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Table 1 Detected ERV structural traits in the human and chicken genomes

From: Use of Endogenous Retroviral Sequences (ERVs) and structural markers for retroviral phylogenetic inference and taxonomy

Genome(s)1 Genus Class ERVs2 Gag-Pro f.s.3 Pro-Pol f.s.3 dUTPase4 C-term. motifs5
   (ERV)   -1 0 1 -1 0 1 (dUTPase Pro ) G-patch GPY/F
gg01 alpha   34 4 1 1 10 2 1 0 0 0
gg01 alpha-beta   67 5 2 0 5 3 1 21 0 0
gg01 and hg16 beta II 582 49 18 14 50 22 27 363 68 0
gg01 and hg16 gamma I 2069 14 55 13 32 64 43 0 0 264
gg01 and hg16 delta   (-)6 (-) (-) (-) (-) (-) (-) (-) (-) (-)
gg01 and hg16 epsilon   n.d.7 n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d.
gg01 and hg16 lenti   (-) (-) (-) (-) (-) (-) (-) (-) (-) (-)
gg01 and hg16 spuma-like III 193 n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d.
  1. 1 Human genome version 16 (hg16) and Chicken genome (gg01). Alpha and alpha-beta retroviruses were only detected in the chicken genome
  2. 2 Detected ERVs from the databank collection, with RetroTector© score >300 and recognized Pol puteins.
  3. 3 Predicted frameshift (f.s.) translation strategy between the respective putein ORFs in elements with score >1000, and no f.s. in the near 3'-end.
  4. 4 Detected dUTPase N-terminal of protease domain (dUTPasePro) in elements with score >300.
  5. 5 Detected C-terminal Pro (G-patch) and Pol (GPY/F) motifs elements with score >300.
  6. 6 (-): no delta or lentiviral ERVs were detected in the genomes.
  7. 7 (n.d.): not determined. The scarcity of epsilon like elements [19] and the highly mutated nature of both epsilon and spuma-like elements, in the human genome did not provide sufficient information to conduct a thorough analysis.