From asymmetrical to balanced genomic diversification during rediploidization: Subgenomic evolution in allotetraploid fish
From asymmetrical to balanced genomic diversification during rediploidization: Subgenomic evolution in allotetraploid fish
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再二倍化过程中从不对称到平衡的基因组多样性：异源四倍体鱼的亚基因组进化
DOI：
10.1126/sciadv.aaz7677
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发表时间：
2020-05-01
期刊：
影响因子：
13.6
通讯作者：
Zhang, Ya-ping
中科院分区：
文献类型：
--
作者：
Luo, Jing;Chai, Jing;Zhang, Ya-ping
一个持久的谜团是，与植物中的普遍性相比，动物中的多倍体非常罕见。虽然动物多倍体被认为在最初的多倍体化和随后的再二倍体化过程中经历有害的基因组混乱，但这一假设尚未得到验证。我们为异源四倍体金鱼提供了一个改进的参考质量从头基因组，其起源可追溯到1500万年前。综合分析确定的变化，在亚基因组进化的不对称振荡在金鱼和鲤鱼的多样性稳定和平衡的基因表达在连续的再二倍体化。同源物在大多数途径中共表达，并且它们的表达优势在胚胎发生过程中随时间发生变化。同源基因的表达与DNA甲基化的改变呈负相关。结果表明，异源四倍体鲤科鱼类有一个独特的策略，以平衡亚基因组的稳定性和多样化。这些鱼类的再二倍体化过程为研究异源多倍体脊椎动物的基因组进化和功能提供了有趣的见解。
A persistent enigma is the rarity of polyploidy in animals, compared to its prevalence in plants. Although animal polyploids are thought to experience deleterious genomic chaos during initial polyploidization and subsequent rediploidization processes, this hypothesis has not been tested. We provide an improved reference-quality de novo genome for allotetraploid goldfish whose origin dates to similar to 15 million years ago. Comprehensive analyses identify changes in subgenomic evolution from asymmetrical oscillation in goldfish and common carp to diverse stabilization and balanced gene expression during continuous rediploidization. The homoeologs are coexpressed in most pathways, and their expression dominance shifts temporally during embryogenesis. Homoeolog expression correlates negatively with alternation of DNA methylation. The results show that allotetraploid cyprinids have a unique strategy for balancing subgenomic stabilization and diversification. Rediploidization process in these fishes provides intriguing insights into genome evolution and function in allopolyploid vertebrates.