Whole-genome scan for selection signature associated with temperature adaptation in Iranian sheep breeds

被引:0
|
作者
Patiabadi, Zahra [1 ]
Razmkabir, Mohammad [1 ]
Koshkoiyeh, Ali Esmailizadeh [2 ]
Moradi, Mohammad Hossein [3 ]
Rashidi, Amir [1 ]
Mahmoudi, Peyman [1 ]
机构
[1] Univ Kurdistan, Fac Agr, Dept Anim Sci, Sanandaj, Iran
[2] Shahid Bahonar Univ Kerman, Fac Agr, Dept Anim Sci, Kerman, Iran
[3] Univ Arak, Fac Agr, Dept Anim Sci, Arak, Iran
来源
PLOS ONE | 2024年 / 19卷 / 08期
基金
美国国家科学基金会;
关键词
TUMOR-SUPPRESSOR GENE; CLIMATE-CHANGE; UBIQUITIN LIGASE; PROTEIN; FOXN1; ION; DIFFERENTIATION; TRAFFICKING; ACTIVATION; EXPRESSION;
D O I
10.1371/journal.pone.0309023
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The present study aimed to identify the selection signature associated with temperature adaptation in Iranian sheep breeds raised in cold and hot environments. The Illumina HD ovine SNP600K BeadChip genomic arrays were utilized to analyze 114 animals from eight Iranian sheep breeds, namely Ghezel, Afshari, Shall, Sanjabi, Lori-Bakhtiari, Karakul, Kermani, and Balochi. All animals were classified into two groups: cold-weather breeds and hot-weather breeds, based on the environments to which they are adapted and the regions where they have been raised for many years. The unbiased FST (Theta) and hapFLK tests were used to identify the selection signatures. The results revealed five genomic regions on chromosomes 2, 10, 11, 13, and 14 using the FST test, and three genomic regions on chromosomes 10, 14, and 15 using the hapFLK test to be under selection in cold and hot groups. Further exploration of these genomic regions revealed that most of these regions overlapped with genes previously identified to affect cold and heat stress, nervous system function, cell division and gene expression, skin growth and development, embryo and skeletal development, adaptation to hypoxia conditions, and the immune system. These regions overlapped with QTLs that had previously been identified as being associated with various important economic traits, such as body weight, skin color, and horn characteristics. The gene ontology and gene network analyses revealed significant pathways and networks that distinguished Iranian cold and hot climates sheep breeds from each other. We identified positively selected genomic regions in Iranian sheep associated with pathways related to cell division, biological processes, cellular responses to calcium ions, metal ions and inorganic substances. This study represents the initial effort to identify selective sweeps linked to temperature adaptation in Iranian indigenous sheep breeds. It may provide valuable insights into the genomic regions involved in climate adaptation in sheep.
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页数:17
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