Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids
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 alterna...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Science Press, PR China
2019-07-01
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| Series: | Zoological Research |
| Subjects: | |
| Online Access: | http://www.zoores.ac.cn/EN/abstract/abstract3955.shtml |
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doaj-8ac2231c4b1241c48908f0391ede52a1 |
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Article |
| collection |
DOAJ |
| language |
English |
| format |
Article |
| sources |
DOAJ |
| author |
Yu Wang Shan Gao Yue Zhao Wei-Huang Chen Jun-Jie Shao Ni-Ni Wang Ming Li Guang-Xian Zhou Lei Wang Wen-Jing Shen Jing-Tao Xu Wei-Dong Deng Wen Wang Yu-Lin Chen Yu Jiang |
| spellingShingle |
Yu Wang Shan Gao Yue Zhao Wei-Huang Chen Jun-Jie Shao Ni-Ni Wang Ming Li Guang-Xian Zhou Lei Wang Wen-Jing Shen Jing-Tao Xu Wei-Dong Deng Wen Wang Yu-Lin Chen Yu Jiang Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids Zoological Research Allele-specific alternative splicing Allele-specific expression Cis-regulatory elements Hybrid species |
| author_facet |
Yu Wang Shan Gao Yue Zhao Wei-Huang Chen Jun-Jie Shao Ni-Ni Wang Ming Li Guang-Xian Zhou Lei Wang Wen-Jing Shen Jing-Tao Xu Wei-Dong Deng Wen Wang Yu-Lin Chen Yu Jiang |
| author_sort |
Yu Wang |
| title |
Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| title_short |
Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| title_full |
Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| title_fullStr |
Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| title_full_unstemmed |
Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| title_sort |
allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids |
| publisher |
Science Press, PR China |
| series |
Zoological Research |
| issn |
2095-8137 2095-8137 |
| publishDate |
2019-07-01 |
| description |
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. |
| topic |
Allele-specific alternative splicing Allele-specific expression Cis-regulatory elements Hybrid species |
| url |
http://www.zoores.ac.cn/EN/abstract/abstract3955.shtml |
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doaj-8ac2231c4b1241c48908f0391ede52a12020-11-24T21:54:55ZengScience Press, PR ChinaZoological Research2095-81372095-81372019-07-0140429330410.24272/j.issn.2095-8137.2019.042Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybridsYu Wang0Shan Gao1Yue Zhao2Wei-Huang Chen3Jun-Jie Shao4Ni-Ni Wang5Ming Li6Guang-Xian Zhou7 Lei Wang8Wen-Jing Shen9Jing-Tao Xu10Wei-Dong Deng11Wen Wang12Yu-Lin Chen13Yu Jiang14Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaStake Key Laboratory of Plateau Ecology and Agriculture, Qinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining Qinghai 810016, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, ChinaStake Key Laboratory of Plateau Ecology and Agriculture, Qinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining Qinghai 810016, ChinaFaculty of Animal Science and Technology, Yunnan Agricultural University, Kunming Yunnan 650223, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling Shaanxi 712100, ChinaDivergence 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.http://www.zoores.ac.cn/EN/abstract/abstract3955.shtmlAllele-specific alternative splicingAllele-specific expressionCis-regulatory elementsHybrid species |