基于 RNA-Seq 的定量和定性评估，探讨 I 型潜伏状态伯基特淋巴瘤细胞中的 EBV 转录。
Quantitative and qualitative RNA-Seq-based evaluation of Epstein-Barr virus transcription in type I latency Burkitt's lymphoma cells.
机构信息
Department of Pathology, Tulane University Health Sciences Center, 1430 Tulane Ave., New Orleans, LA 70112, USA.
出版信息
J Virol. 2010 Dec;84(24):13053-8. doi: 10.1128/JVI.01521-10. Epub 2010 Oct 13.
Abstract
RNA-seq provides a rich source of transcriptome information with high qualitative and quantitative value. Here, we provide a pipeline for Epstein-Barr virus (EBV) transcriptome analysis using RNA-seq and we apply it to two type I latency cell lines, Mutu I and Akata. This analysis revealed substantial average expression levels of many lytic genes in predominantly latent cell populations. The lytic transcripts BHLF1 and LF3 were expressed at levels greater than those for 98% of all cellular polyadenylated transcripts. Exon junction mapping accurately identified the Qp-derived EBNA1 splicing pattern, lytic gene splicing, and a complex splicing pattern within the BamHI A region.
摘要
RNA-seq 提供了丰富的转录组信息资源，具有高质量和高定量价值。在这里，我们提供了一个使用 RNA-seq 分析 Epstein-Barr 病毒 (EBV) 转录组的流程，并将其应用于两种 I 型潜伏期细胞系，Mutu I 和 Akata。这项分析揭示了在主要潜伏细胞群体中，许多裂解基因的平均表达水平相当高。裂解转录物 BHLF1 和 LF3 的表达水平高于所有细胞多聚腺苷酸化转录物的 98%。外显子连接映射准确地确定了 Qp 衍生的 EBNA1 剪接模式、裂解基因剪接以及 BamHI A 区的复杂剪接模式。
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