Single cell virology
Interest in single cell 'omics has exploded in recent years with increased technical feasibility and lower costs to sequence thousands of individual cells. To date, few studies have applied these technologies to cases of intracellular infection where it has been shown that individual cells respond in much more complex ways than at population level. It has even been postulated that observing individual cells' reaction to infection could yield novel insights valuable to entire field of virology - e.g. identifying subpopulations of cells that survive cytopathic infection and revealing viral quasispecies dynamics.
We have recently designed a technique to adapt a popular single cell sequencing technique to capture viral RNAs along with the host transcriptome. We applied the technique to capture transcripts during the infection cycle of mammalian orthoreovirus.