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[PMID]:29370196
[Au] Autor:Kearney MF; Spindler J; Wiegand A; Shao W; Haubrich R; Riddler S; Lalama CM; Hughes MD; Coffin JM; Mellors JW
[Ad] Endereço:HIV Dynamics and Replication Program, National Cancer Institute, Frederick, MD, United States of America.
[Ti] Título:Lower pre-ART intra-participant HIV-1 pol diversity may not be associated with virologic failure in adults.
[So] Source:PLoS One;13(1):e0190438, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Identifying pre-ART factors associated with the emergence of HIV-1 drug resistance is critical for optimizing strategies to prevent virologic failure. A previous study reported that lower pre-ART HIV-1 pol diversity was associated with higher risk of virologic failure in HIV-1-infected children. To investigate this association in adults, we measured HIV-1 diversity with deep sequencing in pre-ART samples from adults with well-characterized virologic outcomes in a study (A5142) of initial ART conducted by the AIDS Clinical Trials Group (ACTG). METHODS: We identified 22 cases in ACTG A5142 who experienced virologic failure with drug resistance mutations in RT and 44 matched controls who did not experience virologic failure. cDNA was synthesized from plasma HIV-1 RNA. Each cDNA molecule was tagged with a unique primer ID and RT codons 41-103 were amplified and deep sequenced. Sequences with the same tag were aligned and a consensus was generated to reduce PCR and sequencing errors. Diversity was calculated by measuring average pairwise distance (APD) of the consensus sequences. An exact conditional logistic regression model with percent APD as the risk factor estimated the odds ratio for VF and the corresponding 95% confidence interval. RESULTS: Consensus single-genome sequences and diversity estimates of pol were obtained for pre-ART samples from 21 cases and 42 controls. The median (IQR) pre-ART percent APD was 0.71 (0.31-1.13) in cases and 0.58 (0.32-0.94) in controls. A possible trend was found for higher diversity being associated with greater risk of virologic failure in adults (OR = 2.2 per one percent APD increase, 95% CI = [0.8, 7.2]; p = 0.15). CONCLUSIONS: This study in adults suggests there is a positive association between higher pre-ART pol diversity and the risk of virologic failure in adults rather than an inverse relationship reported in children.
[Mh] Termos MeSH primário: Genes pol
Variação Genética
Infecções por HIV/tratamento farmacológico
Infecções por HIV/genética
HIV-1/genética
[Mh] Termos MeSH secundário: Contagem de Linfócito CD4
Estudos de Casos e Controles
Farmacorresistência Viral/genética
Seres Humanos
Reação em Cadeia da Polimerase
Carga Viral
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, N.I.H., EXTRAMURAL; RESEARCH SUPPORT, U.S. GOV'T, P.H.S.
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180222
[Lr] Data última revisão:
180222
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180126
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0190438


  2 / 1090 MEDLINE  
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[PMID]:29069084
[Au] Autor:Dahal BK; Kadyrova LY; Delfino KR; Rogozin IB; Gujar V; Lobachev KS; Kadyrov FA
[Ad] Endereço:Department of Biochemistry and Molecular Biology, Southern Illinois University School of Medicine, Carbondale, IL, United States of America.
[Ti] Título:Involvement of DNA mismatch repair in the maintenance of heterochromatic DNA stability in Saccharomyces cerevisiae.
[So] Source:PLoS Genet;13(10):e1007074, 2017 Oct.
[Is] ISSN:1553-7404
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Heterochromatin contains a significant part of nuclear DNA. Little is known about the mechanisms that govern heterochromatic DNA stability. We show here that in the yeast Saccharomyces cerevisiae (i) DNA mismatch repair (MMR) is required for the maintenance of heterochromatic DNA stability, (ii) MutLα (Mlh1-Pms1 heterodimer), MutSα (Msh2-Msh6 heterodimer), MutSß (Msh2-Msh3 heterodimer), and Exo1 are involved in MMR at heterochromatin, (iii) Exo1-independent MMR at heterochromatin frequently leads to the formation of Pol ζ-dependent mutations, (iv) MMR cooperates with the proofreading activity of Pol ε and the histone acetyltransferase Rtt109 in the maintenance of heterochromatic DNA stability, (v) repair of base-base mismatches at heterochromatin is less efficient than repair of base-base mismatches at euchromatin, and (vi) the efficiency of repair of 1-nt insertion/deletion loops at heterochromatin is similar to the efficiency of repair of 1-nt insertion/deletion loops at euchromatin.
