@article{fdi:010080153,
  title = {{S}ingle {R}eal-{T}ime {R}everse {T}ranscription-{PCR} assay for detection and quantification of genetically diverse {HIV}-1, {SIV}cpz, and {SIV}gor strains},
  author = {{E}tienne, {L}. and {E}ymard-{D}uvernay, {S}abrina and {A}ghokeng {F}obang, {A}velin and {B}utel, {C}hristelle and {M}onleau, {M}. and {P}eeters, {M}artine},
  editor = {},
  language = {{ENG}},
  abstract = {{A}lthough antiretroviral treatment availability has improved, the virological monitoring of patients remains largely uneven across regions. {I}n addition, viral quantification tests are suffering from human immunodeficiency virus type 1 ({HIV}-1) genetic diversity, fueled by the emergence of new recombinants and of lentiviruses from nonhuman primates. {W}e developed a real-time reverse transcription-{PCR} ({RT}-{PCR}) assay that is relatively inexpensive and able to detect and quantify all circulating forms of {HIV}-1 and its simian immunodeficiency virus ({SIV}) precursors, {SIV}cpz and {SIV}gor. {P}rimers and a probe were designed to detect all variants of the {HIV}-1/{SIV}cpz/{SIV}gor lineage. {HIV}-1 {M} plasma (n = 190; 1.68 to 7.78 log(10) copies/ml) representing eight subtypes, nine circulating recombinant forms, and 21 unique recombinant forms were tested. {T}he mean {PCR} efficiency was 99%, with low coefficients of intra-and interassay variation (<5%) and a limit of quantification of <2.50 log(10) copies/ml, with a 200-mu l plasma volume. {O}n the studied range, the specificity and the analytical sensitivity were 100 and 97.4%, respectively. {T}he viral loads were highly correlated (r = 0.95, {P} < 0.0001) with the reference method (generic {HIV} assay; {B}iocentric) and had no systematic difference, irrespective of genotype. {F}urthermore, 22 {HIV}-1 {O} plasmas were screened and were better quantified compared to the gold-standard {R}eal{T}ime {HIV}-1 assay ({A}bbott), including four samples that were only quantified by our assay. {F}inally, we could quantify {SIV}cpz{P}tt and {SIV}cpz{P}ts from chimpanzee plasma (n = 5) and amplify {SIV}cpz and {SIV}gor from feces. {T}hus, the newly developed real-time {RT}-{PCR} assay detects and quantifies strains from the {HIV}-1/{SIV}cpz/{SIV}gor lineage, including a wide diversity of group {M} strains and {HIV}-1 {O}. {I}t can therefore be useful in geographical areas of high {HIV} diversity and at risk for the emergence of new {HIV} variants.},
  keywords = {},
  booktitle = {},
  journal = {{J}ournal of {C}linical {M}icrobiology},
  volume = {51},
  numero = {3},
  pages = {787--798},
  ISSN = {0095-1137},
  year = {2013},
  DOI = {10.1128/jcm.02792-12},
  URL = {https://www.documentation.ird.fr/hor/fdi:010080153},
}