12 (12) ◽  
pp. 2027
Author(s):  
Wenxue Cao ◽  
Peng Wang ◽  
Limei Yang ◽  
Zhiyuan Fang ◽  
Yangyong Zhang ◽  
...  
Keyword(s):  
Expression Analysis ◽  
Orthologous Gene ◽  
Carotenoid Biosynthesis ◽  
Functional Differentiation ◽  
Evolutionary Analysis ◽  
Biosynthetic Genes ◽  
Gene Copies ◽  
Genome Wide ◽  
Production And Consumption ◽  
Localization Analysis

Carotenoids are natural functional pigments produced by plants and microorganisms and play essential roles in human health. Cabbage (Brassica oleracea L. var. capitata L.) is an economically important vegetable in terms of production and consumption. It is highly nutritious and contains β-carotene, lutein, and other antioxidant carotenoids. Here, we systematically analyzed carotenoid biosynthetic genes (CBGs) on the whole genome to understand the carotenoid biosynthetic pathway in cabbage. In total, 62 CBGs were identified in the cabbage genome, which are orthologs of 47 CBGs in Arabidopsis thaliana. Out of the 62 CBGs, 46 genes in cabbage were mapped to nine chromosomes. Evolutionary analysis of carotenoid biosynthetic orthologous gene pairs among B. oleracea, B. rapa, and A. thaliana revealed that orthologous genes of B. oleracea underwent a negative selection similar to that of B. rapa. Expression analysis of the CBGs showed functional differentiation of orthologous gene copies in B. oleracea and B. rapa. Exogenous phytohormone treatment suggested that ETH, ABA, and MeJA can promote some important CBGs expression in cabbage. Phylogenetic analysis showed that BoPSYs exhibit high conservatism. Subcellular localization analysis indicated that BoPSYs are located in the chloroplast. This study is the first to study carotenoid biosynthesis genes in cabbage and provides a basis for further research on carotenoid metabolic mechanisms in cabbage.

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