柯萨奇病毒B组5型感染的人恶性胚胎横纹肌肉瘤细胞系lncRNA表达谱分析

doi:10.16352/j.issn.1001-6325.2022.01.011

基础医学与临床 ›› 2022, Vol. 42 ›› Issue (1): 68-74.doi: 10.16352/j.issn.1001-6325.2022.01.011

柯萨奇病毒B组5型感染的人恶性胚胎横纹肌肉瘤细胞系lncRNA表达谱分析

滕培英, 李静, 师玉露, 杨帆, 欧霞, 陈伟^*

昆明理工大学医学院, 云南昆明 650500

收稿日期:2021-05-18 修回日期:2021-11-04 出版日期:2022-01-05 发布日期:2022-01-05
通讯作者: ^* 55685836@qq.com
基金资助:
国家自然科学基金(81860357)

LncRNA expression profile in human malignant embryonic rhabdomyosarcoma cell line infected with Coxsackie virus group B type 5

TENG Pei-ying, LI Jing, SHI Yu-lu, YANG Fan, OU Xia, CHEN Wei^*

School of Medicine, Kunming University of Science and Technology, Kunming 650500, China

Received:2021-05-18 Revised:2021-11-04 Online:2022-01-05 Published:2022-01-05
Contact: ^* 55685836@qq.com

摘要/Abstract

摘要： 目的探索柯萨奇病毒B组5型(CVB5)感染人恶性胚胎横纹肌肉瘤细胞系(RD)中差异长链非编码RNA(lncRNA)表达谱,为研究CVB5与宿主之间相互作用分子机制提供参考。方法 CVB5按感染复数(MOI)为1接种RD细胞24 h后提取总RNA。采用转录组测序技术获取细胞中lncRNA差异表达谱;通过聚类分析、GO分析和KEGG通路富集对差异表达转录本进行了生物信息学分析。同时,利用RNAfold软件对lncRNA进行了二级结构预测。结果与对照组相比,CVB5感染RD细胞后,共有1 754个mRNAs和508个lncRNA呈上调表达,3 106个mRNAs和760个lncRNA呈下调表达。差异表达lncRNA的共表达基因主要富集在分子结构活性、蛋白质分子结合和体液免疫反应等生物过程;lncRNA靶基因主要参与嗅觉传导途径、细胞因子受体相互作用和神经活性配体受体相互作用等通路。此外,实时荧光定量PCR验证的7个差异表达lncRNA与测序结果一致。结论 CVB5感染RD细胞后,差异显著性lncRNA主要参与了免疫相关过程,为充分理解lncRNA在CVB5感染中的调控作用奠定了基础。

关键词: 转录组测序技术, 柯萨奇病毒B组5型, 长链非编码RNA, RD细胞, 表达谱

Abstract: Objective To explore the molecular mechanism of the interaction between Coxsackie virus group B type 5 (CVB5) and the host, The long non-coding RNA(lncRNA) expression profile in human malignant embryonic rhabdomyosarcoma cell line (RD) infected by CVB5 was investigated. Methods After 24 hours of infection with 1MOI CVB5 RNA was sampled and RNA-sequencing was used to identify the differential expression profile of lncRNA in the cells. Differentially expressed transcripts were analyzed by cluster analysis, GO analysis and KEGG pathway enrichment. At the same time, RNAfold was used to predict the secondary structure of lncRNA. Results Compared to the uninfected group, 1 754 mRNAs and 508 lncRNAs were up-regulated and 3 106 mRNAs/760 lncRNAs were down-regulated after CVB5 infection. Co-expressed genes that differentially express lncRNA were mainly enriched in biological processes such as molecular structure activity, protein molecular binding, and humoral immune response; lncRNA targets were mainly involved in olfactory transduction pathway, cytokine-cytokine receptors interaction, neuroactive ligand-receptor interaction and other pathways. In addition, the seven differen-tially expressed lncRNAs verified by quantitative real-time PCR (RT-qPCR) were consistent with the sequencing results. Conclusions lncRNA is mainly involved in the regulation of the immune processes, which lays the foundation for a full understanding of the regulatory role of lncRNA in CVB5 infection.

