Genome-wide identification, evolution, expression, and alternative splicing profiles of peroxiredoxin genes in cotton
Yulong Feng, Renhui Wei, Àiyīng Liú, Senmiao Fan, Jincan Che, Zhen Zhang, Baoming Tian, Yǒulù Yuán, Gongyao Shi, Hǎihóng Shāng
Abstract
Peroxiredoxin (PRX) is a ubiquitous thioredoxin-dependent peroxidase that can eliminate excessive free radicals produced by stress and protect cells from oxidative damage. PRX s are also involved in reactive oxygen species (ROS)- and redox-dependent signaling by performing redox interactions with other proteins and modify their redox status. At present, PRX family identification, evolution and regulation research has been conducted in some plants; however, systematic research about this family is lacking in cotton. In this study, a total of 44 PRX s were identified in the cotton genome. Phylogenetic and conserved active site analyses showed that the PRX s were divided into six subfamilies according to the conserved site (PxxxTxxC…S…W/F) and conserved cysteinyl residues positions. Segmental duplication and polyploid events were the main methods for PRX family expansion, and the PRXs of diploid G. arboreum were the donors of PRX s in the D subgenomes of allotetraploid G. hirsutum and G. barbadense during the evolution of the PRX family. qRT-PCR analysis confirmed that cis-acting elements play important roles in regulating the expression of PRX s. Alternative splicing events occurred in GhPRX14-D that can increased the complexity of transcripts in G. hirsutum . Subcellular localization showed that most PRX members were located in chloroplasts, the cytoplasmic membrane and the nucleus. Our results provide systematic support for a better understanding of PRX s in cotton and a starting point for further studies of the specific functions of PRX s in cotton.