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One of the newly sequenced gag genes (BS72) was apparently derived through recombination between F2 and CRF36_cpx parental viruses, one of the nef genes was apparently derived through recombination between F and CRF22_01A1 parental viruses. The phylogenetic analysis of gag sequences derived from the Cameroonian samples further revealed four sequences (BS09, BS25, BS16 and BS42) situated on diverge
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F known clades. Although the majority of the outlier viruses found in our study were also URFs, they remained outliers after the removal of recombinant segments. It thus appears that these sequences represent viruses that are genuinely highly divergent and are possibly extant descendants of previously unknown early divergingTable 3 Inter and intraclade recombinantsSample ID BS02 BS09 BS11 BS13 BS2
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Equences previously identified as belonging to these known clades by constructing maximum likelihood trees from all available gag and nef sequences for each clade, and selecting one sequence from each of the up to ten most basal lineages from the root of these clades. Anonymously-donated HIV-infected blood units were collected between December 2006 and August 2007 from Yaound?Central Hospital, Cam
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Mpled sequences are likely CRF02_AG (accounting for 50 of HIV-1M infections), with the other "pure" subtypes (G, D, A, and F) and CRFs (CRF11_cpx, 36_cpx, 37_cpx, and CRF01_AE) accounting for the remainder of infections. CRF02_AG and clade G viruses are broadly distributed across west central Africa and have apparently been circulating stably there for many years [3,17-19], consistent with the pr
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Ibution of HIV-1 in CameroonSample ID BS01 BS02 BS03 BS04 BS05 BS06 BS09 BS10 BS11 BS12 BS13 BS14 BS16 BS18 BS19 BS20 BS21 BS22 BS23 BS24 BS25 BS26 BS27 BS29 BS30 BS31 BS32 BS35 BS38 BS39 BS40 BS42 BS43 BS44 BS45 BS46 BS47 BS48 BS49 BS50 BS51 BS53 BS54 BS55 gag gene CRF02_AG A-like G G CRF02_AG CRF02_AG CRF02_AG A1 CRF02_AG G CRF02_AG CRF02_AG CRF02_AG NDc CRF02_AG NDc CRF02_AG CRF02_AG CRF02_AG C
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Cias Zembe1, Eitel Mpoudi-Ngole2, Carolyn Williamson1,4 and Wendy A Burgers1*AbstractBackground: Cameroon, in west central Africa, has an extraordinary degree of HIV diversity, presenting a major challenge for the development of an effective HIV vaccine. Given the continuing need to closely monitor the emergence of new HIV variants in the country, we analyzed HIV-1 genetic diversity in 59 plasma s
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F known clades. Although the majority of the outlier viruses found in our study were also URFs, they remained outliers after the removal of recombinant segments. It thus appears that these sequences represent viruses that are genuinely highly divergent and are possibly extant descendants of previously unknown early divergingTable 3 Inter and intraclade recombinantsSample ID BS02 BS09 BS11 BS13 BS2