RNA 测序揭示了长非编码 RNA 介导的鸡羽毛生长变化的非孟德尔遗传。

RNA sequencing reveals lncRNA-mediated non-mendelian inheritance of feather growth change in chickens.

机构信息

Animal Breeding and Genetics Key Laboratory of Sichuan Province, Sichuan Animal Science Academy, 7 Niusha Road, 610066, Chengdu, China.

Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Xinkang Road, 610066, Chengdu, China.

出版信息

Genes Genomics. 2022 Nov;44(11):1323-1331. doi: 10.1007/s13258-022-01304-2. Epub 2022 Sep 10.

DOI:10.1007/s13258-022-01304-2

PMID:36087248

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9569315/

Abstract

BACKGROUND

Long non-coding RNAs (lncRNAs) play an essential role in biological processes. However, the expression patterns of lncRNAs that regulate the non-Mendelian inheritance feather phenotypes remain unknown.

OBJECTIVE

This study aimed to compare the expression profiles of lncRNAs in the follicles of the late-feathering cocks (LC) and late-feathering hens (LH) that followed genetic rules and the early-feathering hen (EH) and early-feathering cock (EC) that did not conform to the genetic laws.

METHODS

We performed RNA sequencing and investigated the differentially expressed lncRNAs (DElncRNAs) between the early- and late-feathering chickens, which function by cis-acting or participate in the competing endogenous RNA (ceRNA) network.

RESULTS

A total of 53 upregulated and 43 downregulated lncRNAs were identified in EC vs. LC, and 58 upregulated and 109 downregulated lncRNAs were identified in EH vs. LH. The target mRNAs regulated by lncRNAs in cis were enriched in the pentose phosphate pathway, TGF-β signaling pathway and Jak-STAT signaling pathway in EC vs. LC and were associated with the TGF-β signaling pathway, Wnt signaling pathway, p53 signaling pathway and Jak-STAT signaling pathway in EH vs. LH. In addition, the lncRNA-mediated ceRNA regulatory pathways of hair follicle formation were mainly enriched in the TGF-β signaling pathway, Wnt signaling pathway, melanogenesis, and calcium signaling pathways. The levels of ENSGALG00000047626 were significantly higher in the late-feathering chickens than in the early-feathering chickens, which regulated the expression of SSTR2 by gga-miR-1649-5p.

CONCLUSION

This study provides a novel molecular mechanism of lncRNA's response to the feather rate that does not conform to the genetic laws in chickens.

摘要

背景

长非编码 RNA（lncRNA）在生物过程中发挥着重要作用。然而，调节非孟德尔遗传羽毛表型的 lncRNA 的表达模式尚不清楚。

目的

本研究旨在比较遵循遗传规律的晚羽公鸡（LC）和晚羽母鸡（LH）与不符合遗传规律的早羽母鸡（EH）和早羽公鸡（EC）的卵泡中 lncRNA 的表达谱。

方法

我们进行了 RNA 测序，并研究了早羽和晚羽鸡之间差异表达的 lncRNA（DElncRNA），这些 lncRNA 通过顺式作用或参与竞争内源性 RNA（ceRNA）网络发挥作用。

结果

在 EC 与 LC 中，共鉴定到 53 个上调和 43 个下调的 lncRNA，在 EH 与 LH 中，共鉴定到 58 个上调和 109 个下调的 lncRNA。顺式调控 lncRNA 的靶 mRNAs 在 EC 与 LC 中富集于戊糖磷酸途径、TGF-β 信号通路和 Jak-STAT 信号通路，在 EH 与 LH 中与 TGF-β 信号通路、Wnt 信号通路、p53 信号通路和 Jak-STAT 信号通路相关。此外，lncRNA 介导的毛发生长 ceRNA 调控途径主要富集于 TGF-β 信号通路、Wnt 信号通路、黑色素生成和钙信号通路。在晚羽鸡中，ENSGALG00000047626 的水平明显高于早羽鸡，其通过gga-miR-1649-5p 调节 SSTR2 的表达。