Chromosome-Level Genome Assembly and Transcriptome Comparison Analysis of Cephalopholis sonnerati and Its Related Grouper Species.
Chromosome-Level Genome Assembly and Transcriptome Comparison Analysis of Cephalopholis sonnerati and Its Related Grouper Species.
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粗头石斑鱼及其相关石斑鱼种染色体水平基因组组装和转录组比较分析
作者：
松花鱼是珊瑚礁生态系统中一种重要的海洋鱼类，具有巨大的商业价值。该物种因其复杂的社会结构和行为机制而成为优秀的研究模式。然而，由于缺乏基因组资源，该物种的分子遗传学研究和基因组育种仍未被探索。因此，获得更多的尖吻石斑鱼基因组序列，对石斑鱼的分类、进化、遗传学和生物学研究具有重要意义。在本研究中，我们首次组装了高质量的、染色体水平的松果锦鸡儿基因组，为进一步研究松果锦鸡儿的遗传保护、抗性育种和进化提供了宝贵的基因组资源。番茄鱼Cephalopholis sonnerati是一种底栖性珊瑚礁鱼类，广泛分布于印度洋、太平洋和红海。桑纳拉蒂还具有复杂的社会结构和行为机制。在这里，我们提出了一个高质量的，染色体水平的基因组组装，这是使用PacBio测序和Hi-C技术得出的。组装了1043.66 Mb基因组，N50长度为2.49Mb，产生了24条染色体的795个重叠群。总体而言，97.2%的完整BUSCO在基因组中被鉴定。共预测了26,130个蛋白质编码基因，其中94.26%进行了功能注释。进化分析表明，大约在4170万年前，松花龙与其共同的祖先lanceolatus和E.akaara发生了分化。此外，比较基因组分析表明，扩展的基因家族在感觉系统中高度丰富。最后，我们发现了8108个基因的组织特异性表达。我们发现这些组织特异性基因在大脑中高度丰富。总之，高质量的、染色体水平的参考基因组将为研究松材线虫的遗传保护、抗性育种和进化提供有价值的基因组资源。
C. sonnerati is an important marine fish species in coral reef ecosystems and has huge commercial value. This species serves as an excellent research model due to its complex social structures and behavior mechanisms. Nevertheless, owing to the lack of genomic resources, molecular genetic studies and genomic breeding remain unexplored in this species. Therefore, it is important to obtain more genome sequences of Cephalopholis grouper species for research on the classification, evolution, genetics, and biology of groupers. In the present study, we first assembled a high-quality, chromosome-level C. sonnerati genome, providing a valuable genome resource for further studies of the genetic conservation, resistance breeding, and evolution of C. sonnerati. The tomato hind, Cephalopholis sonnerati, is a bottom-dwelling coral reef fish, which is widely distributed in the Indo-Pacific and Red Sea. C. sonnerati also features complex social structures and behaviour mechanisms. Here, we present a high-quality, chromosome-level genome assembly for C. sonnerati that was derived using PacBio sequencing and Hi-C technologies. A 1043.66 Mb genome with an N50 length of 2.49 Mb was assembled, produced containing 795 contigs assembled into 24 chromosomes. Overall, 97.2% of the complete BUSCOs were identified in the genome. A total of 26,130 protein-coding genes were predicted, of which 94.26% were functionally annotated. Evolutionary analysis revealed that C. sonnerati diverged from its common ancestor with E. lanceolatus and E. akaara approximately 41.7 million years ago. In addition, comparative genome analyses indicated that the expanded gene families were highly enriched in the sensory system. Finally, we found the tissue-specific expression of 8108 genes. We found that these tissue-specific genes were highly enriched in the brain. In brief, the high-quality, chromosome-level reference genome will provide a valuable genome resource for studies of the genetic conservation, resistance breeding, and evolution of C. sonnerati.
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影响因子：
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作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
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