A FACS-based screen for retroviral silencing: a tool for detecting trans-sensing in mammalian cells

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Retroviruses are RNA viruses that infect cells and then become integrated into the genome of the infected cell. This property has been exploited in attempts to cure genetic diseases by replacing the defective gene: the replacement can be incorporated into the retrovirus, transported into a cell, and become part of the cell?s genetic material. However, retroviruses are frequently suppressed by the host cell some time after integration, so that their genetic information becomes silent. The factors that cause silencing of retroviruses are not well understood, but it is clear that this problem is a major impediment to retrovirus-based (and perhaps all) gene therapies. In a wide variety of organisms, including plants, flies, and yeast, it has been found that multiple copies of a gene can silence each other, a phenomenon termed cosuppression. Some reports suggest that this might happen in mammals as well. We have initiated a study of retroviral silencing, using a marker protein that produces green fluorescence as a model for the replaced gene. We find that the gene is usually silenced after integration, immediately or over time, but can be reactivated by drugs that demethylate DNA or alter chromosomal structure. We now propose to extend this work by doing a systematic analysis of the frequency of retroviral silencing in human T cells, and then to develop a system to detect and analyze cosuppression by retroviruses. This work will rely on the ability of fluorescence-activated cell sorting (FACS) to detect rare events in a large population of cells, and recover those rare cells. We will also test methods of destabilizing the silent state of a retrovirus. These experiments are likely to yield information that will benefit a broad array of gene replacement efforts. A demonstration of cosuppression would be particularly interesting because of the possibility that endogenous elements in the mammalian genome are regulated by this mechanism.