Chinese Bulletin of Botany ›› 2024, Vol. 59 ›› Issue (1): 34-53.DOI: 10.11983/CBB23004

• EXPERIMENTAL COMMUNICATIONS • Previous Articles     Next Articles

Genome-wide Identification and Domestication Analysis of the Phytochrome PHY Gene Family in Gossypium

Jiaqi Gu1,2,, Fuhui Zhu1,2,, Peihao Xie1,2, Qingying Meng1,2, Ying Zheng2, Xianlong Zhang1,2, Daojun Yuan1,2,3,*()   

  1. 1National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China
    2College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
    3College of Agriculture, Xinjiang Agricultural University, Urumqi 830052, China
  • Received:2023-01-02 Accepted:2023-07-08 Online:2024-01-01 Published:2023-07-21
  • Contact: *E-mail:
  • About author:

    †These authors contributed equally to this paper

Abstract: Phytochrome is an important receptor for red and far-red light sensing in plants, and it plays a vital role in regulating the plant flowering period, improving crop yield potential and regulating plant stress resistance. Identification of PHY family genes in Gossypium, exploration of the patterns of inheritance and regulatory network of domestication and improvement, and identification of the key phytochrome genes in Gossypium, provides insights into the de novo domestication and breeding of early maturing Gossypium species. To identify the phytochrome genes of Gossypium, we used bioinformatics methods to analyze 5 phytochrome genes in Arabidopsis thaliana. Phylogenetic analysis showed that the PHY genes in Malvaceae species consisted of 4 subfamilies (PHYA, PHYB, PHYC and PHYE). Moreover, the domestication selection analysis of PHY genes among different populations of G. hirsutum showed that the domestication process of PHY genes could be divided into two stages: domestication and improvement. Furthermore, the gene expression of the PHY gene family was analyzed using leaf RNA-sequencing data obtained from wild and cultivar genotypes of G. hirsutum under short-day (SD) and long-day (LD) conditions. The results showed that the expression of GhPHYA1Dt and GhPHYB1Dt were significantly different between SD and LD conditions. After 14 hours of long-day treatment, the expression of GhPHYC1At and GHPHYE1At in the cultivar was significantly lower than that in wild species. These results lay a foundation for further study on domestication selection and functional mechanisms of Gossypium PHY genes and provide a theoretical basis for breeding new early maturing Gossypium varieties and de novo domestication.

Key words: cotton, domestication, phytochrome, gene family