Genome-Wide Analysis of Allele-Specific Expression Patterns in Seventeen Tissues of Korean Cattle (Hanwoo)

The functional hemizygosity could be caused by the MAE of a given gene and it can be one of the sources to affect the phenotypic variation in cattle. We aimed to identify MAE genes across the transcriptome in Korean cattle (Hanwoo). For three Hanwoo family trios, the transcriptome data of 17 tissues...

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Bibliographic Details
Published in:Animals (Basel) 2019-10, Vol.9 (10), p.727
Main Authors: Lim, Kyu-Sang, Chang, Sun-Sik, Choi, Bong-Hwan, Lee, Seung-Hwan, Lee, Kyung-Tai, Chai, Han-Ha, Park, Jong-Eun, Park, Woncheoul, Lim, Dajeong
Format: Article
Language:English
Subjects:
allele-specific expression
Alleles
Animal sciences
Animal tissues
Animals
Cattle
Deoxyribonucleic acid
DNA
DNA binding proteins
Epigenetic inheritance
Epigenetics
Ethics
Gene expression
Gene regulation
Genes
Genetic aspects
Genetic regulation
Genome-wide association studies
Genomes
Genomics
Genotypes
hanwoo
Hemizygosity
Immune response
Livestock
Observations
Offspring
Phenotypic variations
Physiological aspects
Prejudice
RNA
RNA sequencing
rna-seq
Software
Studies
Technology
Transcription (Genetics)
Transcription factors
Zoology
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Summary:The functional hemizygosity could be caused by the MAE of a given gene and it can be one of the sources to affect the phenotypic variation in cattle. We aimed to identify MAE genes across the transcriptome in Korean cattle (Hanwoo). For three Hanwoo family trios, the transcriptome data of 17 tissues were generated in three offspring. Sixty-two MAE genes had a monoallelic expression in at least one tissue. Comparing genotypes among each family trio, the preferred alleles of 18 genes were identified (maternal expression, n = 9; paternal expression, n = 9). The MAE genes are involved in gene regulation, metabolic processes, and immune responses, and in particular, six genes encode transcription factors (FOXD2, FOXM1, HTATSF1, SCRT1, NKX6-2, and UBN1) with tissue-specific expression. In this study, we report genome-wide MAE genes in seventeen tissues of adult cattle. These results could help to elucidate epigenetic effects on phenotypic variation in Hanwoo.
ISSN:2076-2615
2076-2615
DOI:10.3390/ani9100727