Abstract
With the proliferation of sequence data, great challenges are posed in the correct annotation of endogenous retroviruses, which together comprise up to ten per cent of the genomes of many organisms. It is therefore essential that all sources of information are carefully considered before drawing conclusions concerning the phylogeny, distribution and biological properties of endogenous retroviruses. We suggest that such due diligence has not been applied in the description of an endogenous ecotropic retrovirus that recently appeared in Retrovirology.
Highlights
With the proliferation of sequence data, great challenges are posed in the correct annotation of endogenous retroviruses, which together comprise up to ten per cent of the genomes of many organisms
Different inherited proviruses were defined by Southern hybridization analysis using an ecotropic murine leukemia virus-specific envelope gene probe and DNA from different mouse strains cut with several different restriction enzymes to yield a variety of virus-flanking sequence fragments
A number of genetic studies show that Emv2 maps to the distal region of mouse chromosome 8 http://www.informatics.jax.org/searches/mapdata_report_by_marker.cgi?8452, and whilst not yet annotated on the C57BL/6J reference genome assembly, its location can be ascertained by BLASTn searches of the genomic sequence with the pEco probe sequence
Summary
With the proliferation of sequence data, great challenges are posed in the correct annotation of endogenous retroviruses, which together comprise up to ten per cent of the genomes of many organisms. Different inherited proviruses were defined by Southern hybridization analysis using an ecotropic murine leukemia virus-specific envelope gene probe (pEco) and DNA from different mouse strains cut with several different restriction enzymes to yield a variety of virus-flanking sequence fragments.
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