Establishment of a phylogenetic survey system for AIDS-related lentiviruses and demonstration of a new HIV-2 subgroup

Miura, Tomoyuki; Sakuragi, Jun-ichi; Kawamura, Minoru; Fukasawa, Masashi; Moriyama, Etsuko N.; Gojobori, Takashi; Ishikawa, Koh-ichi; Mingle, J. A. A.; Nettey, Victor B.A.; Akari, Hirofumi; Enami, Masayoshi; Tsujimoto, Hajime; Hayami, Masanori

doi:10.1097/00002030-199012000-00012

Cited by 54 publications

(32 citation statements)

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“…Diagnostic pol primers were used from a highly conserved area of the pol gene (30); these were UNIPOL1 (5Ј-AGTGGATTCATAGAAGCAGAAGT-3Ј) and UNIPOL2 (5Ј-CCCCTATTCCTCCCCTTCTTTTAAAA-3Ј). PCR conditions were as reported previously (30). To obtain the complete genome of SIVrcmNG411, three additional overlapping fragments spanning PBS/pol (4,055 bp), pol/env (1,915 bp), and tat/LTR (3,889 bp) were amplified from genomic DNA, using either the Takara ExTaq kit (Takara, Otsu, Shiga, Japan) for three-step PCR or the Gene Amp XL PCR Kit (PE Applied Biosystems, Branchburg, N.J.) for two-step PCR.…”

Section: Methodsmentioning

confidence: 99%

Characterization of Novel Simian Immunodeficiency Viruses from Red-Capped Mangabeys from Nigeria (SIVrcmNG409 and -NG411)

Beer

Foley

Kuiken

et al. 2001

J Virol

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Two novel simian immunodeficiency virus (SIV) strains from wild-caught red-capped mangabeys (Cercocebus torquatus torquatus) from Nigeria were characterized. Sequence analysis of the fully sequenced SIV strain rcmNG411 (SIVrcmNG411) and gag and pol sequence of SIVrcmNG409 revealed that they were genetically most closely related to the recently characterized SIVrcm from Gabon (SIVrcmGB1). Thus, red-capped mangabeys from distant geographic locations harbor a common lineage of SIV. SIVrcmNG411 carried a vpx gene in addition to vpr, suggesting a common evolutionary ancestor with SIVsm (from sooty mangabeys). However, SIVrcm was only marginally closer to SIVsm in that region than to any of the other lentiviruses. SIVrcm showed the highest similarity in pol with SIVdrl, isolated from a drill, a primate that is phylogenetically distinct from mangabey monkeys, and clustered with other primate lentiviruses (primarily SIVcpz [from chimpanzees] and SIVagmSab [from African green monkeys]) discordantly in different regions of the genome, suggesting a history of recombination. Despite the genetic relationship to SIVcpz in the pol gene, SIVrcmNG411 did not replicate in chimpanzee peripheral blood mononuclear cells (PBMC), although two other viruses unrelated to SIVcpz, SIVmndGB1 (from mandrills) and SIVlhoest (from L'Hoest monkeys), were able to grow in chimpanzee PBMC. The CCR5 24-bp deletion previously described in red-capped mangabeys from Gabon was also observed in Nigerian red-capped mangabeys, and SIVrcmNG411, like SIVrcmGB1, used CCR2B and STRL33 as coreceptors for virus entry. SIVrcm, SIVsm, SIVmndGB1, and all four SIVlhoest isolates but not SIVsun (from sun-tailed monkeys) replicated efficiently in human PBMC, suggesting that the ability to infect the human host can vary within one lineage.

