Masu salmon species complex relationships and sex chromosomes revealed from analyses of the masu salmon (Oncorhynchus masou masou) genome assembly.

IF 2.1 3区生物学 Q3 GENETICS & HEREDITY G3: Genes|Genomes|Genetics Pub Date : 2024-11-28 DOI:10.1093/g3journal/jkae278

Kris A Christensen, Anne-Marie Flores, Jay Joshi, Kiko Shibata, Takafumi Fujimoto, Ben F Koop, Robert H Devlin

{"title":"Masu salmon species complex relationships and sex chromosomes revealed from analyses of the masu salmon (Oncorhynchus masou masou) genome assembly.","authors":"Kris A Christensen, Anne-Marie Flores, Jay Joshi, Kiko Shibata, Takafumi Fujimoto, Ben F Koop, Robert H Devlin","doi":"10.1093/g3journal/jkae278","DOIUrl":null,"url":null,"abstract":"<p><p>Masu salmon (Oncorhynchus masou) are the only Pacific salmon endemic to Asia. Some researchers prefer to categorize these salmon into four subspecies (masu - O. m. masou, amago - O. m. ishikawae, Biwa - O. m. subsp., and Formosan - O. m. formosanus), while others prefer individual species designations. Even though the masu salmon fishery is thousands of years old, classification of the diversity within the masu salmon species complex remains elusive. In this study, a genetic map and reference genome assembly were generated for one species/subspecies (masu) to provide resources for understanding the species complex. In O. m. masou, the sex chromosome was determined to be chromosome 7. Resequenced genomes from two other putative subspecies (amago and Biwa) provided evidence that they do not share the same sex chromosome. Principal component and admixture analyses clustered the amago and Biwa salmon close together. This supported previous findings of a close relationship between amago and Biwa salmon and a more distant relationship to masu salmon for both. Additional analyses of the masu salmon species complex will benefit from using the new reference genome assembly.</p>","PeriodicalId":12468,"journal":{"name":"G3: Genes|Genomes|Genetics","volume":" ","pages":""},"PeriodicalIF":2.1000,"publicationDate":"2024-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"G3: Genes|Genomes|Genetics","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1093/g3journal/jkae278","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}

引用次数: 0

Abstract

Masu salmon (Oncorhynchus masou) are the only Pacific salmon endemic to Asia. Some researchers prefer to categorize these salmon into four subspecies (masu - O. m. masou, amago - O. m. ishikawae, Biwa - O. m. subsp., and Formosan - O. m. formosanus), while others prefer individual species designations. Even though the masu salmon fishery is thousands of years old, classification of the diversity within the masu salmon species complex remains elusive. In this study, a genetic map and reference genome assembly were generated for one species/subspecies (masu) to provide resources for understanding the species complex. In O. m. masou, the sex chromosome was determined to be chromosome 7. Resequenced genomes from two other putative subspecies (amago and Biwa) provided evidence that they do not share the same sex chromosome. Principal component and admixture analyses clustered the amago and Biwa salmon close together. This supported previous findings of a close relationship between amago and Biwa salmon and a more distant relationship to masu salmon for both. Additional analyses of the masu salmon species complex will benefit from using the new reference genome assembly.

查看原文

微信好友朋友圈 QQ好友复制链接

本刊更多论文

通过分析马苏鲑（Oncorhynchus masou masou）基因组组装揭示马苏鲑物种复杂关系和性染色体。

马苏鲑（Oncorhynchus masou）是亚洲唯一特有的太平洋鲑鱼。一些研究人员倾向于将这些鲑鱼分为四个亚种（masu - O. m. masou、amago - O. m. ishikawae、Biwa - O. m. subsp.尽管马苏鲑渔业已有数千年的历史，但马苏鲑物种群的多样性分类仍然难以确定。本研究为一个物种/亚种（masu）绘制了遗传图谱和参考基因组组装图，为了解该物种群提供了资源。在 O. m. masou 中，性染色体被确定为 7 号染色体。对另外两个可能的亚种（amago 和 Biwa）的基因组进行重新测序，证明它们不共享同一条性染色体。主成分和掺杂分析将amago和Biwa鲑鱼聚集在一起。这支持了之前的研究结果，即 amago 和 Biwa 马哈鱼之间的关系密切，而与 masu 马哈鱼之间的关系较远。利用新的参考基因组进行更多的马苏鲑物种复合分析将获益匪浅。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文去求助

来源期刊

G3: Genes|Genomes|Genetics GENETICS & HEREDITY-

CiteScore

5.10

自引率

3.80%

发文量

305

审稿时长

3-8 weeks

期刊介绍： G3: Genes, Genomes, Genetics provides a forum for the publication of high‐quality foundational research, particularly research that generates useful genetic and genomic information such as genome maps, single gene studies, genome‐wide association and QTL studies, as well as genome reports, mutant screens, and advances in methods and technology. The Editorial Board of G3 believes that rapid dissemination of these data is the necessary foundation for analysis that leads to mechanistic insights. G3, published by the Genetics Society of America, meets the critical and growing need of the genetics community for rapid review and publication of important results in all areas of genetics. G3 offers the opportunity to publish the puzzling finding or to present unpublished results that may not have been submitted for review and publication due to a perceived lack of a potential high-impact finding. G3 has earned the DOAJ Seal, which is a mark of certification for open access journals, awarded by DOAJ to journals that achieve a high level of openness, adhere to Best Practice and high publishing standards.