Uh oh. VIRAL NOMENCLATURE WAR!!!
Chimpanzee vs Crocodile!!!
Its gonna be a THROWDOWN!!!
… Or we can just read a neat open-access article about ERVs in crocodiles
Specifically, Crocodylus porosu, saltwater crocodiles, one of the many terrifying creatures that inhabits Australia.
They used PCR to fish around the genomes of 47 crocs from all over Northern Australia for the gag-pol portion of some ERVs. They successfully got sequences from all the animals, more from the group CERV2 (spumavirus-related. really! those are oddballs) than CERV1 (gammaretroviruses).
They got 227 sequences, 176 of which were novel DNA CERV sequences. And, unsurprisingly, these sequences appeared to be undergoing ‘purifying selection’, aka ‘negative selection’. Aint nobody wants ERVs in their genome, so the ones that *are* there, are decaying via nonsense mutations/stop codons/etc. CERV2s are probably older than CERV1s, as the stops and such were more conserved in the CERV2 group. While they might not code for functional CERVs (they did not sequence entire ERV genomes to determine whether the entire sequences were present and absent lethal mutations), they think that the CERV1s might be young enough that they are still replicating/reinserting as ERVs (‘reinfecting’ their host cell without ever leaving their host cell), rather than exogenous agents.
An unexpectedly interesting part of this paper:
Furthermore, studies into the nucleotide substitution rate of crocodilian nuclear and mitochondrial sequences suggest that this is much lower in crocodilians than in most other vertebrates [24-27]. Thus, degenerate ERV sequences are likely to accumulate changes at a slower rate in crocodilians than most other vertebrate species, leading to a low level of host lineage specific evolution, as well as low levels of lineage differentiation.
Ha! Crocodiles have a low genomic and mitochondrial mutation rate than we are accustomed to, which means that their ERVs would not mutate as much either! People who study CERVs need to be careful of how they calculate things– crocodiles molecular clocks are… slow. HA!