[Mh] Termos MeSH primário: Reparo de Erro de Pareamento de DNA
DNA Fúngico/química
Heterocromatina
Proteínas de Saccharomyces cerevisiae/genética
Saccharomyces cerevisiae/genética
[Mh] Termos MeSH secundário: Sequência de Bases
Dano ao DNA
DNA Fúngico/genética
Exodesoxirribonucleases/genética
Genes pol
Histona Acetiltransferases/genética
Proteínas MutL/genética
Proteína MutS de Ligação de DNA com Erro de Pareamento/genética
Homologia de Sequência
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA, Fungal); 0 (Heterochromatin); 0 (Saccharomyces cerevisiae Proteins); EC 2.3.1.48 (Histone Acetyltransferases); EC 2.3.1.48 (Rtt109 protein, S cerevisiae); EC 3.1.- (Exodeoxyribonucleases); EC 3.1.11.1 (exodeoxyribonuclease I); EC 3.6.1.3 (MutL Proteins); EC 3.6.1.3 (MutS DNA Mismatch-Binding Protein)
[Em] Mês de entrada:1711
[Cu] Atualização por classe:171119
[Lr] Data última revisão:
171119
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171026
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pgen.1007074


  3 / 1090 MEDLINE  
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[PMID]:28693084
[Au] Autor:Sun XG; Yu HY; Su SL; Lin B; Li JH; Lin L; Tao XR; Qian YS; Kang DM; Xing H
[Ad] Endereço:Shandong Center for Disease Control and Prevention, Jinan 250014, China.
[Ti] Título:[Survey of HIV-1 drug resistance threshold in Shandong Province in 2013-2015].
[So] Source:Zhonghua Yu Fang Yi Xue Za Zhi;51(7):604-609, 2017 Jul 06.
[Is] ISSN:0253-9624
[Cp] País de publicação:China
[La] Idioma:chi
[Ab] Resumo:To survey the prevalence of drug resistant HIV-1 in Shandong province in 2013-2015. WHO truncated sequential sampling technique was adopted by using 77 and 53 samples of newly diagnosed as HIV-1 positive and aged 16-25 years in Shandong province in 2013 and 2015. RNA was prepared and HIV-1 region was amplified by RT-PCR and nested PCR. Pol genetic mutation associated with drug resistance was analyzed. The success rates for sequence acquisition of the survey were 100% (77/77) and 94% (50/53) in 2013 and 2015, and the main subtype was CRF01_AE. A total of 2 surveillance drug-resistance mutation(SDRMs) and 3 SDRMs were found by analyzing the 47 sequences each year, sampled in 2013 and 2015, indicating that the prevalence of drug resistant HIV-1 stains was low in 2013, and moderate in 2015. A total of 5 individuals with drug resistant HIV-1 stains found in this study were mainly infected by homosexual transmission (3 cases), and the other two samples were different: one was infected by heterosexual transmission, the other was infected by IDU. The subtype was CRF01_AE (2 cases) , CRF07_BC (2 cases) and B (1 case) . SDRMs for protease inhibitor (PIs), nucleotide HIV-reverse transcriptase inhibitor (NRTIs) and non-NRTI (NNRTIs) were all found in the individuals with drug resistant HIV-1 stains. CRF01_AE were the main HIV-1 subtypes of recently reported HIV-infected individuals in Shandong province, and the HIV-1 drug resistant strains transmission was catalogued as at low and moderate prevalence level in 2013 and 2015.
