Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip
Autor: | Chunnian Liang, Xian Guo, Linsen Zan, Wu Xiaoyun, Min Chu, Chen Li, Wang Hongbo, Ping Yan, Jie Pei, Congjun Jia, Xuezhi Ding, Bao Pengjia |
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Jazyk: | angličtina |
Rok vydání: | 2019 |
Předmět: |
0106 biological sciences
DNA Copy Number Variations lcsh:QH426-470 lcsh:Biotechnology Quantitative Trait Loci Biology Polymorphism Single Nucleotide 01 natural sciences Genome 03 medical and health sciences lcsh:TP248.13-248.65 Genetic variation Genetics Animals Economic traits Copy-number variation Gene Oligonucleotide Array Sequence Analysis 030304 developmental biology 0303 health sciences High altitude adaptation Copy number variation Chromosome Mapping Illunima BovineHD BeadChip YAK Phenotype Polled yak lcsh:Genetics Cattle Female Adaptation DNA microarray Research Article 010606 plant biology & botany Biotechnology |
Zdroj: | BMC Genomics, Vol 20, Iss 1, Pp 1-14 (2019) BMC Genomics |
ISSN: | 1471-2164 |
Popis: | Background Copy number variations (CNVs), which are genetic variations present throughout mammalian genomes, are a vital source of phenotypic variation that can lead to the development of unique traits. In this study we used the Illunima BovineHD BeadChip to conduct genome-wide detection of CNVs in 215 polled yaks. Results A total of 1066 CNV regions (CNVRs) were detected with a total length of 181.6 Mb, comprising ~ 7.2% of the bovine autosomal genome. The size of these CNVRs ranged from 5.53 kb to 1148.45 kb, with an average size of 170.31 kb. Eight out of nine randomly chosen CNVRs were successfully validated by qPCR. A functional enrichment analysis of the CNVR-associated genes indicated their relationship to a number of molecular adaptations that enable yaks to thrive at high altitudes. One third of the detected CNVRs were mapped to QTLs associated with six classes of economically important traits, indicating that these CNVRs may play an important role in variations of these traits. Conclusions Our genome-wide yak CNV map may thus provide valuable insights into both the molecular mechanisms of high altitude adaptation and the potential genomic basis of economically important traits in yak. Electronic supplementary material The online version of this article (10.1186/s12864-019-5759-1) contains supplementary material, which is available to authorized users. |
Databáze: | OpenAIRE |
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