数字农科院2.0

Parallel subgenome structure and divergent expression evolution of allo-tetraploid common carp and goldfish

文献类型： 外文期刊

作者： Jiong Tang Li;Qi Wang;Mei Di Huang Yang;Qing Song Li;Ming Shu Cui;Zai Jie Dong;Hong Wei Wang;Ju Hua Yu;Yu Jie Zhao;Chen Ru Yang;Ya Xin Wang;Xiao Qing Sun;Yan Zhang;Ran Zhao;Zhi Ying Jia;Xi Yin Wang

作者机构：

期刊名称： Nature Genetics

ISSN： 1061-4036

年卷期： 2021 年 53.0 卷 10.0 期

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收录情况： JCR（2021版）

摘要： How two subgenomes in allo-tetraploids adapt to coexistence and coordinate through structure and expression evolution requires extensive studies. In the present study, we report an improved genome assembly of allo-tetraploid common carp, an updated genome annotation of allo-tetraploid goldfish and the chromosome-scale assemblies of a progenitor-like diploid Puntius tetrazona and an outgroup diploid Paracanthobrama guichenoti. Parallel subgenome structure evolution in the allo-tetraploids was featured with equivalent chromosome components, higher protein identities, similar transposon divergence and contents, homoeologous exchanges, better synteny level, strong sequence compensation and symmetric purifying selection. Furthermore, we observed subgenome expression divergence processes in the allo-tetraploids, including inter-/intrasubgenome trans-splicing events, expression dominance, decreased expression levels, dosage compensation, stronger expression correlation, dynamic functionalization and balancing of differential expression. The potential disorders introduced by different progenitors in the allo-tetraploids were hypothesized to be alleviated by increasing structural homogeneity and performing versatile expression processes. Resequencing three common carp strains revealed two major ecotypes and uncovered candidate genes relevant to growth and survival rate.

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