[Mh] Termos MeSH primário: Farmacorresistência Viral
Infecções por HIV/tratamento farmacológico
HIV-1/efeitos dos fármacos
Produtos do Gene pol do Vírus da Imunodeficiência Humana/genética
[Mh] Termos MeSH secundário: Adolescente
Adulto
Feminino
Genes pol
Infecções por HIV/sangue
Infecções por HIV/epidemiologia
HIV-1/genética
Seres Humanos
Masculino
Mutação
Reação em Cadeia da Polimerase
Prevalência
RNA Viral/sangue
RNA Viral/genética
Inibidores da Transcriptase Reversa/farmacologia
Reação em Cadeia da Polimerase Via Transcriptase Reversa
Inquéritos e Questionários
Adulto Jovem
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Viral); 0 (Reverse Transcriptase Inhibitors); 0 (pol Gene Products, Human Immunodeficiency Virus)
[Em] Mês de entrada:1711
[Cu] Atualização por classe:171109
[Lr] Data última revisão:
171109
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170711
[St] Status:MEDLINE
[do] DOI:10.3760/cma.j.issn.0253-9624.2017.07.006


  4 / 1090 MEDLINE  
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[PMID]:28647987
[Au] Autor:Han ZG; Wu H; Liang CY; Gao K; Mai HX; Cai YS; Xu HF
[Ad] Endereço:Department of Operational Control, Guangzhou Center for Disease Control and Prevention, Guangzhou 510440, China.
[Ti] Título:[Distribution of HIV-1 subtypes among foreign patients, in Guangzhou, between 2008 and 2010, and in 2015].
[So] Source:Zhonghua Liu Xing Bing Xue Za Zhi;38(6):805-809, 2017 Jun 10.
[Is] ISSN:0254-6450
[Cp] País de publicação:China
[La] Idioma:chi
[Ab] Resumo:To understand the characteristic of subtype distribution among foreigners who were living with HIV-1, in Guangzhou. HIV-1 RNAs were extracted from 114 serum specimens in foreigners diagnosed with HIV-1 infections between 2008 and 2010, and in 2015. Partial gene of HIV-1 genome from these RNA samples were amplified by nested reverse transcription polymerase chain reaction (nested-PCR) with nucleotide sequenced. Subsequently, phylogenetic tree was reconstructed using the sequences of samples and references. Among all the 114 samples, 57.9 were from males and 42.1 from females, with an average age as 35.21 years old and the standard deviation as 9.63 years. A total of 6.8 of the samples were from Africans. The top three subtypes were identified as CRF02_AG, subtype G and subtype C, accounted for 30.7 , 14.9 and 12.3 respectively. Compared with samples gathered from 2008 to 2010, the proportions of subtype A1 and CRF01_AE significantly increased, while the other subtypes significantly decreased in 2015 ( (2)=37.570; =0.013, 99 : 0.010-0.016). Proportions of CRF01_AE and subtype G among males outnumbered the females but the proportions of subtype A1, CRF02_AG and URF among females appeared the other way round ( (2)=15.528; =0.029, 99 : 0.024-0.033). Proportions of CRF02_AG and subtype G among HIV-1 positive Africans were larger than those from other Southeast Asian countries or areas, However, the proportion of CRF01_AE among HIV-1 positive patients from Southeast Asian countries was higher than those patients from other areas ( (2)=39.399; =0.009, 99 : 0.006-0.011). The rates of resistance to any drug of protease inhibitors (PIs), reverse transcriptase inhibitors (RTIs), as well as to PIs, NRTIs, and NNRTIs alone, were 21.9 , 12.3 , 6.1 and 7.0 , respectively. One of nine CRF01_AEs from the HIV-1 positive patients were found closely clustered in those phylogenetic tree (bootstrap=0.855) samples, collected from local patients in Guangzhou. Our findings showed that these foreign subtypes had been spread to the natives, more from the Africans than from the other areas, in Guangzhou. These types of viruses were different from the strains identified locally, suggesting that they might have been brought in by foreigners living with HIV-1, in Guangzhou. Programs related to care, support and behavioral intervention for HIV positive foreigners living in Guangzhou, should be strengthened.
