Genome-Wide Identification and Transcriptional Expression Profiles of PP2C in the Barley ( Hordeum vulgare L.) Pan-Genome

• Published in: Genes Vol. 13; no. 5; p. 834
• Main Authors: Wu, Xiao-Tong, Xiong, Zhu-Pei, Chen, Kun-Xiang, Zhao, Guo-Rong, Feng, Ke-Ru, Li, Xiu-Hua, Li, Xi-Ran, Tian, Zhao, Huo, Fu-Lin, Wang, Meng-Xing, Song, Weining
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 07.05.2022; MDPI
• Subjects: Aluminum; Barley; Chromosomes; Cultivation; Domestication; Evolution & development; Gene duplication; Gene expression; Genomes; Genomics; Hordeum vulgare; Localization; Phosphatase; Phosphoprotein phosphatase; Phylogenetics; Phylogeny; Protein phosphatase; Proteins; Seeds; Stress response; barley pan-genome; positive selection; PP2C gene family; expression profiles
• ISSN: 2073-4425; 2073-4425
• DOI: 10.3390/genes13050834

The gene family protein phosphatase 2C (PP2C) is related to developmental processes and stress responses in plants. Barley ( L.) is a popular cereal crop that is primarily utilized for human consumption and nutrition. However, there is little knowledge regarding the gene family in barley. In this study, a total of 1635 genes were identified in 20 barley pan-genome accessions. Then, chromosome localization, physical and chemical feature predictions and subcellular localization were systematically analyzed. One wild barley accession (B1K-04-12) and one cultivated barley (Morex) were chosen as representatives to further analyze and compare the differences in between wild and cultivated barley. Phylogenetic analysis showed that these were divided into 12 subgroups. Additionally, gene structure, conserved domain and motif, gene duplication event detection, interaction networks and gene expression profiles were analyzed in accessions Morex and B1K-04-12. In addition, qRT-PCR experiments in Morex indicated that seven genes were involved in the response to aluminum and low pH stresses. Finally, a series of positively selected homologous genes were identified between wild accession B1K-04-12 and another 14 cultivated materials, indicating that these genes are important during barley domestication. This work provides a global overview of the putative physiological and biological functions of genes in barley. We provide a broad framework for understanding the domestication- and evolutionary-induced changes in genes between wild and cultivated barley.