Liu Bo, Zhou Zhixiong, Bai Yulin, Yang Junyi, Shi Yue, Pu Fei, Xu Peng
Fisheries Research Institute of Fujian, Xiamen, China.
Fujian Key Laboratory of Genetics and Breeding of Marine Organisms, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China.
Front Genet. 2021 Feb 22;12:625600. doi: 10.3389/fgene.2021.625600. eCollection 2021.
As a typical marine adaptive radiation species, most species are widely distributed in East Asian offshore, which have diversified morphological characteristics and different ecological habits. The phylogenetic relationship and population structure of the species was complicated because of incomplete lineage sorting, widespread hybridization and introgression. Therefore, to systematically clarify the phylogenetic relationships of genus, explore the introgression and natural hybridization between different species, and detect the selective signatures in the adaptive evolution of diversified traits, whole-genome resequencing was used in 122 samples from 10 species. Phylogenetic analysis showed solid sister-group relationships between and , , and , , and , , and . Further admixture analysis indicated the divergence of population and the bidirectional gene flow between and . Using species-specific homozygous genetic variance sites, we detected the asymmetric introgression between and at China East sea and southern Taiwan Strait. By genome-scale genetic diversity scanning, we detected two copies of , and related to the semilunar reproduction rhythm in , involved in memory formation, embryo maturation and female reproduction. Furthermore, we also found lots of specific mutations in CDS region of circadian rhythm related genes and endocrine hormone genes. For species, our research provides reliable genetic resources and results for the phylogeny, introgression, hybridization and adaptive evolution, and could be used as a guide for the formulation of the protection and proliferation release policies.
作为典型的海洋适应性辐射物种，大多数物种广泛分布于东亚近海，具有多样化的形态特征和不同的生态习性。由于不完全谱系分选、广泛杂交和基因渐渗，该物种的系统发育关系和种群结构较为复杂。因此，为了系统阐明该属的系统发育关系，探索不同物种间的基因渐渗和自然杂交情况，并检测多样化性状适应性进化中的选择信号，我们对来自10个物种的122个样本进行了全基因组重测序。系统发育分析表明，[具体物种A]与[具体物种B]、[具体物种C]与[具体物种D]、[具体物种E]与[具体物种F]、[具体物种G]与[具体物种H]之间存在可靠的姐妹群关系。进一步的混合分析表明了[具体种群]的分化以及[具体物种A]与[具体物种B]之间的双向基因流。利用物种特异性纯合遗传变异位点，我们在中国东海和台湾海峡南部检测到了[具体物种A]与[具体物种B]之间的不对称基因渐渗。通过全基因组尺度的遗传多样性扫描，我们在[具体物种]中检测到与半月繁殖节律相关的两个[具体基因A]、[具体基因B]和[具体基因C]拷贝，它们参与记忆形成、胚胎成熟和雌性繁殖。此外，我们还在昼夜节律相关基因和内分泌激素基因的编码区发现了许多[具体物种]特异性突变。对于[具体物种]，我们的研究为系统发育、基因渐渗、杂交和适应性进化提供了可靠的遗传资源和结果，并可为保护和增殖放流政策的制定提供指导。
