College of Fisheries, Key Lab of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education/Key Lab of Freshwater Animal Breeding, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei 430070, China; Engineering Research Center of Green development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education/Engineering Technology Research Center for Fish Breeding and Culture in Hubei Province, Wuhan 430070, China.
Hubei Key Laboratory of Agricultural Bioinformatics, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China.
Comp Biochem Physiol Part D Genomics Proteomics. 2021 Jun;38:100796. doi: 10.1016/j.cbd.2021.100796. Epub 2021 Feb 2.
Skeletogenesis is a complex process that requires a rigorous control at multiple levels during osteogenesis, such as signaling pathways and transcription factors. The skeleton among vertebrates is a highly conserved organ system, but teleost fish and mammals have evolved unique traits or have lost particular skeletal elements in each lineage. In present study, we constructed a skeletogenesis database containing 4101, 3715, 2996, 3300, 3719 and 3737 genes in Danio rerio, Oryzias latipes, Gallus gallus, Xenopus tropicalis, Mus musculus and Homo sapiens genome, respectively. Then, we found over 55% of the genes are conserved in the six species. Notably, there are 181 specific-genes in the human genome without orthologues in the other five genomes, such as the ZNF family (ZNF100, ZNF101, ZNF14, CALML6, CCL4L2, ZIM2, HSPA6, etc); and 31 genes are identified explicitly in fish species, which are mainly involved in TGF-beta, Wnt, MAPK, Calcium signaling pathways, such as bmp16, bmpr2a, eif4e1c, wnt2ba, etc. Particularly, there are 20 zebrafish-specific genes (calm3a, si:dkey-25li10, drd1a, drd7, etc) and one medaka-specific gene (c-myc17) that may alter skeletogenesis formation in the corresponding species. The database provides the new systematic genomic insights into skeletal development from teleosts to mammals, which may help to explain some of the complexities of skeletal phenotypes among different vertebrates and provide a reference for the treatment of skeletal diseases as well as for applications in the aquaculture industry.
骨发生是一个复杂的过程，在成骨过程中需要在多个水平上进行严格控制，如信号通路和转录因子。脊椎动物的骨骼是一个高度保守的器官系统，但硬骨鱼和哺乳动物在每个谱系中都进化出了独特的特征或失去了特定的骨骼元素。在本研究中，我们构建了一个包含斑马鱼、日本青鳉、鸡、非洲爪蟾、小鼠和人类基因组中 4101、3715、2996、3300、3719 和 3737 个基因的骨发生数据库。然后，我们发现这六个物种中有超过 55%的基因是保守的。值得注意的是，人类基因组中有 181 个特异性基因在其他五个基因组中没有同源基因，如 ZNF 家族（ZNF100、ZNF101、ZNF14、CALML6、CCL4L2、ZIM2、HSPA6 等）；在鱼类中明确鉴定出 31 个基因，主要涉及 TGF-β、Wnt、MAPK、钙信号通路，如 bmp16、bmpr2a、eif4e1c、wnt2ba 等。特别是，有 20 个斑马鱼特异性基因（calm3a、si:dkey-25li10、drd1a、drd7 等）和一个日本鳗鲡特异性基因（c-myc17）可能会改变相应物种的骨骼形成。该数据库为从硬骨鱼到哺乳动物的骨骼发育提供了新的系统基因组见解，这有助于解释不同脊椎动物骨骼表型的一些复杂性，并为骨骼疾病的治疗以及水产养殖行业的应用提供参考。
