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利用全反刍动物基因组 SNP 数据集进行影响奶牛性状的 miRNA 变异的计算机识别。

In silico identification of variations in microRNAs with a potential impact on dairy traits using whole ruminant genome SNP datasets.

机构信息

Université Paris-Saclay, INRAE, AgroParisTech, GABI, 78350, Jouy-en-Josas, France.

Sigenae, INRAE, 31326, Castanet-Tolosan, France.

出版信息

Sci Rep. 2021 Oct 1;11(1):19580. doi: 10.1038/s41598-021-98639-9.

DOI:10.1038/s41598-021-98639-9
PMID:34599210
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8486775/
Abstract

MicroRNAs are small noncoding RNAs that have important roles in the lactation process and milk biosynthesis. Some polymorphisms have been studied in various livestock species from the perspective of pathology or production traits. To target variants that could be the causal variants of dairy traits, genetic variants of microRNAs expressed in the mammary gland or present in milk and localized in dairy quantitative trait loci (QTLs) were investigated in bovine, caprine, and ovine species. In this study, a total of 59,124 (out of 28 millions), 13,427 (out of 87 millions), and 4761 (out of 38 millions) genetic variants in microRNAs expressed in the mammary gland or present in milk were identified in bovine, caprine, and ovine species, respectively. A total of 4679 of these detected bovine genetic variants are located in dairy QTLs. In caprine species, 127 genetic variants are localized in dairy QTLs. In ovine species, no genetic variant was identified in dairy QTLs. This study leads to the detection of microRNA genetic variants of interest in the context of dairy production, taking advantage of whole genome data to identify microRNA genetic variants expressed in the mammary gland and localized in dairy QTLs.

摘要

微小 RNA 是一类小的非编码 RNA，在泌乳过程和乳生物合成中发挥重要作用。一些多态性已从病理学或生产性状的角度在各种家畜物种中进行了研究。为了针对可能是乳性状的因果变异的变体，对牛、山羊和绵羊物种乳腺中表达或存在于乳中且定位于乳定量性状位点 (QTL) 的微小 RNA 的遗传变异进行了研究。在这项研究中，共鉴定出牛、山羊和绵羊乳腺中表达或存在于乳中的微小 RNA 的 59124 个（2800 万中的）、13427 个（8700 万中的）和 4761 个（3800 万中的）遗传变异。在牛中，这些检测到的 4679 个遗传变异位于乳 QTL 中。在山羊中，127 个遗传变异位于乳 QTL 中。在绵羊中，未在乳 QTL 中鉴定出遗传变异。这项研究在乳生产背景下检测到了与乳生产相关的微小 RNA 遗传变异，利用全基因组数据鉴定了乳腺中表达且定位于乳 QTL 的微小 RNA 遗传变异。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/67e7c242b233/41598_2021_98639_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/0b1ed869b05a/41598_2021_98639_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/f158bb13c400/41598_2021_98639_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/ba04c58cd0a6/41598_2021_98639_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/defa935fd714/41598_2021_98639_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/67e7c242b233/41598_2021_98639_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/0b1ed869b05a/41598_2021_98639_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/f158bb13c400/41598_2021_98639_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/ba04c58cd0a6/41598_2021_98639_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/defa935fd714/41598_2021_98639_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ae43/8486775/67e7c242b233/41598_2021_98639_Fig5_HTML.jpg

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