Genome-wide identification, evolution and expression analysis of bone morphogenetic protein (BMP) gene family in chinese soft-shell turtle (Pelodiscus sinensis)

Frontiers in Genetics

Genetics

Yihui Liu¹  Chengqing Wei¹  Chen Chen¹  Congcong Wu¹  Yakun Wang¹  Xiaoyou Hong¹  Haigang Chen¹  Yongchang Wang¹  Wei Li¹  Lingyun Yu¹  Xiaoli Liu¹  Junxian Zhu²  Luo Lei³  Xinping Zhu⁴  Ming Qi⁵ 

[1] Key Laboratory of Tropical and Subtropical Fishery Resources Application and Cultivation, Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, China;Key Laboratory of Tropical and Subtropical Fishery Resources Application and Cultivation, Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, China;College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China;Key Laboratory of Tropical and Subtropical Fishery Resources Application and Cultivation, Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, China;Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, Jiangsu, China;Key Laboratory of Tropical and Subtropical Fishery Resources Application and Cultivation, Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, China;Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, Jiangsu, China;College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China;Zhejiang Fisheries Technical Extension Center, Hangzhou, China;

关键词: Pelodiscus sinensis;    bone morphogenetic protein;    gene family;    genome-wide;    transcriptome;    sex differentiation;   

DOI  :  10.3389/fgene.2023.1109478

 received in 2022-11-27, accepted in 2023-01-19,  发布年份 2023

来源: Frontiers

【 摘 要 】

Introduction: Bone morphogenetic proteins (BMPs) play a crucial role in bone formation and differentiation. Recent RNA-Seq results suggest that BMPs may be involved in the sex differentiation of P. sinensis, yet more relevant studies about BMPs in P. sinensis are lacking.Methods: Herein, we identified BMP gene family members, analyzed the phylogeny, collinear relationship, scaffold localization, gene structures, protein structures, transcription factors and dimorphic expression by using bioinformatic methods based on genomic and transcriptomic data of P. sinensis. Meanwhile, qRT-PCR was used to verify the RNA-Seq results and initially explore the function of the BMPs in the sex differentiation of P. sinensis.Results: A total of 11 BMP genes were identified, 10 of which were localized to their respective genomic scaffolds. Phylogenetic analysis revealed that BMP genes were divided into eight subfamilies and shared similar motifs (“WII”, “FPL”, “TNHA”, “CCVP”, and “CGC”) and domain (TGF-β superfamily). The results of the sexually dimorphic expression profile and qRT-PCR showed that Bmp2, Bmp3, Bmp15l, Bmp5, Bmp6 and Bmp8a were significantly upregulated in ovaries, while Bmp2lb, Bmp7, Bmp2bl and Bmp10 were remarkable upregulated in testes, suggesting that these genes may play a role in sex differentiation of P. sinensis.Discussion: Collectively, our comprehensive results enrich the basic date for studying the evolution and functions of BMP genes in P. sinensis.

【 授权许可】

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Copyright © 2023 Lei, Zhu, Chen, Wang, Wu, Qi, Wang, Liu, Hong, Yu, Chen, Wei, Liu, Li and Zhu.