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Molecular epidemiology of HIV-1 in Jilin province, northeastern China: emergence of a new CRF07_BC transmission cluster and intersubtype recombinants.

Li X, Zang X, Ning C, Feng Y, Xie C, He X, Takebe Y, Sun L, Guo Q, Xing H, Kalish ML, Shao Y - PLoS ONE (2014)

Bottom Line: Among 11 different recombinants identified, 10 contained portions of gene regions from the CRF01_AE lineage.Our study presents a molecular epidemiologic investigation describing the complex structure of HIV-1 strains co-circulating in Jilin province.The results highlight the critical importance of continuous monitoring of HIV-infections, along with detailed socio-demographic data, in order to design appropriate prevention measures to limit the spread of new HIV infections.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China, and Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, Zhejiang, China; HIV Molecular Epidemiology and Virology Research Group, The State Key Laboratory of Virology, Wuhan Institute of Virology, University of Chinese Academy of Sciences, Wuhan, Hubei, China.

ABSTRACT

Objective: To investigate the HIV-1 molecular epidemiology among newly diagnosed HIV-1 infected persons living in the Jilin province of northeastern China.

Methods: Plasma samples from 189 newly diagnosed HIV-1 infected patients were collected between June 2010 and August 2011 from all nine cities of Jilin province. HIV-1 nucleotide sequences of gag P17-P24 and env C2-C4 gene regions were amplified using a multiplex RT-PCR method and sequenced. Phylogenetic and recombination analyses were used to determine the HIV-1 genotypes.

Results: Based on all sequences generated, the subtype/CFR distribution was as follows: CRF01_AE (58.1%), CRF07_BC (13.2%), subtype B' (13.2%), recombinant viruses (8.1%), subtype B (3.7%), CRF02_AG (2.9%), subtype C (0.7%). In addition to finding CRF01_AE strains from previously reported transmission clusters 1, 4 and 5, a new transmission cluster was described within the CRF07_BC radiation. Among 11 different recombinants identified, 10 contained portions of gene regions from the CRF01_AE lineage. CRF02_AG was found to form a transmission cluster of 4 in local Jilin residents.

Conclusions: Our study presents a molecular epidemiologic investigation describing the complex structure of HIV-1 strains co-circulating in Jilin province. The results highlight the critical importance of continuous monitoring of HIV-infections, along with detailed socio-demographic data, in order to design appropriate prevention measures to limit the spread of new HIV infections.

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Neighbor-joining phylogenetic tree of HIV-1 env C2–C4 gene of study samples from the Jilin province of northeastern China.Neighbor-joining phylogenetic trees were constructed for 121 nucleotide sequences of HIV-1 env C2–C4 and reference sequences. The phylogenetic trees were constructed using methods described in Figure 1.
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pone-0110738-g002: Neighbor-joining phylogenetic tree of HIV-1 env C2–C4 gene of study samples from the Jilin province of northeastern China.Neighbor-joining phylogenetic trees were constructed for 121 nucleotide sequences of HIV-1 env C2–C4 and reference sequences. The phylogenetic trees were constructed using methods described in Figure 1.

Mentions: Phylogenetic analyses of the nucleotide sequences of 134 gag P17–P24 and 121 env C2–C4 gene regions are shown in Fig. 1 and Fig. 2, respectively. A total of 136 HIV-1 samples were successfully amplified and genotyped for at least one gene region, and most for both gene regions (Table 1 and Table S2). The classifications for the 119 samples having both gag and env sequences (gag/env) were as follows: CRF01/CRF01 (69/119, 58.0%), subtype B’/B’ (17/119, 14.3%), CRF07/CRF07 (16/119, 13.4%), CRF02/CRF02 (4/119, 3.4%), subtype B/B (2/119, 1.7%), and subtype C/C (1/119, 0.8%). Furthermore, there were 10 (8.4%) samples with discordant gag//env phylogenies, and 2 of these showed complex levels of recombination involving gene regions from at least 3 different subtypes/CRFs: CRF07//CRF01 (3/119, 2.5%), CRF01//B (1/119, 0.8%), B//CRF01 (1/119, 0.8%), CRF01/C//C (2/119, 1.7%), CRF01/CRF07//CRF07 (1/119, 0.8%), CRF01/C//CRF01 (1/119, 0.8%) and A1/G//H (1/119, 0.8%) (Table 2 and Table S2). The distribution of genotypes for the samples having only gag sequences were as follows: CRF01_AE (10/17, 58.8%), subtype B (2/17, 11.8%), CRF07_BC (2/17, 11.8%), CRF01/B’/C (1/17, 5.9%) and the two with only env sequences were both subtype B (2/17, 11.8%) (Table S2). Six gag sequences were located outside of the subtype/CRF clusters, suggesting that they might be intersubtype recombinants. Bootscanning analyses of the 6 gag sequences showed the following recombinant structures: 3 CRF01_AE/C, 1 CRF01_AE/B’/C, 1 CRF01_AE/CRF07_BC and 1 A1/G (Fig.S1). The demographic and genotypic characteristics of the 136 participants with available nucleotide sequences are summarized in Table 1.


