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| Genome-wide Analysis of the HD-ZIP_N Gene Family in Gossypium hirsutum |
| YE Si-Hong1,*, JI Mei-Jun2,*, CHEN Qi2, FENG Qun2, WANG Dong-Mei2, SUN Meng2, DENG Xiao-Nan1, WANG Rui1, HAN Wen-Bing1, WANG Bao-Hua2,** |
1 Cotton Research Institute, Anhui Academy of Agricultural Science, Hefei 230001, China;
2 School of Life Sciences, Nantong University, Nantong 226019, China |
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Abstract In previous research of our research group, a cotton (Gossypium) fiber strength candidate gene Gh_D09G1210 was identified by combining transcriptome sequencing and QTL mapping, which belongs to homeodomain-leucine zipper (HD-ZIP)__N gene family. The purpose of this study was to identify HD-ZIP_N gene family members in G. hirsutum and analyze their role in the formation of cotton fiber strength. Genome-wide analysis of HD-ZIP_N gene family in G. hirsutum was carried out, and the differential expression patterns of HD-ZIP_N genes in cotton fibers at different days post anthesis were analyzed by real-time quantitative PCR (qPCR). A total of 18 genes of the HD-ZIP_N gene family were identified in G. hirsutum genome conserved motif analysis and gene-promoter analysis showed that the gene family members had highly similar gene sequences and structural domains. The phylogenetic tree showed that all the gene family members could be divided into 3 subcategories. According to the gene location, HD-ZIP_N genes were located on 10 chromosomes in G. hirsutum genome. Most of the homologous genes had been purified and selected according to the Ka/Ks results. Collinearity analysis showed that the members of the HD-ZIP_N gene family distributed on homologous chromosomes had a strong connection. Cotton fibers of 17 and 21 d post-anthesis (dpa) were used to carry out qPCR verification experiments. The results showed that 3 genes Gh_D11G0809, Gh_D04G0859 and Gh_A11G0693 had a significant down-regulation trend in 'PD94042' with average fiber quality and 'IL9' with elite fiber quality (P<0.05), while Gh_A09G1204 had a significant up-regulation trend in 'IL9' (P<0.05), indicating that HD-ZIP_N gene family members had effects on regulation of fiber strength development. The findings of this study suggest that the HD-ZIP_N gene family members participate in regulating the development of G. hirsutum fiber strength, and provide genetic resources for improving cotton fiber strength through molecular breeding.
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Received: 28 November 2022
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Corresponding Authors:
**bhwang@ntu.edu.cn
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| About author:: *These authors contributed equally to this work |
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