Comparative Genomics Reveal Phylogenetic Relationship and Chromosomal Evolutionary Events of Eight Cervidae Species

文献类型： 外文期刊

第一作者： Tang, Lixin

作者： Tang, Lixin;Dong, Shiwu;Xing, Xiumei

作者机构：

关键词： comparative genomic; Cervidae; phylogenetic relationship; chromosomal evolutionary events

期刊名称：ANIMALS （ 影响因子：3.0； 五年影响因子：3.2 ）

ISSN： 2076-2615

年卷期： 2024 年 14 卷 7 期

页码：

收录情况： SCI

摘要： Simple Summary Cervidae represents a substantial family within the Artiodactyla, yet their phylogenetic relationship has not been fully clarified due to limited data available. With the increasing availability of genomic data, there is now an opportunity to further explore their phylogenetic relationship. In our study, we employed a comparative genomics approach focusing on the chromosome-level genomes of eight Cervidae species to explore their phylogenetic relationship and chromosomal evolutionary events. Furthermore, we conducted an analysis of gene families to identify those potentially involved in adaptive evolution.Abstract Cervidae represents a family that is not only rich in species diversity but also exhibits a wide range of karyotypes. The controversies regarding the phylogeny and classification of Cervidae still persist. The flourishing development of the genomic era has made it possible to address these issues at the genomic level. Here, the genomes of nine species were used to explore the phylogeny and chromosomal evolutionary events of Cervidae. By conducting whole-genome comparisons, we identified single-copy orthologous genes across the nine species and constructed a phylogenetic tree based on the single-copy orthologous genes sequences, providing new insights into the phylogeny of Cervidae, particularly the phylogenetic relationship among sika deer, red deer, wapiti and Tarim red deer. Gene family analysis revealed contractions in the olfactory receptor gene family and expansions in the histone gene family across eight Cervidae species. Furthermore, synteny analysis was used to explore the chromosomal evolutionary events of Cervidae species, revealing six chromosomal fissions during the evolutionary process from Bovidae to Cervidae. Notably, specific chromosomal fusion events were found in four species of Cervus, and a unique chromosomal fusion event was identified in Muntiacus reevesi. Our study further completed the phylogenetic relationship within the Cervidae and demonstrated the feasibility of inferring species phylogeny at the whole-genome level. Additionally, our findings on gene family evolution and the chromosomal evolutionary events in eight Cervidae species lay a foundation for comprehensive research of the evolution of Cervidae.

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