Couger Matthew B, Arévalo Lena, Campbell Polly
High Performance Computing Center.
Department of Integrative Biology, Oklahoma State University, Stillwater, OK 74078.
G3 (Bethesda). 2018 Jul 2;8(7):2145-2152. doi: 10.1534/g3.118.200318.
Genomic data for the closest relatives of house mice ( species complex) are surprisingly limited. Here, we present the first complete genome for a behaviorally and ecologically unique member of the sister clade to house mice, the mound-building mouse, Using read cloud sequencing and assembly we produced a 2.50 Gbp genome with a scaffold N50 of 2.27 Mbp. We constructed >25 000 gene models, of which the majority had high homology to other species. To evaluate the utility of the genome for behavioral and ecological genomics, we extracted 196 vomeronasal receptor (VR) sequences from our genome and analyzed phylogenetic relationships between VRs and orthologs from and the Algerian mouse, While most VRs clustered with orthologs in and , 10 VRs with evidence of rapid divergence in are strong candidate modulators of species-specific chemical communication. A high quality assembly and genome for will help to resolve discordant ancestry patterns in house mouse genomes, and will provide an essential foundation for genetic dissection of phenotypes that distinguish commensal from non-commensal species, and the social and ecological characteristics that make unique.
家鼠近缘种（物种复合体）的基因组数据极其有限。在此，我们公布了家鼠姐妹进化枝中一个行为和生态独特成员——筑丘鼠的首个完整基因组。通过读取云测序和组装，我们获得了一个25.0亿碱基对的基因组，支架N50为227万碱基对。我们构建了超过25000个基因模型，其中大多数与其他物种具有高度同源性。为评估该基因组在行为和生态基因组学方面的实用性，我们从基因组中提取了196个犁鼻器受体（VR）序列，并分析了这些VR与小家鼠和阿尔及利亚小鼠直系同源基因之间的系统发育关系。虽然大多数VR与小家鼠和阿尔及利亚小鼠的直系同源基因聚类在一起，但有证据表明在小家鼠中快速分化的10个VR是物种特异性化学通讯的有力候选调节因子。高质量的筑丘鼠组装基因组将有助于解决家鼠基因组中不一致的祖先模式问题，并为区分共生和非共生物种的表型以及使筑丘鼠独特的社会和生态特征的遗传剖析提供重要基础。
