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Genome-wide comparative analysis of bone morphogenetic proteins : genomic structure, phylogeny, and expression patterns in the golden pompano, Trachinotus ovatus (Linnaeus, 1758)

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Abstract

Bone morphogenetic proteins (BMPs) play important roles in various physiological processes, especially during the formation and maintenance of various organs. In this study, we first obtained and characterized twenty BMP genes from the Trachinotus ovatus genome (designated as ToBMPs). Sequence alignment and phylogenetic analysis both indicated that the predicted amino acid sequences of ToBMP were highly conserved with corresponding homologs of other species. Moreover, a comparative analysis was performed with seven representative vertebrate genomes and found difference in number of BMP3 genes in different species, which three members, BMP3a, BMP3b-1, and BMP3b-2, existed in diploid T. ovatus, but there were four and two members in tetraploidized Cyprinus carpio (BMP3a-1, BMP3a-2, BMP3b-1, and BMP3b-2) and diploid Danio rerio (BMP3a and BMP3b), respectively. The amino acid alignment and genomic structure analysis of ToBMP3 also suggested that the BMP3 gene had expanded in T. ovatus. Furthermore, tissue expression patterns were assessed for the small intestine, liver, white muscle, brain, spleen, fin, gill, head kidney, stomach, blood, and gonads. It was discovered that BMP1, BMP2, BMP3a, BMP4, BMP6, BMP7b, BMP11, and BMP16 were ubiquitously expressed in all the tissues tested. To study the regulatory function of BMP in response to the intake of different types of food, the expression changes in BMP mRNAs were detected by qRT-PCR, and the results showed that the majority of the BMP genes had the highest mRNA levels in the small intestine and liver after ingesting pelleted feed. Our data provide a useful resource for further studies on how paralogous genes may have different expression profiles in T. ovatus.

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Funding

This study was supported by the Chinese Agriculture Research System (CARS-47), Guangdong Provincial Special Fund for Modern Agriculture Industry Technology Innovation Teams, the National Infrastructure of Fishery Germplasm Resources Project (2019DKA30470), and the Science and Technology Infrastructure Construction Project of Guangdong Province (2019B030316030).

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Authors and Affiliations

  1. College of Fisheries, Tianjin Agricultural University, Tianjin, 300384, China

    Jinhui Sun

  2. Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs; South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangdong Province, Guangzhou, China

    Kecheng Zhu, Huayang Guo, Nan Zhang, Shigui Jiang & Dianchang Zhang

  3. Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, 231 Xingang Road West, Haizhu District, Guangzhou, 510300, Guangdong Province, People’s Republic of China

    Kecheng Zhu, Huayang Guo, Nan Zhang, Shigui Jiang & Dianchang Zhang

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  1. Jinhui Sun
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  3. Huayang Guo
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  4. Nan Zhang
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Correspondence to Dianchang Zhang.

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All experiments were conducted with the criterion of National Institute of Health Guide and approved by the Research Ethics Committee, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.

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Sun, J., Zhu, K., Guo, H. et al. Genome-wide comparative analysis of bone morphogenetic proteins : genomic structure, phylogeny, and expression patterns in the golden pompano, Trachinotus ovatus (Linnaeus, 1758) . Fish Physiol Biochem 46, 345–358 (2020). https://doi.org/10.1007/s10695-019-00721-7

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