Comprehensive genome and transcriptome analyses reveal genetic relationship, selection signature, and transcriptome landscape of small-sized Korean native Jeju horse
| Autor: | Chai Han Ha, Heebal Kim, Jong-Eun Park, Woncheoul Park, Krishnamoorthy Srikanth, Youn Chul Ryu, Jin Wu Nam, Jaemin Kim, Kyung Tai Lee, Dajeong Lim, Gul Won Jang, Jun-Mo Kim, Kwondo Kim, Jung-Woo Choi, Nam-Young Kim, Ju Hwan Son |
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| Rok vydání: | 2019 |
| Předmět: |
Agricultural genetics
0301 basic medicine Population lcsh:Medicine Single-nucleotide polymorphism Genetic relationship Breeding Biology Polymorphism Single Nucleotide Genome Article 03 medical and health sciences Korean Native Republic of Korea Animals Horses Selection Genetic Author Correction lcsh:Science education Gene education.field_of_study Multidisciplinary Comparative genomics Gene Expression Profiling lcsh:R 0402 animal and dairy science 04 agricultural and veterinary sciences Phenotypic trait 040201 dairy & animal science SNP genotyping Genetics Population Phenotype 030104 developmental biology Evolutionary biology lcsh:Q Structural variation Transcriptome |
| Zdroj: | Scientific Reports, Vol 9, Iss 1, Pp 1-16 (2019) Scientific Reports |
| ISSN: | 2045-2322 |
| DOI: | 10.1038/s41598-019-53102-8 |
| Popis: | The Jeju horse, indigenous to the Jeju Island in Korea may have originated from Mongolian horses. Adaptations to the local harsh environment have conferred Jeju horse with unique traits such as small-sized body, stocky head, and shorter limbs. These characteristics have not been studied previously at the genomic level. Therefore, we sequenced and compared the genome of 41 horses belonging to 6 breeds. We identified numerous breed-specific non-synonymous SNPs and loss-of-function mutants. Demographic and admixture analyses showed that, though Jeju horse is genetically the closest to the Mongolian breeds, its genetic ancestry is independent of that of the Mongolian breeds. Genome wide selection signature analysis revealed that genes such as LCORL, MSTN, HMGA2, ZFAT, LASP1, PDK4, and ACTN2, were positively selected in the Jeju horse. RNAseq analysis showed that several of these genes were also differentially expressed in Jeju horse compared to Thoroughbred horse. Comparative muscle fiber analysis showed that, the type I muscle fibre content was substantially higher in Jeju horse compared to Thoroughbred horse. Our results provide insights about the selection of complex phenotypic traits in the small-sized Jeju horse and the novel SNPs identified will aid in designing high-density SNP chip for studying other native horse breeds. |
| Databáze: | OpenAIRE |
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