[Mh] Termos MeSH primário: Emigrantes e Imigrantes/estatística & dados numéricos
Genes pol
Infecções por HIV/diagnóstico
Soropositividade para HIV/genética
HIV-1/genética
Produtos do Gene pol do Vírus da Imunodeficiência Humana/genética
[Mh] Termos MeSH secundário: China/epidemiologia
Feminino
Genótipo
Infecções por HIV/sangue
Infecções por HIV/etnologia
Infecções por HIV/virologia
Soropositividade para HIV/etnologia
HIV-1/classificação
Seres Humanos
Masculino
Filogenia
Reação em Cadeia da Polimerase
RNA Viral/sangue
Inibidores da Transcriptase Reversa
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Viral); 0 (Reverse Transcriptase Inhibitors); 0 (pol Gene Products, Human Immunodeficiency Virus)
[Em] Mês de entrada:1709
[Cu] Atualização por classe:170904
[Lr] Data última revisão:
170904
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170627
[St] Status:MEDLINE
[do] DOI:10.3760/cma.j.issn.0254-6450.2017.06.023


  5 / 1090 MEDLINE  
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[PMID]:28329933
[Au] Autor:Deng YQ; Li JJ; Fang NY; Wang B; Wang JW; Liang SS; Shen ZY; Lan GH; Zhang HM; Wu XH; Lu HX; Ge XM
[Ad] Endereço:Department of Occupational and Environmental Health, School of Public Health, Guangxi Medical University, Nanning 530023, China.
[Ti] Título:[Study on HIV-1 subtype among elderly male clients and female sex workers of low-cost venues in Guangxi Zhuang Autonomous Region, China].
[So] Source:Zhonghua Liu Xing Bing Xue Za Zhi;38(3):326-330, 2017 Mar 10.
[Is] ISSN:0254-6450
[Cp] País de publicação:China
[La] Idioma:chi
[Ab] Resumo:To understand HIV-1 subtype characteristics and transmission clusters in elderly male clients and female sex workers (FSWs) of low-cost commercial sex venues in Guangxi Zhuang Autonomous Region, China. A cross sectional survey was conducted in FSWs and elderly male clients (≥50 years) of low-cost commercial sex venues in 4 cities and 9 counties in Guangxi Zhuang Autonomous Region by convenient sampling in 2012. The blood sample was collected from each case for HIV-1 antibody detection. The gene fragments were amplified and sequenced from viral RNA template extracted from plasma samples. The phylogenetic tree was constructed and the subtypes were identified. A total of 4 048 elderly male clients and 784 FSWs were surveyed, and 116 HIV-1 infections were detected, the positive rate was 2.5% (103/4 048) in the clients and 1.7% (13/784) in FSWs. The gene amplification and sequencing of HIV-1 detected in 84 blood samples indicated that 53 gene sequences were successfully determined (48 blood samples from elderly male clients and 5 blood samples from FSWs). Among 53 sequences, 48(90.6% ), 4(7.5% ), and 1(1.9% ) sequences were identified as CRF01_AE, CRF08_BC, and CRF07_BC, respectively. Two transmission clusters were identified among CRF01_AE, including 4 sub-clusters. One transmission cluster was identified among CRF08_BC. The transmission cluster or sub-cluster were from the infected individuals at same low-cost commercial sex venue, or different low-cost commercial sex venues in the same town, or same place, or adjacent villages and towns. CRF01_AE was the predominant HIV-1 subtype among elderly male clients and FSWs of low-cost commercial sex venues in Guangxi Zhuang Autonomous Region, circulating in same venue or adjacent villages and towns. The HIV-1 positive male clients and FSWs might play an important role in the spread of the strains.
