Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions
Altitudinal adaptation is a key factor in species formation and leads to increased species diversity. Chickens are one of the most widely distributed and important domesticated species, making them ideal models for studying the evolution of altitudinal adaptation. Therefore, we downloaded and analyz...
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MDPI AG
2025-01-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/15/2/265 |
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| author | Yizhou Hu Xing Li Qixin Guo Lan Huang Hao Bai Guobin Chang |
| author_facet | Yizhou Hu Xing Li Qixin Guo Lan Huang Hao Bai Guobin Chang |
| author_sort | Yizhou Hu |
| collection | DOAJ |
| description | Altitudinal adaptation is a key factor in species formation and leads to increased species diversity. Chickens are one of the most widely distributed and important domesticated species, making them ideal models for studying the evolution of altitudinal adaptation. Therefore, we downloaded and analyzed the total genome data of 160 individual chickens from seven sampling regions at two different altitudes (>3000 m and <600 m). In total, 21,672,487 high-quality single-nucleotide polymorphisms were selected and used for subsequent analyses. First, we interpreted the genetic relationships among chickens from different sampling regions using a neighbor-joining tree, population structure, and four dimensionality reduction methods. We found that 38 genes were significantly associated with altitudinal adaptations by <i>F</i><sub>ST</sub> and θπ. Functional annotation of the genes showed that they are primarily involved in energy metabolism, ion channel activity, and blood pressure regulation. Our results provide evidence of genetic diversity among different chicken breeds and reveal the mechanisms of adaptation to high altitudes. |
| format | Article |
| id | doaj-art-a1e561dc2ebf4156baf72d13b8c98e06 |
| institution | Kabale University |
| issn | 2076-2615 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj-art-a1e561dc2ebf4156baf72d13b8c98e062025-01-24T13:18:21ZengMDPI AGAnimals2076-26152025-01-0115226510.3390/ani15020265Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different RegionsYizhou Hu0Xing Li1Qixin Guo2Lan Huang3Hao Bai4Guobin Chang5Key Laboratory of Animal Genetics and Breeding and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, ChinaKey Laboratory of Animal Genetics and Breeding and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, ChinaKey Laboratory of Animal Genetics and Breeding and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, ChinaKey Laboratory of Animal Genetics and Breeding and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, ChinaJoint International Research Laboratory of Agriculture and Agri-Product Safety, The Ministry of Education of China, Institutes of Agricultural Science and Technology Development, Yangzhou University, Yangzhou 225009, ChinaKey Laboratory of Animal Genetics and Breeding and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, ChinaAltitudinal adaptation is a key factor in species formation and leads to increased species diversity. Chickens are one of the most widely distributed and important domesticated species, making them ideal models for studying the evolution of altitudinal adaptation. Therefore, we downloaded and analyzed the total genome data of 160 individual chickens from seven sampling regions at two different altitudes (>3000 m and <600 m). In total, 21,672,487 high-quality single-nucleotide polymorphisms were selected and used for subsequent analyses. First, we interpreted the genetic relationships among chickens from different sampling regions using a neighbor-joining tree, population structure, and four dimensionality reduction methods. We found that 38 genes were significantly associated with altitudinal adaptations by <i>F</i><sub>ST</sub> and θπ. Functional annotation of the genes showed that they are primarily involved in energy metabolism, ion channel activity, and blood pressure regulation. Our results provide evidence of genetic diversity among different chicken breeds and reveal the mechanisms of adaptation to high altitudes.https://www.mdpi.com/2076-2615/15/2/265genome sequencingaltitudinal adaptationchicken |
| spellingShingle | Yizhou Hu Xing Li Qixin Guo Lan Huang Hao Bai Guobin Chang Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions Animals genome sequencing altitudinal adaptation chicken |
| title | Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions |
| title_full | Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions |
| title_fullStr | Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions |
| title_full_unstemmed | Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions |
| title_short | Genome Sequencing Reveals the Adaptation of Chickens to High Altitudes in Different Regions |
| title_sort | genome sequencing reveals the adaptation of chickens to high altitudes in different regions |
| topic | genome sequencing altitudinal adaptation chicken |
| url | https://www.mdpi.com/2076-2615/15/2/265 |
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