High-resolution functional profiling of a gammaherpesvirus RTA locus in the context of the viral genome

Vaithilingaraja Arumugaswami, Ronika Sitapara, Seungmin Hwang, Moon Jung Song, Ngoc Ho Tuyet, Nancy Qi Su, Eric Y. Sue, Vidhya Kanagavel, Fangfang Xing, Xiaolin Zhang, Minglei Zhao, Hongyu Deng, Ting Ting Wu, Sudhakar Kanagavel, LuLu Zhang, Sugandha Dandekar, Jeanette Papp, Ren Sun

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

Gammaherpesviruses Kaposi's sarcoma-associated herpesvirus and Epstein-Barr virus are associated with multiple human cancers. Our goal was to develop a quantitative, high-throughput functional profiling system to identify viral cis-elements and protein subdomains critical for virus replication in the context of the herpesvirus genome. In gamma-2 herpesviruses, the transactivating factor RTA is essential for initiation of lytic gene expression and viral reactivation. We used the RTA locus as a model to develop the functional profiling approach. The mutant murine gammaherpesvirus 68 viral library, containing 15-bp random insertions in the RTA locus, was passaged in murine fibroblast cells for multiple rounds of selection. The effect of each 15-bp insertion was characterized using fluorescent-PCR profiling. We identified 1,229 insertions in the 3,845-bp RTA locus, of which 393, 282, and 554 were critically impaired, attenuated, and tolerated, respectively, for viral growth. The functional profiling phenotypes were verified by examining several individual RTA mutant clones for transactivating function of the RTA promoter and transcomplementing function of the RTA-null virus. Thus, the profiling approach enabled us to identify several novel functional domains in the RTA locus in the context of the herpesvirus genome. Importantly, our study has demonstrated a novel system to conduct high-density functional genetic mapping. The genome-scale expansion of the genetic profiling approach will expedite the functional genomics research on herpesvirus.

Original languageEnglish
Pages (from-to)1811-1822
Number of pages12
JournalJournal of Virology
Volume83
Issue number4
DOIs
Publication statusPublished - 2009 Feb 1

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Viral Genome
Herpesviridae
Genome
Human Herpesvirus 8
Virus Replication
Genomics
Human Herpesvirus 4
Libraries
Clone Cells
Fibroblasts
Viruses
Phenotype
Gene Expression
Polymerase Chain Reaction
Growth
Research
Neoplasms
Proteins

ASJC Scopus subject areas

  • Immunology
  • Virology

Cite this

High-resolution functional profiling of a gammaherpesvirus RTA locus in the context of the viral genome. / Arumugaswami, Vaithilingaraja; Sitapara, Ronika; Hwang, Seungmin; Song, Moon Jung; Tuyet, Ngoc Ho; Su, Nancy Qi; Sue, Eric Y.; Kanagavel, Vidhya; Xing, Fangfang; Zhang, Xiaolin; Zhao, Minglei; Deng, Hongyu; Wu, Ting Ting; Kanagavel, Sudhakar; Zhang, LuLu; Dandekar, Sugandha; Papp, Jeanette; Sun, Ren.

In: Journal of Virology, Vol. 83, No. 4, 01.02.2009, p. 1811-1822.

Research output: Contribution to journalArticle

Arumugaswami, V, Sitapara, R, Hwang, S, Song, MJ, Tuyet, NH, Su, NQ, Sue, EY, Kanagavel, V, Xing, F, Zhang, X, Zhao, M, Deng, H, Wu, TT, Kanagavel, S, Zhang, L, Dandekar, S, Papp, J & Sun, R 2009, 'High-resolution functional profiling of a gammaherpesvirus RTA locus in the context of the viral genome', Journal of Virology, vol. 83, no. 4, pp. 1811-1822. https://doi.org/10.1128/JVI.02302-08
Arumugaswami, Vaithilingaraja ; Sitapara, Ronika ; Hwang, Seungmin ; Song, Moon Jung ; Tuyet, Ngoc Ho ; Su, Nancy Qi ; Sue, Eric Y. ; Kanagavel, Vidhya ; Xing, Fangfang ; Zhang, Xiaolin ; Zhao, Minglei ; Deng, Hongyu ; Wu, Ting Ting ; Kanagavel, Sudhakar ; Zhang, LuLu ; Dandekar, Sugandha ; Papp, Jeanette ; Sun, Ren. / High-resolution functional profiling of a gammaherpesvirus RTA locus in the context of the viral genome. In: Journal of Virology. 2009 ; Vol. 83, No. 4. pp. 1811-1822.
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AU - Zhao, Minglei

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