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Section: Methodsmentioning

confidence: 99%

Characterization of Novel Simian Immunodeficiency Viruses from Red-Capped Mangabeys from Nigeria (SIVrcmNG409 and -NG411)

Beer

Foley

Kuiken

et al. 2001

J Virol

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“…Molecular detection was performed by PCR using an Amplitaq Gold 360 DNA Polymerase Kit (Invitrogen). A portion of the HIV gag gene encoding the p24 region was amplified using the primers H1G777/H1P202 in the first round and H1gag1584/g17 in the second round [18]. A portion of the pol gene encoding integrase (int) was amplified with the primers unipol 5/unipol 6 in the first round and unipol 1/unipol 2 in the second round [18].…”

Section: Nucleic Acid Extraction and Molecular Detectionmentioning

confidence: 99%

“…A portion of the HIV gag gene encoding the p24 region was amplified using the primers H1G777/H1P202 in the first round and H1gag1584/g17 in the second round [18]. A portion of the pol gene encoding integrase (int) was amplified with the primers unipol 5/unipol 6 in the first round and unipol 1/unipol 2 in the second round [18]. A portion of the HBsAg gene was amplified using the primers HBS1F/HBS1R in the first round and HBS2F/HBS2R in the second round [19].…”

Section: Nucleic Acid Extraction and Molecular Detectionmentioning

confidence: 99%

Molecular epidemiology of HIV, HBV, HCV, and HTLV-1/2 in drug abuser inmates in central Javan prisons, Indonesia

Prasetyo

Dirgahayu

Sari

et al. 2013

J Infect Dev Ctries

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Introduction: This study was conducted to determine the current molecular prevalence of human immunodeficiency virus (HIV), hepatitis B virus (HBV), hepatitis C virus (HCV), hepatitis D virus (HDV), and human T lymphotropic virus-1/2 (HTLV-1/2) circulating among drug abuser inmates incarcerated in prisons located in Central Java, Indonesia. Methodology: Socio-epidemiological data and blood specimens were collected from 375 drug abuser inmates in four prisons. The blood samples were analyzed with serological and molecular testing for HIV, HBV, HCV, HDV, and HTLV-1/2. Results: The seroprevalence of HIV, HBsAg, HCV, HDV, and HTLV-1/2 in drug abuser inmates was 4.8% (18/375), 3.2% (12/375), 34.1% (128/375), 0% (0/375), and 3.7% (14/375), respectively. No co-infections of HIV and HBV were found. Co-infections of HIV/HCV, HIV/HTLV-1/2, HBV/HCV, HBV/HTLV-1/2, and HCV/HTLV-1/2 were prevalent at rates of 4% (15/375), 1.3% (5/375), 1.1% (4/375), 0.3% (1/375), and 2.1% (8/375), respectively. The HIV/HCV co-infection rate was significantly higher in injection drug users (IDUs) compared to non-IDUs. Triple co-infection of HIV/HCV/HTLV-1/2 was found only in three IDUs (0.8%). HIV CRF01_AE was found to be circulating in the inmates. HBV genotype B3 predominated, followed by C1. Subtypes adw and adr were found. HCV genotype 1a predominated among HCV-infected inmates, followed by 1c, 3k, 3a, 4a, and 1b. All HTLV-1 isolates shared 100% homology with HTLV-1 isolated in Japan, while all of the HTLV-2 isolates were subtype 2a. Conclusion: Drug abuser inmates in prisons may offer a unique community to bridge prevention and control of human blood-borne virus infection to the general community.

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“…Oligonucleotide primers for amplification of type L strains were designed based on the reported STLV-L strain (PH969) (30). The nested-PCR conditions are described elsewhere (18,33).…”

Section: Specimensmentioning

confidence: 99%

High Prevalence of Simian T-Lymphotropic Virus Type L in Wild Ethiopian Baboons

Takemura

Yamashita

Shimada

et al. 2002

J Virol

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Establishment of a phylogenetic survey system for AIDS-related lentiviruses and demonstration of a new HIV-2 subgroup

Cited by 54 publications

References 0 publications

Characterization of Novel Simian Immunodeficiency Viruses from Red-Capped Mangabeys from Nigeria (SIVrcmNG409 and -NG411)

Characterization of Novel Simian Immunodeficiency Viruses from Red-Capped Mangabeys from Nigeria (SIVrcmNG409 and -NG411)

Molecular epidemiology of HIV, HBV, HCV, and HTLV-1/2 in drug abuser inmates in central Javan prisons, Indonesia

High Prevalence of Simian T-Lymphotropic Virus Type L in Wild Ethiopian Baboons

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