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Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids.


ABSTRACT: Divergence of gene expression and alternative splicing is a crucial driving force in the evolution of species; to date, however the molecular mechanism remains unclear. Hybrids of closely related species provide a suitable model to analyze allele-specific expression (ASE) and allele-specific alternative splicing (ASS). Analysis of ASE and ASS can uncover the differences in cis-regulatory elements between closely related species, while eliminating interference of trans-regulatory elements. Here, we provide a detailed characterization of ASE and ASS from 19 and 10 transcriptome datasets across five tissues from reciprocal-cross hybrids of horse×donkey (mule/hinny) and cattle×yak (dzo), respectively. Results showed that 4.8%-8.7% and 10.8%-16.7% of genes exhibited ASE and ASS, respectively. Notably, lncRNAs and pseudogenes were more likely to show ASE than protein-coding genes. In addition, genes showing ASE and ASS in mule/hinny were found to be involved in the regulation of muscle strength, whereas those of dzo were involved in high-altitude adaptation. In conclusion, our study demonstrated that exploration of genes showing ASE and ASS in hybrids of closely related species is feasible for species evolution research.

SUBMITTER: Wang Y 

PROVIDER: S-EPMC6680129 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature

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Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids.

Wang Yu Y   Gao Shan S   Zhao Yue Y   Chen Wei-Huang WH   Shao Jun-Jie JJ   Wang Ni-Ni NN   Li Ming M   Zhou Guang-Xian GX   Wang Lei L   Shen Wen-Jing WJ   Xu Jing-Tao JT   Deng Wei-Dong WD   Wang Wen W   Chen Yu-Lin YL   Jiang Yu Y  

Zoological research 20190603 4


Divergence of gene expression and alternative splicing is a crucial driving force in the evolution of species; to date, however the molecular mechanism remains unclear. Hybrids of closely related species provide a suitable model to analyze allele-specific expression (ASE) and allele-specific alternative splicing (ASS). Analysis of ASE and ASS can uncover the differences in <i>cis</i>-regulatory elements between closely related species, while eliminating interference of <i>trans-</i>regulatory el  ...[more]

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