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Genome Structure and Thymic Expression of an Endogenous Retrovirus in Zebrafish

Ching-Hung Shen and Lisa A. Steiner^*

Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139

Received 5 June 2003/ Accepted 3 October 2003

In a search for previously unknown genes that are required for lymphocyte development in zebrafish, a retroviral sequence was identified in a subtracted thymus cDNA library and in genomic DNA libraries. The provirus is 11.2 kb and contains intact open reading frames for the gag, pol, and env genes, as well as nearly identical flanking long terminal repeat sequences. As determined by in situ hybridization, the thymus appears to be a major tissue for retroviral expression in both larval and adult fish. Several viral transcripts were found by Northern blotting in the adult thymus. The provirus was found at the same genomic locus in sperm from four fish, suggesting that it is an endogenous retrovirus. Phylogenetic analysis indicates that it is closest to, yet distinct from, the cluster of murine leukemia virus-related retroviruses, suggesting that this virus represents a new group of retroviruses.

Present address: Center for Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139.

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