Key words: RNA sequencing, Coxsackie virus group B type 5, long non-coding RNA, RD cells, expression profile

中图分类号:

R373.2

滕培英, 李静, 师玉露, 杨帆, 欧霞, 陈伟. 柯萨奇病毒B组5型感染的人恶性胚胎横纹肌肉瘤细胞系lncRNA表达谱分析[J]. 基础医学与临床, 2022, 42(1): 68-74.

TENG Pei-ying, LI Jing, SHI Yu-lu, YANG Fan, OU Xia, CHEN Wei. LncRNA expression profile in human malignant embryonic rhabdomyosarcoma cell line infected with Coxsackie virus group B type 5[J]. Basic & Clinical Medicine, 2022, 42(1): 68-74.

参考文献

[1]Gullberg M,Tolf C,Jonsson N,et al. Characterization of a putative ancestor of coxsackievirus B5[J]. J Virol,2010,84: 9695-9708.
[2]Holmes CW,Koo SSF,Osman H,et al. Predominance of enterovirus B and echovirus 30 as cause of viral meningitis in a UK population[J]. J Clin Virol,2016,81:90-93.
[3]Liu N,Jia L,Yin J,et al. An outbreak of aseptic meningitis caused by a distinct lineage of coxsackievirus B5 in China[J]. Int J Infect Dis,2014,23:101-104.
[4]Kanae T,Chiharu M,Haruna N,et al. Coxsackievirus B5 aseptic meningitis in infants in chiba prefecture,Japan,in 2016[J]. J Nippon Med Sch,2018,85:187-190.
[5]Liu S,Liu X,Li J,et al. Long noncoding RNAs:novel regulators of virus-host interactions[J]. Rev Med Virol,2019,29:e2046.doi:10.1002/rmv.2046.
[6]Rinn JL,Chang HY. Genome regulation by long noncoding RNAs[J]. Annu Rev Biochem,2013,81:8-12.
[7]Basavappa M,Cherry S,Henao-Mejia J. Long noncoding RNAs and the regulation of innate immunity and host-virus interactions[J]. J Leukoc Biol,2019,106:83-93.
[8]Lin H, Jiang M, Liu L, et al. The long noncoding RNA lnczc3h7a promotes a TRIMZ5-mediated RIG-Ⅰ antiviral innete immunc response[J]. Nat Immunol,2019,20:812-823.
[9]Somensi N,Rabelo TK,Guimarães A,et al. Carvacrol suppresses LPS-induced pro-inflammatory activation in RAW 264.7 macrophages through ERK1/2 and NF-kB pathway[J]. Int Immunopharmacol,2019,70:105743-105750.
[10]Ji S,Zhu M,Zhang J,et al. Microarray analysis of lncRNA expression in rabies virus infected human neuroblastoma cells[J]. Infect Genet Evol,2019,67:88-100.
[11]Pan Q,Zhao Z,Liao Y,et al. Identification of an interferon-stimulated long noncoding RNA (lncRNA ISR) involved in regulation of influenza A virus replication[J]. Int J Mol Sci,2019,20:5118-5132.
[12]Li Y,Zhang C,Qin L,et al. Characterization of critical functions of long non-coding RNAs and mRNAs in rhabdomyosarcoma cells and mouse skeletal muscle infected by enterovirus 71 using RNA-Seq[J]. Viruses,2018,10:556-575.
[13]Shi Y,Tu H,Chen X,et al. The long non-coding RNA expression profile of Coxsackie virus A16 infected RD cells identified by RNA-seq[J]. Virol Sin,2016,31:131-141.
[14]Brown JA,Valenstein ML,Yario TA,et al. Formation of triple-helical structures by the 3'-end sequences of MALAT1 and MENβ noncoding RNAs[J]. Proc Natl Acad Sci U S A,2012,109:19202-19207.
[15]Zhang X,Rice K,Wang Y,et al. Maternally expressed gene 3 (MEG3) noncoding ribonucleic acid:isoform structure,expression,and functions[J]. Endocrinology,2010,151:939-947.

