Expression of novel long noncoding RNAs defines virus-specific effector and memory CD8+ T cells

William H. Hudson, Nataliya Prokhnevska, Julia Gensheimer, Rama Akondy, Donald J. McGuire, Rafi Ahmed and Haydn T. Kissick ()
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William H. Hudson: Emory University School of Medicine
Nataliya Prokhnevska: Emory University School of Medicine
Julia Gensheimer: Emory University School of Medicine
Rama Akondy: Emory University School of Medicine
Donald J. McGuire: Emory University School of Medicine
Rafi Ahmed: Emory University School of Medicine
Haydn T. Kissick: Emory University School of Medicine

Nature Communications, 2019, vol. 10, issue 1, 1-11

Abstract: Abstract In response to viral infection, CD8+ T cells undergo expansion and differentiate into distinct classes of effector cells. After clearance of the virus, a small population of long-lived memory cells persists. Comprehensive studies have defined the protein-coding transcriptional changes associated with this process. Here we expand on this prior work by performing RNA-sequencing to identify changes in long noncoding RNA (lncRNA) expression in human and mouse CD8+ T cells responding to viral infection. We identify hundreds of unannotated lncRNAs and show that expression profiles of both known and novel lncRNAs are sufficient to define naive, effector, and memory CD8+ T cell subsets, implying that they may be involved in fate decisions during antigen-driven differentiation. Additionally, in comparing mouse and human lncRNA expression, we find that lncRNAs with conserved sequence undergo similar changes in expression in the two species, suggesting an evolutionarily conserved role for lncRNAs during CD8+ T cell differentiation.

Date: 2019
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DOI: 10.1038/s41467-018-07956-7

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