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Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep

The number of vertebrae, especially thoracic vertebrae, is an important economic trait that may influence carcass length and meat production in animals. However, the genetic basis of vertebrae number in sheep is still poorly understood. To detect the candidate genes, 400 increased number of thoracic...

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Autores principales: Li, Cunyuan, Li, Ming, Li, Xiaoyue, Ni, Wei, Xu, Yueren, Yao, Rui, Wei, Bin, Zhang, Mengdan, Li, Huixiang, Zhao, Yue, Liu, Li, Ullah, Yaseen, Jiang, Yu, Hu, Shengwei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6657399/
https://www.ncbi.nlm.nih.gov/pubmed/31379930
http://dx.doi.org/10.3389/fgene.2019.00674
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author Li, Cunyuan
Li, Ming
Li, Xiaoyue
Ni, Wei
Xu, Yueren
Yao, Rui
Wei, Bin
Zhang, Mengdan
Li, Huixiang
Zhao, Yue
Liu, Li
Ullah, Yaseen
Jiang, Yu
Hu, Shengwei
author_facet Li, Cunyuan
Li, Ming
Li, Xiaoyue
Ni, Wei
Xu, Yueren
Yao, Rui
Wei, Bin
Zhang, Mengdan
Li, Huixiang
Zhao, Yue
Liu, Li
Ullah, Yaseen
Jiang, Yu
Hu, Shengwei
author_sort Li, Cunyuan
collection PubMed
description The number of vertebrae, especially thoracic vertebrae, is an important economic trait that may influence carcass length and meat production in animals. However, the genetic basis of vertebrae number in sheep is still poorly understood. To detect the candidate genes, 400 increased number of thoracic vertebrae (T14L6) and 200 normal (T13L6) Kazakh sheep were collected. We generated and sequenced 60 pools of genomic DNA (each pool prepared by mixing genomic DNA from 10 sheep with the same thoracic traits), with an average depth of coverage of 25.65×. We identified a total of 42,075,402 SNPs and 11 putatively selected genomic regions, including the VRTN gene and the HoxA gene family that regulate vertebral development. The most prominent areas of selective elimination were located in a region of chromosome 7, including VRTN, which regulates spinal development and morphology. Further investigation indicated that the expression level of the VRTN gene during fetal development was significantly higher in sheep with more thoracic vertebrae than in those with a normal number of thoracic vertebrae. A genome-wide comparison between sheep with increased and normal numbers of thoracic vertebrae showed that the VRTN gene is the major selection locus for the number of thoracic vertebrae in sheep and has the potential to be utilized in sheep breeding in the future.
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spelling pubmed-66573992019-08-02 Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep Li, Cunyuan Li, Ming Li, Xiaoyue Ni, Wei Xu, Yueren Yao, Rui Wei, Bin Zhang, Mengdan Li, Huixiang Zhao, Yue Liu, Li Ullah, Yaseen Jiang, Yu Hu, Shengwei Front Genet Genetics The number of vertebrae, especially thoracic vertebrae, is an important economic trait that may influence carcass length and meat production in animals. However, the genetic basis of vertebrae number in sheep is still poorly understood. To detect the candidate genes, 400 increased number of thoracic vertebrae (T14L6) and 200 normal (T13L6) Kazakh sheep were collected. We generated and sequenced 60 pools of genomic DNA (each pool prepared by mixing genomic DNA from 10 sheep with the same thoracic traits), with an average depth of coverage of 25.65×. We identified a total of 42,075,402 SNPs and 11 putatively selected genomic regions, including the VRTN gene and the HoxA gene family that regulate vertebral development. The most prominent areas of selective elimination were located in a region of chromosome 7, including VRTN, which regulates spinal development and morphology. Further investigation indicated that the expression level of the VRTN gene during fetal development was significantly higher in sheep with more thoracic vertebrae than in those with a normal number of thoracic vertebrae. A genome-wide comparison between sheep with increased and normal numbers of thoracic vertebrae showed that the VRTN gene is the major selection locus for the number of thoracic vertebrae in sheep and has the potential to be utilized in sheep breeding in the future. Frontiers Media S.A. 2019-07-18 /pmc/articles/PMC6657399/ /pubmed/31379930 http://dx.doi.org/10.3389/fgene.2019.00674 Text en Copyright © 2019 Li, Li, Li, Ni, Xu, Yao, Wei, Zhang, Li, Zhao, Liu, Ullah, Jiang and Hu http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Li, Cunyuan
Li, Ming
Li, Xiaoyue
Ni, Wei
Xu, Yueren
Yao, Rui
Wei, Bin
Zhang, Mengdan
Li, Huixiang
Zhao, Yue
Liu, Li
Ullah, Yaseen
Jiang, Yu
Hu, Shengwei
Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title_full Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title_fullStr Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title_full_unstemmed Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title_short Whole-Genome Resequencing Reveals Loci Associated With Thoracic Vertebrae Number in Sheep
title_sort whole-genome resequencing reveals loci associated with thoracic vertebrae number in sheep
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6657399/
https://www.ncbi.nlm.nih.gov/pubmed/31379930
http://dx.doi.org/10.3389/fgene.2019.00674
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