柯萨奇病毒B组5型感染的人恶性胚胎横纹肌肉瘤细胞系lncRNA表达谱分析

LncRNA expression profile in human malignant embryonic rhabdomyosarcoma cell line infected with Coxsackie virus group B type 5

PDF

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 15

编辑推荐

Metrics

本文评价

[1]	郑红, 陈晓霞, 韩李周, 陈苗, 皇甫娟. 降低lncRNA-RMRP表达抑制人肺癌细胞系A549的增殖和侵袭[J]. 基础医学与临床, 2024, 44(7): 974-978.
[2]	苏越, 梁琳慧, 何祥火. 长链非编码RNA亚细胞定位和功能的研究进展[J]. 基础医学与临床, 2023, 43(10): 1580-1584.
[3]	邱立彬, 张新才, 赵倩. LncRNA DANCR靶向miR-3646减轻缺氧诱导的大鼠心肌细胞系H9c2的损伤[J]. 基础医学与临床, 2023, 43(1): 144-151.
[4]	刘磊, 李世宝, 张好良. 沉默lnc-SLC2A12-10:1抑制人胃癌细胞系AGS增殖、迁移和侵袭[J]. 基础医学与临床, 2022, 42(7): 1071-1076.
[5]	郝相楠, 栾军军, 马聪, 张旖骁, 周华. 过表达miR-150的肾小管上皮细胞系HK-2中lncRNA的表达谱[J]. 基础医学与临床, 2022, 42(7): 1013-1019.
[6]	谢利华, 杨奇, 李雅倩, 谢心悦, 雷诗娟, 周琳. 转录因子Kaiso下调人乳腺癌细胞系中lncRNA MEG3的表达[J]. 基础医学与临床, 2022, 42(5): 758-762.
[7]	杨晔, 党荣广, 张静, 董超, 宋雪晶. 肺癌组织中lncRNA ZFAS1和hsa-miR-372-3p的表达与患者恶性特征及预后的关系[J]. 基础医学与临床, 2022, 42(12): 1861-1866.
[8]	赵俞乔, 苏志雷, 崔云甫, 关沧海, 姜兴明. 恶性肿瘤中HOTAIRM1的调控作用及机制[J]. 基础医学与临床, 2021, 41(2): 262-266.
[9]	胡雪停, 吴晓凤, 徐祥. 长链非编码RNA lnc-DC的生物信息学分析与验证[J]. 基础医学与临床, 2020, 40(10): 1328-1334.
[10]	范琳媛, 李红凌. 长链非编码RNAs调控骨稳态研究进展[J]. 基础医学与临床, 2020, 40(1): 115-119.
[11]	孟哲颖胡兵陈翠曹洪丽王静怡申锷. 高糖致心肌细胞肥大的长链非编码RNA表达谱分析[J]. 基础医学与临床, 2019, 39(7): 937-942.
[12]	林小聪李宁张宇明符伟玉张海涛蔡安季. 成人急性B淋巴细胞白血病全基因组miRNA表达谱及其染色体分布[J]. 基础医学与临床, 2017, 37(10): 1395-1400.
[13]	汤鸿超孟旭莉. 乳腺癌相关长链非编码RNA的研究进展[J]. 基础医学与临床, 2016, 36(12): 1738-1742.
[14]	江澈王伟民. 长链非编码RNA ANRIL的研究进展[J]. 基础医学与临床, 2015, 35(10): 1419-1423.
[15]	李武县梁勤东董晋豫王秦戴勇涂植光徐勇. 唐氏综合征胎儿全基因组miRNA表达谱特征及其染色体分布[J]. 基础医学与临床, 2013, 33(8): 935-940.