Identification of two novel HIV-1 circulating recombinant forms of CRF111_01C and CRF116_0108 in southwestern Yunnan, China

Figures & data

Figure 1. Geographical location of Yunnan and CRFs identified in Southeast Asian countries. The red dot indicates the sampling site

Table 1. Demographic characteristics of 15 HIV-1 infected individuals

Sequence name	Sampling year	Sex	Age	Ethnic group	Education	Marriage	Accession number
14YN68	2014	male	34	Wa	illiteracy	unmarried	MT624743
14YN251	2014	female	24	Wa	Primary school	married	MT624744
14YN252	2014	male	35	Wa	Primary school	married	MT624745
14YN526	2014	female	24	Dai	illiteracy	unmarried	MT624746
14YN263	2014	male	33	Wa	Junior high school	married	MT624747
14YN264	2014	female	28	Wa	Junior high school	married	MT624748
16YN253	2016	male	46	Han	illiteracy	married	MT624749
16YN424	2016	female	42	Wa	Junior high school	married	MT624750
16YN29	2016	female	39	Wa	illiteracy	married	MT624751
16YN604	2016	female	40	Wa	illiteracy	divorced	MT624752
16YN642	2016	female	39	Wa	illiteracy	divorced	MT624753
16YN652	2016	male	36	Han	Junior high school	married	MT624754
16YN732	2016	female	32	Yi	Junior high school	married	MT624755
16YN764	2016	female	59	Wa	illiteracy	married	MT624756
16YN666	2016	female	27	Wa	Junior high school	unmarried	MT624757

Figure 2. The maximum likelihood tree of 15 HIV-1 near full-length genomic sequences from Yunnan, China. All 15 sequences obtained in this study are highlighted with red circles. The blue and red shadows indicate the clades of CRF111_01 C and CRF116_0108, respectively. The red star indicates that 14YN252 belongs to the CRF106_cpx variant

Figure 3. Genomic structural maps for quasispecies of HIV-1 (HXB2:6024–7381) from 14YN251 and 14YN252

Figure 4. Maximum clade credibility (MCC) trees of the HIV-1 CRF111_01 C and CRF116_0108. (a) The reconstructed MCC tree based on three genomic segments of CRF111_01 C, including the pol region of subtype CRF01_AE origin (3600–4600 nt in HXB2), env region of subtype C origin (7002–7584 nt in HXB2) and env region of subtype CRF01_AE origin (7790–8790 nt in HXB2). (b) The reconstructed MCC tree based on two genomic segments of CRF116_0108, including the pol region of subtype CRF08_BC origin (3200–4200 nt in HXB2) and the env region of subtype CRF01_AE origin (7002–8002 nt in HXB2). Different tree branch colors represent different countries. The black solid dots on the trees indicate the tMRCA of CRF111_01 C and CRF116_0108

Data availability statement

The datasets presented in this study can be found in online repositories. These data can be found here: https://www.ncbi.nlm.nih.gov/nuccore/MT624743.