Molecular epidemiology of HIV-1 in Jilin province, northeastern China: emergence of a new CRF07_BC transmission cluster and intersubtype recombinants.

Li X, Zang X, Ning C, Feng Y, Xie C, He X, Takebe Y, Sun L, Guo Q, Xing H, Kalish ML, Shao Y - PLoS ONE (2014)

Neighbor-joining phylogenetic tree of HIV-1 env C2–C4 gene of study samples from the Jilin province of northeastern China.Neighbor-joining phylogenetic trees were constructed for 121 nucleotide sequences of HIV-1 env C2–C4 and reference sequences. The phylogenetic trees were constructed using methods described in Figure 1.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4214716&req=5

pone-0110738-g002: Neighbor-joining phylogenetic tree of HIV-1 env C2–C4 gene of study samples from the Jilin province of northeastern China.Neighbor-joining phylogenetic trees were constructed for 121 nucleotide sequences of HIV-1 env C2–C4 and reference sequences. The phylogenetic trees were constructed using methods described in Figure 1.
Mentions: Phylogenetic analyses of the nucleotide sequences of 134 gag P17–P24 and 121 env C2–C4 gene regions are shown in Fig. 1 and Fig. 2, respectively. A total of 136 HIV-1 samples were successfully amplified and genotyped for at least one gene region, and most for both gene regions (Table 1 and Table S2). The classifications for the 119 samples having both gag and env sequences (gag/env) were as follows: CRF01/CRF01 (69/119, 58.0%), subtype B’/B’ (17/119, 14.3%), CRF07/CRF07 (16/119, 13.4%), CRF02/CRF02 (4/119, 3.4%), subtype B/B (2/119, 1.7%), and subtype C/C (1/119, 0.8%). Furthermore, there were 10 (8.4%) samples with discordant gag//env phylogenies, and 2 of these showed complex levels of recombination involving gene regions from at least 3 different subtypes/CRFs: CRF07//CRF01 (3/119, 2.5%), CRF01//B (1/119, 0.8%), B//CRF01 (1/119, 0.8%), CRF01/C//C (2/119, 1.7%), CRF01/CRF07//CRF07 (1/119, 0.8%), CRF01/C//CRF01 (1/119, 0.8%) and A1/G//H (1/119, 0.8%) (Table 2 and Table S2). The distribution of genotypes for the samples having only gag sequences were as follows: CRF01_AE (10/17, 58.8%), subtype B (2/17, 11.8%), CRF07_BC (2/17, 11.8%), CRF01/B’/C (1/17, 5.9%) and the two with only env sequences were both subtype B (2/17, 11.8%) (Table S2). Six gag sequences were located outside of the subtype/CRF clusters, suggesting that they might be intersubtype recombinants. Bootscanning analyses of the 6 gag sequences showed the following recombinant structures: 3 CRF01_AE/C, 1 CRF01_AE/B’/C, 1 CRF01_AE/CRF07_BC and 1 A1/G (Fig.S1). The demographic and genotypic characteristics of the 136 participants with available nucleotide sequences are summarized in Table 1.

Bottom Line: Among 11 different recombinants identified, 10 contained portions of gene regions from the CRF01_AE lineage.Our study presents a molecular epidemiologic investigation describing the complex structure of HIV-1 strains co-circulating in Jilin province.The results highlight the critical importance of continuous monitoring of HIV-infections, along with detailed socio-demographic data, in order to design appropriate prevention measures to limit the spread of new HIV infections.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China, and Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, Zhejiang, China; HIV Molecular Epidemiology and Virology Research Group, The State Key Laboratory of Virology, Wuhan Institute of Virology, University of Chinese Academy of Sciences, Wuhan, Hubei, China.

ABSTRACT

Objective: To investigate the HIV-1 molecular epidemiology among newly diagnosed HIV-1 infected persons living in the Jilin province of northeastern China.

Methods: Plasma samples from 189 newly diagnosed HIV-1 infected patients were collected between June 2010 and August 2011 from all nine cities of Jilin province. HIV-1 nucleotide sequences of gag P17-P24 and env C2-C4 gene regions were amplified using a multiplex RT-PCR method and sequenced. Phylogenetic and recombination analyses were used to determine the HIV-1 genotypes.

Results: Based on all sequences generated, the subtype/CFR distribution was as follows: CRF01_AE (58.1%), CRF07_BC (13.2%), subtype B' (13.2%), recombinant viruses (8.1%), subtype B (3.7%), CRF02_AG (2.9%), subtype C (0.7%). In addition to finding CRF01_AE strains from previously reported transmission clusters 1, 4 and 5, a new transmission cluster was described within the CRF07_BC radiation. Among 11 different recombinants identified, 10 contained portions of gene regions from the CRF01_AE lineage. CRF02_AG was found to form a transmission cluster of 4 in local Jilin residents.

Conclusions: Our study presents a molecular epidemiologic investigation describing the complex structure of HIV-1 strains co-circulating in Jilin province. The results highlight the critical importance of continuous monitoring of HIV-infections, along with detailed socio-demographic data, in order to design appropriate prevention measures to limit the spread of new HIV infections.

Show MeSH
Related in: MedlinePlus