@article{fdi:010041218,
  title = {{R}ecombination confounds the early evolutionary history of human immunodeficiency virus type 1 : {S}ubtype {G} is a circulating recombinant form},
  author = {{A}becasis, {A}. {B}. and {L}emey, {P}. and {V}idal, {N}icole and de {O}liveira, {T}. and {P}eeters, {M}artine and {C}amacho, {R}. and {S}hapiro, {B}. and {R}ambaut, {A}. and {V}andamme, {A}. {M}.},
  editor = {},
  language = {{ENG}},
  abstract = {{H}uman immunodeficiency virus type {I} ({HIV}-1) is classified in nine subtypes ({A} to {D}, {F}, {G}, {H}, {J}, and {K}), a number of subsubtypes, and several circulating recombinant forms ({CRF}s). {D}ue to the high level of genetic diversity within {HIV}-1 and to its worldwide distribution, this classification system is widely used in fields as diverse as vaccine development, evolution, epidemiology, viral fitness, and drug resistance. {H}ere, we demonstrate how the high recombination rates of {HIV}-1 may confound the study of its evolutionary history and classification. {O}ur data show that subtype {G}, currently classified as a pure subtype, has in fact a recombinant history, having evolved following recombination between subtypes {A} and {J} and a putative subtype {G} parent. {I}n addition, we find no evidence for recombination within one of the lineages currently classified as a {CRF}, {CRF}02 -{AG}. {O}ur analysis indicates that {CRF}02_{AG} was the parent of the recombinant subtype {G}, rather than the two having the opposite evolutionary relationship, as is currently proposed. {O}ur results imply that the current classification of {HIV}-1 subtypes and {CRF}s is an artifact of sampling history, rather than reflecting the evolutionary history of the virus. {W}e suggest a reanalysis of all pure subtypes and {CRF}s in order to better understand how high rates of recombination have influenced {HIV}-1 evolutionary history.},
  keywords = {},
  booktitle = {},
  journal = {{J}ournal of {V}irology},
  volume = {81},
  numero = {16},
  pages = {8543--8551},
  ISSN = {0022-538{X}},
  year = {2007},
  DOI = {10.1128/{JVI}.00463-07},
  URL = {https://www.documentation.ird.fr/hor/fdi:010041218},
}