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Transcriptome Atlas of 16 Donkey Tissues

Donkeys (Equus asinus) are important livestock with great economic value in meat, skin, and milk production. However, a lack of knowledge of the transcriptome landscape across a wide range of donkey tissues limits genetic selective breeding and conservation. Here we used transcriptomics to describe...

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Autores principales: Wang, Yinan, Miao, Xinyao, Zhao, Zicheng, Wang, Yonghui, Li, Shuaicheng, Wang, Changfa
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8381363/
https://www.ncbi.nlm.nih.gov/pubmed/34434218
http://dx.doi.org/10.3389/fgene.2021.682734
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author Wang, Yinan
Miao, Xinyao
Zhao, Zicheng
Wang, Yonghui
Li, Shuaicheng
Wang, Changfa
author_facet Wang, Yinan
Miao, Xinyao
Zhao, Zicheng
Wang, Yonghui
Li, Shuaicheng
Wang, Changfa
author_sort Wang, Yinan
collection PubMed
description Donkeys (Equus asinus) are important livestock with great economic value in meat, skin, and milk production. However, a lack of knowledge of the transcriptome landscape across a wide range of donkey tissues limits genetic selective breeding and conservation. Here we used transcriptomics to describe the transcriptome landscape, classify the tissue-specific gene expression across all primary donkey tissues, and present supplementary analyses on the protein level of additional donkey milk samples. Overall, 16,013 protein-coding genes and 21,983 transcripts were mapped to the reference genome, including 6,778 ubiquitously expressed genes and 2,601 tissue-enriched genes. Functional analysis revealed that the function of the tissue-enriched genes was highly tissue specific. Tissue-elevated genes that could be associated with unique phenotypes in donkey were analyzed. The results showed that, compared with those in human and other livestock, the lysozyme gene in donkey breast was specifically and highly expressed. The calcium-binding lysozyme, encoded by the lysozyme gene, was also detected in high amounts in donkey milk. Given those intact lysozyme genes that predict potentially functional calcium-binding lysozyme found in only a few species (e.g., donkey and horse), the high expression of the lysozyme gene in donkey breast may contribute to the high lysozyme content in donkey milk. Furthermore, 71% of the proteins in donkey milk overlapped with human milk protein, higher than the overlapping rates of bovine, sheep, and swine with humans. The donkey transcriptomic resource contributes to the available genomic resources to interpret the molecular mechanisms underlying phenotype traits.
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spelling pubmed-83813632021-08-24 Transcriptome Atlas of 16 Donkey Tissues Wang, Yinan Miao, Xinyao Zhao, Zicheng Wang, Yonghui Li, Shuaicheng Wang, Changfa Front Genet Genetics Donkeys (Equus asinus) are important livestock with great economic value in meat, skin, and milk production. However, a lack of knowledge of the transcriptome landscape across a wide range of donkey tissues limits genetic selective breeding and conservation. Here we used transcriptomics to describe the transcriptome landscape, classify the tissue-specific gene expression across all primary donkey tissues, and present supplementary analyses on the protein level of additional donkey milk samples. Overall, 16,013 protein-coding genes and 21,983 transcripts were mapped to the reference genome, including 6,778 ubiquitously expressed genes and 2,601 tissue-enriched genes. Functional analysis revealed that the function of the tissue-enriched genes was highly tissue specific. Tissue-elevated genes that could be associated with unique phenotypes in donkey were analyzed. The results showed that, compared with those in human and other livestock, the lysozyme gene in donkey breast was specifically and highly expressed. The calcium-binding lysozyme, encoded by the lysozyme gene, was also detected in high amounts in donkey milk. Given those intact lysozyme genes that predict potentially functional calcium-binding lysozyme found in only a few species (e.g., donkey and horse), the high expression of the lysozyme gene in donkey breast may contribute to the high lysozyme content in donkey milk. Furthermore, 71% of the proteins in donkey milk overlapped with human milk protein, higher than the overlapping rates of bovine, sheep, and swine with humans. The donkey transcriptomic resource contributes to the available genomic resources to interpret the molecular mechanisms underlying phenotype traits. Frontiers Media S.A. 2021-08-09 /pmc/articles/PMC8381363/ /pubmed/34434218 http://dx.doi.org/10.3389/fgene.2021.682734 Text en Copyright © 2021 Wang, Miao, Zhao, Wang, Li and Wang. https://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
Wang, Yinan
Miao, Xinyao
Zhao, Zicheng
Wang, Yonghui
Li, Shuaicheng
Wang, Changfa
Transcriptome Atlas of 16 Donkey Tissues
title Transcriptome Atlas of 16 Donkey Tissues
title_full Transcriptome Atlas of 16 Donkey Tissues
title_fullStr Transcriptome Atlas of 16 Donkey Tissues
title_full_unstemmed Transcriptome Atlas of 16 Donkey Tissues
title_short Transcriptome Atlas of 16 Donkey Tissues
title_sort transcriptome atlas of 16 donkey tissues
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8381363/
https://www.ncbi.nlm.nih.gov/pubmed/34434218
http://dx.doi.org/10.3389/fgene.2021.682734
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