Novel polymorphism at<i>KLF15</i>gene and its association with growth traits in Hu sheep

Zhai, Rui; Wang, Weimin; Zhang, Deyin; Li, Xiaolong; Zhang, Yukun; Zhao, Yuan; Zhao, Liming; Wang, Jianghui; Xu, Dan; Cheng, Jiangbo; Li, Wenxin; Zhou, Bubo; Lin, Changchun; Zeng, Xiwen; Yang, Xiaobin; Ma, Zongwu; Liu, Jia; Cui, Panpan; Zhang, Xiao Xue

doi:10.1080/10495398.2022.2138413

Cited by 3 publications

(2 citation statements)

References 33 publications

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“…To find significant associations between CNV-associated genes and solar radiation, we merged probe-based statistics from CNV calls into CNVRs ( Supplementary Table S16 ). Interestingly, we identified candidate genes such as HTT that play an important role in repairing damaged DNA [ 75 ], RUVBL1 for heat and parasite stress [ 76 ], SF1 and PHLDA2 for litter size and reproduction [ 29 ], SLC41A3 for immune responses [ 77 ], and KLF15 for growth-related traits [ 78 ] ( Supplementary Table S17 ). HTT is important in repairing DNA damage created by solar and UV radiation.…”

Section: Discussionmentioning

confidence: 99%

“…In agreement with previous studies, we found many significant CNVs that overlapped genes (e.g., PCDH15 , MAPK1 , DNAJB8 , and SHANK2 ) related to heat stress and metabolism ( Supplementary Table S19 ). Of the common CNVs and CNVRs obtained from more than one association test ( Supplementary Table S18 ), INPP5A and KLF15 were related to heat stress and production traits, respectively [ 78 , 91 ]. Our results indicated that genotype-by-environment interactions could have contributed to copy number status during adaptation to different environmental stress.…”

Section: Discussionmentioning

confidence: 99%

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Genomic Landscape of Copy Number Variations and Their Associations with Climatic Variables in the World’s Sheep

Salehian-Dehkordi

Huang

Pirany

et al. 2023

Genes

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Sheep show characteristics of phenotypic diversity and adaptation to diverse climatic regions. Previous studies indicated associations between copy number variations (CNVs) and climate-driven adaptive evolution in humans and other domestic animals. Here, we constructed a genomic landscape of CNVs (n = 39,145) in 47 old autochthonous populations genotyped at a set of high-density (600 K) SNPs to detect environment-driven signatures of CNVs using a multivariate regression model. We found 136 deletions and 52 duplications that were significantly (Padj. < 0.05) associated with climatic variables. These climate-mediated selective CNVs are involved in functional candidate genes for heat stress and cold climate adaptation (e.g., B3GNTL1, UBE2L3, and TRAF2), coat and wool-related traits (e.g., TMEM9, STRA6, RASGRP2, and PLA2G3), repairing damaged DNA (e.g., HTT), GTPase activity (e.g., COPG), fast metabolism (e.g., LMF2 and LPIN3), fertility and reproduction (e.g., SLC19A1 and CCDC155), growth-related traits (e.g., ADRM1 and IGFALS), and immune response (e.g., BEGAIN and RNF121) in sheep. In particular, we identified significant (Padj. < 0.05) associations between probes in deleted/duplicated CNVs and solar radiation. Enrichment analysis of the gene sets among all the CNVs revealed significant (Padj. < 0.05) enriched gene ontology terms and pathways related to functions such as nucleotide, protein complex, and GTPase activity. Additionally, we observed overlapping between the CNVs and 140 known sheep QTLs. Our findings imply that CNVs can serve as genomic markers for the selection of sheep adapted to specific climatic conditions.

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