Significant contribution of subtype G to HIV-1 genetic complexity in Nigeria identified by a newly developed subtyping assay specific for subtype G and CRF02_AG

被引：14

作者：

Heipertz, Richard A., Jr. ^{[1
]}

Ayemoba, Ojor ^{[2
]}

Sanders-Buell, Eric ^{[1
,3
]}

Poltavee, Kultida ^{[1
,3
]}

Pham, Phuc ^{[1
,3
]}

Kijak, Gustavo H. ^{[1
,3
]}

Lei, Esther ^{[1
,3
]}

Bose, Meera ^{[1
,3
]}

Howell, Shana ^{[1
,3
]}

O'Sullivan, Anne Marie ^{[1
,3
]}

Bates, Adam ^{[1
,3
]}

Cervenka, Taylor ^{[1
,3
]}

Kuroiwa, Janelle ^{[1
,3
]}

Akintunde, Akindiran ^{[4
]}

Ibezim, Onyekachukwu ^{[2
]}

Alabi, Abraham ^{[4
,5
]}

Okoye, Obumneke ^{[2
]}

Manak, Mark ^{[1
,3
]}

Malia, Jennifer ^{[1
,6
]}

Peel, Sheila ^{[1
]}

Maisaka, Mohammed ^{[7
]}

Singer, Darrell ^{[6
,8
]}

O'Connell, Robert J. ^{[1
]}

Robb, Merlin L. ^{[1
,3
]}

Kim, Jerome H. ^{[1
]}

Michael, Nelson L. ^{[1
]}

Njoku, Ogbonnaya ^{[4
]}

Tovanabutra, Sodsai ^{[1
,3
]}

机构：

[1] Walter Reed Army Inst Res, US Mil HIV Res Program, Silver Spring, MD 20910 USA

[2] Nigerian Minist Def, Emergency Plan Implementat Comm, Abuja, Nigeria

[3] Henry M Jackson Fdn Adv Mil Med Inc, Bethesda, MD USA

[4] HJF MRI, US Mil HIV Res Program, Abuja, Nigeria

[5] Hop Albert Schweitzer Lambarene, Fdn Int, Ctr Rech Med Lambarene CERMEL, Lambarene, Gabon

[6] US PHS, Rockville, MD USA

[7] 45 Nigerian Air Force Hosp, Makurdi, Nigeria

[8] Dept Def HIV Program, Abuja, Nigeria

来源：

MEDICINE | 2016年 / 95卷 / 32期

关键词：

IMMUNODEFICIENCY-VIRUS TYPE-1; DRUG-RESISTANCE; DOUBLE-BLIND; MOLECULAR EPIDEMIOLOGY; ANTIRETROVIRAL THERAPY; REVERSE-TRANSCRIPTASE; GENOTYPING ASSAY; HIGH-THROUGHPUT; OYO-STATE; VACCINE;

D O I：

10.1097/MD.0000000000004346

中图分类号：

R5 [内科学];

学科分类号：

1002 ; 100201 ;

摘要：

While abundant sequence information is available from human immunodeficiency virus type 1 (HIV-1) subtypes A, B, C and CRF01_AE for HIV-1 vaccine design, sequences from West Africa are less represented. We sought to augment our understanding of HIV-1 variants circulating in 6 Nigerian cities as a step to subsequent HIV-1 vaccine development. The G/CRF02_AG multi-region hybridization assay (MHA) was developed to differentiate subtype G, CRF02_AG and their recombinants from other subtypes based on 7 HIV-1 segments. Plasma from 224 HIV-1 infected volunteers enrolled in a cohort examining HIV-1 prevalence, risk factor, and subtype from Makurdi (30), Abuja (18), Enugu (11), Kaduna (12), Tafa (95), and Ojo/Lagos (58) was analyzed using MHA. HIV-1 genomes from 42 samples were sequenced to validate the MHA and fully explore the recombinant structure of G and CRF02_AG variants. The sensitivity and specificity of MHA varied between 73-100% and 90-100%, respectively. The subtype distribution as identified by MHA among 224 samples revealed 38% CRF02_AG, 28% G, and 26% G/CRF02_AG recombinants while 8% remained nontypeable strains. In envelope (env) gp120, 38.84% of the samples reacted to a G probe while 31.25% reacted to a CRF02 (subtype A) probe. Full genome characterization of 42 sequences revealed the complexity of Nigerian HIV-1 variants. CRF02_AG, subtype G, and their recombinants were the major circulating HIV-1 variants in 6 Nigerian cities. High proportions of samples reacted to a G probe in env gp120 confirms that subtype G infections are abundant and should be considered in strategies for global HIV-1 vaccine development.

引用

页数：9

共 38 条

[1] Molecular surveillance of HIV-1 field strains in Nigeria in preparation for vaccine trials [J].

