Mu Yinnan, Huo Jieying, Guan Yanyun, Fan Dingding, Xiao Xiaoqiang, Wei Jingguang, Li Qiuhua, Mu Pengfei, Ao Jingqun, Chen Xinhua
Institute of Oceanology, College of Animal Sciences, Fujian Agriculture and Forestry University, 350002, Fuzhou, China.
Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, State Oceanic Administration, 361005, Xiamen, China.
Commun Biol. 2018 Nov 16;1:195. doi: 10.1038/s42003-018-0207-3. eCollection 2018.
(large yellow croaker) is a type of perciform fish well known for its peculiar physiological properties and economic value. Here, we constructed an improved version of the genome assembly, which contained 26,100 protein-coding genes. Twenty-four pseudo-chromosomes of were also reconstructed, comprising 90% of the genome assembly. This improved assembly revealed several expansions in gene families associated with olfactory detection, detoxification, and innate immunity. Specifically, six hepcidin genes (LcHamps) were identified in , possibly resulting from lineage-specific gene duplication. All LcHamps possessed similar genomic structures and functional domains, but varied substantially with respect to expression pattern, transcriptional regulation, and biological function. LcHamp1 was associated specifically with iron metabolism, while LcHamp2s were functionally diverse, involving in antibacterial activity, antiviral activity, and regulation of intracellular iron metabolism. This functional diversity among gene copies may have allowed to adapt to diverse environmental conditions.
大黄鱼是一种鲈形目鱼类，以其独特的生理特性和经济价值而闻名。在此，我们构建了一个改进版的基因组组装体，其中包含26,100个蛋白质编码基因。还重建了24条假染色体，占基因组组装体的90%。这个改进后的组装体揭示了与嗅觉检测、解毒和先天免疫相关的基因家族的几次扩张。具体而言，在大黄鱼中鉴定出六个铁调素基因（LcHamps），可能是由于谱系特异性基因复制所致。所有LcHamps都具有相似的基因组结构和功能域，但在表达模式、转录调控和生物学功能方面有很大差异。LcHamp1与铁代谢特异性相关，而LcHamp2具有多种功能，涉及抗菌活性、抗病毒活性和细胞内铁代谢的调节。基因拷贝之间的这种功能多样性可能使大黄鱼能够适应不同的环境条件。
