The decline of human endogenous retroviruses: extinction and survival

Retrovirology

Table 1 Comparison of age of loci among catarrhine genomes

Species	Number of young loci ^a (0–6.6my)	Number of old loci ^b (6.6–31.6my)	Ratio of young to old loci
Human	40	568	0.070
Bonobo	62	589	0.105
Chimpanzee	50	362	0.138
Gorilla	26	197	0.132
Orangutan	13	200	0.065
Gibbon	13	156	0.083
Macaque	76	145	0.524
Baboon^c	171	633	0.270

^aLoci estimated to have integrated since the human-chimp divergence, 6.6mya. Age of locus calculated using our paired LTR method with a substitution rate of 1.0x10⁻⁹ substitutions per nucleotide per year and a Jukes-Cantor correction for multiple hits.
^bLoci estimated to have integrated between the human-chimp and the human-macaque divergence, 31.6mya.
^cWe could not find the LTRs of most loci in the poorly assembled baboon genome and therefore dated loci using our approximate nearest neighbor method.

ISSN: 1742-4690