Agwale, SM ;

Zeh, C ;

Robbins, KE ;

Odama, L ;

Saekhou, A ;

Edubio, A ;

Njoku, M ;

Sani-Gwarzo, N ;

Gboun, MS ;

Gao, F ;

Reitz, M ;

Hone, D ;

Pieniazek, D ;

Wambebe, C ;

Kalish, ML .

VACCINE, 2002, 20 (16) :2131-2139

[2]

Ajoge HO, 2012, AIDS RES HUM RETROV, V28, P115, DOI [10.1089/aid.2011.0115, 10.1089/AID.2011.0115]

[3] Genetic Characteristics, Coreceptor Usage Potential and Evolution of Nigerian HIV-1 Subtype G and CRF02_AG Isolates [J].

Ajoge, Hannah O. ;

Gordon, Michelle L. ;

de Oliveira, Tulio ;

Green, Taryn N. ;

Ibrahim, Sani ;

Shittu, Oladapo S. ;

Olonitola, Stephen O. ;

Ahmad, Aliyu A. ;

Ndung'u, Thumbi .

PLOS ONE, 2011, 6 (03)

[4] Accelerating HIV-1 Vaccine Efficacy Trials [J].

Barouch, Dan H. ;

Michael, Nelson L. .

CELL, 2014, 159 (05) :969-972

[5] Protective Efficacy of a Global HIV-1 Mosaic Vaccine against Heterologous SHIV Challenges in Rhesus Monkeys [J].

Barouch, Dan H. ;

Stephenson, Kathryn E. ;

Borducchi, Erica N. ;

Smith, Kaitlin ;

Stanley, Kelly ;

McNally, Anna G. ;

Liu, Jinyan ;

Abbink, Peter ;

Maxfield, Lori F. ;

Seaman, Michael S. ;

Dugast, Anne-Sophie ;

Alter, Galit ;

Ferguson, Melissa ;

Li, Wenjun ;

Earl, Patricia L. ;

Moss, Bernard ;

Giorgi, Elena E. ;

Szinger, James J. ;

Eller, Leigh Anne ;

Billings, Erik A. ;

Rao, Mangala ;

Tovanabutra, Sodsai ;

Sanders-Buell, Eric ;

Weijtens, Mo ;

Pau, Maria G. ;

Schuitemaker, Hanneke ;

Robb, Merlin L. ;

Kim, Jerome H. ;

Korber, Bette T. ;

Michael, Nelson L. .

CELL, 2013, 155 (03) :531-539

[6] Efficacy assessment of a cell-mediated immunity HIV-1 vaccine (the Step Study): a double-blind, randomised, placebo-controlled, test-of-concept trial [J].

Buchbinder, Susan P. ;

Mehrotra, Devon V. ;

Duerr, Ann ;

Fitzgerald, Daniel W. ;

Mogg, Robin ;

Li, David ;

Gilbert, Peter B. ;

Lama, Javier R. ;

Marmor, Michael ;

del Rio, Carlos ;

McElrath, M. Juliana ;

Casimiro, Danilo R. ;

Gottesdiener, Keith M. ;

Chodakewitz, Jeffrey A. ;

Corey, Lawrence ;

Robertson, Michael N. .

LANCET, 2008, 372 (9653) :1881-1893

[7] Full genome sequences of human immunodeficiency virus type 1 subtypes G and A/G intersubtype recombinants [J].

Carr, JK ;

Salminen, MO ;

Albert, J ;

Sanders-Buell, E ;

Gotte, D ;

Birx, DL ;

McCutchan, FE .

VIROLOGY, 1998, 247 (01) :22-31

[8] Impact of HIV Type 1 Subtype on Drug Resistance Mutations in Nigerian Patients Failing First-Line Therapy [J].

Chaplin, B. ;

Eisen, G. ;

Idoko, J. ;

Onwujekwe, D. ;

Idigbe, E. ;

Adewole, I. ;

Gashau, W. ;

Meloni, S. ;

Sarr, A. D. ;

Sankale, J. L. ;

Ekong, E. ;

Murphy, R. L. ;

Kanki, P. .

AIDS RESEARCH AND HUMAN RETROVIRUSES, 2011, 27 (01) :71-80

[9] Characterization of Acute HIV-1 Infection in High-Risk Nigerian Populations [J].

Charurat, Man ;

Nasidi, Abdulsalami ;

Delaney, Kevin ;

Saidu, Ahmed ;

Croxton, Taelisha ;

Mondal, Prosanta ;

Aliyu, Gambo Gumel ;

Constantine, Niel ;

Abimiku, Alash'le ;

Carr, Jean K. ;

Vertefeuille, John ;

Blattner, William .

JOURNAL OF INFECTIOUS DISEASES, 2012, 205 (08) :1239-1247

[10] Spatiotemporal Dynamics of the HIV-1 Subtype G Epidemic in West and Central Africa [J].

Delatorre, Edson ;

Mir, Daiana ;

Bello, Gonzalo .

PLOS ONE, 2014, 9 (06)

← 1 2 3 4 →