Identification And Naming Of New Prevalent HIV-1 CRF01＿AE/B/C Recombinant Genotype And Their Recombination Evolutionary Characteristics In Yunnan Province

AIDS is considered a syndromic disease,namely acquired immunodeficiency syndrome(AIDS),which represents the most severe form of human immunodeficiency virus(HIV)infection,of which HIV-1 has the greatest impact on the human world.As HIV-1 subtypes co-transmit and continue to recombine with each other,more and more unique recombinant types(URFs)and prevalent recombinant types(CRFs)are being discovered frequently.137 CRFs have been identified,and more will be discovered in the future.With the introduction of HIV-1into Yunnan from different pathways,together with its special geographical location and its complex demographic characteristics,Yunnan became the earliest region where the HIV-1 epidemic occurred,and the region is by default the center of HIV-1exchange,Yunnan is undoubtedly the most complex and diverse region of HIV-1genotypes in China.Most of the CRFs formed by CRF01AE/B/C recombination have been found in Yunnan in recent years(4 of 8 reported in HIV Database),and most of these CRFs have extremely complex mosaic structures that play an influential role in treatment and may lead to an increased risk of treatment failure.However,do new forms of CRFs formed by CRF01AE/B/C recombination currently exist in Yunnan?What are their recombination characteristics and their recombination evolution patterns? There are still relatively few relevant reports,based on which,in this thesis,we elaborate on the prevalent characteristics of the genotypes of 6157 HIV-1 samples collected during 2019-2022,and from which we screen,characterize the recombination characteristics of CRFs composed of CRF01AE/B/C and their recombination evolution patterns.In this study,we collected plasma samples from a total of 6157 HIV-1 patients in Yunnan Province from 2019-2022 and obtained the genetic sequences of the viral pol region(nearly 1.2 kb)for genotyping,and from the overall results of typing,CRF01＿AE accounted for 13.89%(855/6157);CRF07＿BC accounted for 3.51%(216/6157);CRF08＿BC accounted for 11.61%;CRF86＿BC accounted for only 0.01%(1/6157),CRF55＿01B accounted for only 0.38%(24/6157);subtype B accounted for2.25%(139/6157);subtype C accounted for 7.83%(482/6157);suspected URF＿B/C accounted for The proportion of suspected URF＿CRF01＿AE/B was 47.70%(2937/6157),0.97%(60/6157)of suspected URF＿CRF01AE/B/C and 11.82%(728/6157)of suspected URF＿CRF01AE/B/C.Currently,CRF01＿AE,CRF07＿BC,CRF08＿BC,subtype B,and subtype C,URF＿B/C,and URF＿CRF01AE/B/C are the driving force of HIV-1 prevalence in Yunnan,especially URF＿B/C(genotype is very likely to be related to CRF08＿BC,CRF07＿BC)has a super high prevalence,and with time development,CRF08＿BC replaced the prevalence of CRF07＿BC.Based on the typing results,we screened a total of 728 samples with genotypes suspected to be caused by CRF01＿AE/B/C recombination,of which 516 samples obtained the gene sequence of pol-gag region(nearly 2.6 kb),and after genotyping of pol-gag region as well as recombination analysis,we newly identified 4 groups of CRFs and 1 URF in a total of 17 samples,and after their near full-length gene After amplification and recombination analysis,CRF138＿cpx,CRF139＿cpx,CRF140＿cpx and CRF141＿0107were identified as the prevalent recombinant types in Yunnan,and URF＿H52 was a unique recombinant type in Yunnan.The recombinant structures of CRF138＿cpx,CRF139＿cpx and URF＿H52 have super high similarity,all of them have 3 fragments of CRF01＿AE as their backbone,4 fragments of pure subtype C and 1 fragment of pure subtype B inserted,and the recombinant structures of all regions have super high similarity except for the fragment size of pure subtype C inserted in the pol region.CRF140＿cpx has a 5 fragment pure subtype B backbone with 4 fragments of pure subtype C and 2 fragments of CRF01＿AE inserted,which has an extremely complex recombination structure;CRF141＿0107 is a second generation recombinant of CRF01＿AE and CRF07＿BC.In addition,we characterized the recombination-derived features of CRF138＿cpx,CRF139＿cpx,and URF＿H52,and the results demonstrated that the recombination structures of the three differed only in the fragment size of the pure C subtype in the pol region,and the recombination structures of the other regions had super high similarity and probably originated from the progeny of the same parent;meanwhile,we also elucidated that the recombination structures of CRF141＿0107and CRF123＿0107,proving that CRF123＿0107 is a recombinant offspring of CRF141＿0107.In summary,this thesis characterizes the recombination characteristics of three CRFs composed of CRF01AE/B/C recombination and one CRF composed of CRF01＿AE/CRF07＿BC recombination,a second-generation recombinant CRF,and their recombination evolution patterns.Our current findings further enrich the diversity of HIV-1 genotypes prevalent in Yunnan,and have implications for the study of HIV-1 molecular epidemics in Yunnan,the timely adjustment of HIV-1 defenses,and the development of effective HIV-1 therapeutics with data support.