鉴定和分析感染禽传染性支气管炎冠状病毒的鸡巨噬细胞中的长非编码 RNA 和 mRNAs。

Identification and analysis of long non-coding RNAs and mRNAs in chicken macrophages infected with avian infectious bronchitis coronavirus.

机构信息

Key Laboratory of Bio-Resources and Eco-Environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610064, China.

Animal Disease Prevention and Food Safety Key Laboratory of Sichuan Province, Chengdu, 610064, China.

出版信息

BMC Genomics. 2021 Jan 20;22(1):67. doi: 10.1186/s12864-020-07359-3.

BACKGROUND

Avian infectious bronchitis virus (IBV) is a gamma coronavirus that severely affects the poultry industry worldwide. Long non-coding RNAs (lncRNAs), a subset of non-coding RNAs with a length of more than 200 nucleotides, have been recently recognized as pivotal factors in the pathogenesis of viral infections. However, little is known about the function of lncRNAs in host cultured cells in response to IBV infection.

RESULTS

We used next-generation high throughput sequencing to reveal the expression profiles of mRNAs and lncRNAs in IBV-infected HD11 cells. Compared with the uninfected cells, we identified 153 differentially expressed (DE) mRNAs (106 up-regulated mRNAs, 47 down-regulated mRNAs) and 181 DE lncRNAs (59 up-regulated lncRNAs, 122 down-regulated lncRNAs) in IBV-infected HD11 cells. Moreover, gene ontology (GO) and pathway enrichment analyses indicated that DE mRNAs and lncRNAs were mainly involved in cellular innate immunity, amino acid metabolism, and nucleic acid metabolism. In addition, 2640 novel chicken lncRNAs were identified, and a competing endogenous RNA (ceRNAs) network centered on gga-miR-30d and miR-146a-5p was established.

CONCLUSIONS

We identified expression profiles of mRNAs and lncRNAs during IBV infection that provided new insights into the pathogenesis of IBV.

背景

禽传染性支气管炎病毒（IBV）是一种冠状病毒，严重影响全球家禽业。长链非编码 RNA（lncRNA）是长度超过 200 个核苷酸的非编码 RNA 的一个子集，最近被认为是病毒感染发病机制中的关键因素。然而，lncRNA 在宿主培养细胞中对 IBV 感染的反应功能知之甚少。

结果

我们使用下一代高通量测序技术揭示了 IBV 感染 HD11 细胞后 mRNA 和 lncRNA 的表达谱。与未感染的细胞相比，我们在 IBV 感染的 HD11 细胞中鉴定出 153 个差异表达（DE）mRNA（106 个上调 mRNA，47 个下调 mRNA）和 181 个 DE lncRNA（59 个上调 lncRNA，122 个下调 lncRNA）。此外，基因本体（GO）和通路富集分析表明，DE mRNA 和 lncRNA 主要参与细胞固有免疫、氨基酸代谢和核酸代谢。此外，还鉴定出 2640 个新的鸡 lncRNA，并建立了以 gga-miR-30d 和 miR-146a-5p 为中心的竞争性内源 RNA（ceRNA）网络。