Department of Ecology and Evolutionary Biology, University of California-Santa Cruz, Santa Cruz, CA, USA.
Department of Biomolecular Engineering, University of California-Santa Cruz, Santa Cruz, CA, USA.
J Hered. 2022 Nov 30;113(6):657-664. doi: 10.1093/jhered/esac034.
Surfperches (Family Embiotocidae) are viviparous temperate reef fishes that brood their young. This life history trait translates into limited dispersal, strong population structure, and an unusually strong potential for local adaptation in a marine fish. As part of the California Conservation Genomics Project (CCGP), we sequenced the genome of the Black Surfperch, Embiotoca jacksoni, to establish a genomic model for understanding phylogeographic patterns of marine organisms in California. These patterns, in turn, may inform the design of marine protected areas using dispersal models based on genomic data. The genome of E. jacksoni is typical of marine fishes at less than 1Gb (genome size = 635 Mb), and our assembly is near-chromosome level (contig N50 = 6.5Mb, scaffold N50 = 15.5 Mb, BUSCO = 98.1%). Within the context of the CCGP, the genome will be used as a reference for future whole genome resequencing projects aimed at enhancing our knowledge of the population structure of the species, and efficacy of Marine Protected Areas across the state.
拟翻车鱼科（Embiotocidae）是胎生温带礁鱼，它们孕育幼鱼。这种生活史特征转化为有限的扩散能力、强烈的种群结构以及海洋鱼类中异常强大的局部适应潜力。作为加利福尼亚保护基因组计划（CCGP）的一部分，我们对黑拟翻车鱼（Embiotoca jacksoni）进行了基因组测序，以建立一个理解加利福尼亚海洋生物系统地理模式的基因组模型。这些模式反过来又可以为基于基因组数据的扩散模型设计海洋保护区提供信息。E. jacksoni 的基因组小于 1Gb，典型的海洋鱼类基因组大小（基因组大小=635 Mb），我们的组装接近染色体水平（contig N50=6.5Mb，scaffold N50=15.5 Mb，BUSCO=98.1%）。在 CCGP 的背景下，该基因组将被用作未来全基因组重测序项目的参考，旨在增强我们对该物种种群结构的了解，并提高全州海洋保护区的效率。