[Mh] Termos MeSH primário: Infecções por HIV/epidemiologia
HIV-1/genética
Profissionais do Sexo
Produtos do Gene pol do Vírus da Imunodeficiência Humana/genética
[Mh] Termos MeSH secundário: Fatores Etários
Idoso
Sequência de Bases
China/epidemiologia
Estudos Transversais
Feminino
Genes pol
Genótipo
Anticorpos Anti-HIV
Infecções por HIV/transmissão
Infecções por HIV/virologia
Seres Humanos
Masculino
Filogenia
Reação em Cadeia da Polimerase
RNA Viral/sangue
Distribuição Espacial da População
Trabalho Sexual
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (HIV Antibodies); 0 (RNA, Viral); 0 (pol Gene Products, Human Immunodeficiency Virus)
[Em] Mês de entrada:1709
[Cu] Atualização por classe:170904
[Lr] Data última revisão:
170904
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170323
[St] Status:MEDLINE
[do] DOI:10.3760/cma.j.issn.0254-6450.2017.03.010


  6 / 1090 MEDLINE  
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[PMID]:28272247
[Au] Autor:Mossoro-Kpinde CD; Gody JC; Mboumba Bouassa RS; Mbitikon O; Jenabian MA; Robin L; Matta M; Zeitouni K; Longo JD; Costiniuk C; Grésenguet G; Touré Kane NC; Bélec L
[Ad] Endereço:aLaboratoire National de Biologie Clinique et de Santé Publique bFaculté des Sciences de la Santé, Université de Bangui cComplexe Pédiatrique, Bangui, Central African Republic dLaboratoire de virologie, Hôpital Européen Georges Pompidou and Université Paris Descartes, Paris Sorbonne Cité, Paris, France eDépartement des Sciences Biologiques et Centre de Recherche BioMed, Université du Québec à Montréal (UQAM), Montreal, QC, Canada fSaint Georges Hospital University Medical Center, Université de Balamand, Beirut, Lebanon gUnité de Recherches et d'Intervention sur les Maladies Sexuellement Transmissibles et le SIDA, Département de Santé Publique, Faculté des Sciences de la Santé de Bangui, Central African Republic hChronic Viral Illnesses Service, Division of Infectious Diseases and Research Institute of the McGill University Health Centre, Montréal iLaboratoire de Bactériologie Virologie, Hôpital Aristide Le Dantec, Dakar and Université Cheikh Anta Diop de Dakar, Sénégal.
[Ti] Título:High levels of virological failure with major genotypic resistance mutations in HIV-1-infected children after 5 years of care according to WHO-recommended 1st-line and 2nd-line antiretroviral regimens in the Central African Republic: A cross-sectional study.
[So] Source:Medicine (Baltimore);96(10):e6282, 2017 Mar.
[Is] ISSN:1536-5964
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:A large cohort of 220 HIV-1-infected children (median [range] age: 12 [4-17] years) was cared and followed up in the Central African Republic, including 198 in 1st-line and 22 in 2nd-line antiretroviral regimens. Patients were monitored clinically and biologically for HIV-1 RNA load and drug resistance mutations (DRMs) genotyping. A total of 87 (40%) study children were virological responders and 133 (60%) nonresponders. In children with detectable viral load, the majority (129; 97%) represented a virological failure. In children receiving 1st-line regimens in virological failure for whom genotypic resistance test was available, 45% displayed viruses harboring at least 1 DRM to NNRTI or NRTI, and 26% showed at least 1 major DRM to NNRTI or NRTI; more than half of children in 1st-line regimens were resistant to 1st-generation NNRTI and 24% of the children in 1st-line regimens had a major DRMs to PI. Virological failure and selection of DRMs were both associated with poor adherence. These observations demonstrate high rate of virological failure after 3 to 5 years of 1st-line or 2nd-line antiretroviral treatment, which is generally associated with DRMs and therapeutic failure. Overall, more than half (55%) of children receiving 1st-line antiretroviral treatment for a median of 3.4 years showed virological failure and antiretroviral-resistance and thus eligible to 2nd-line treatment. Furthermore, two-third (64%) of children under 2nd-line therapy were eligible to 3rd-line regimen. Taken together, these observations point the necessity to monitor antiretroviral-treated children by plasma HIV-1 RNA load to diagnose as early as possible the therapeutic failure and operate switch to a new therapeutic line.
[Mh] Termos MeSH primário: Antirretrovirais/uso terapêutico
Farmacorresistência Viral/genética
Infecções por HIV/tratamento farmacológico
HIV-1/genética
[Mh] Termos MeSH secundário: Adolescente
República Centro-Africana
Criança
Pré-Escolar
Estudos Transversais
Feminino
Genes pol
Genótipo
Infecções por HIV/sangue
Infecções por HIV/congênito
Seres Humanos
Masculino
Adesão à Medicação
Mutação
RNA Viral/sangue
Falha de Tratamento
Carga Viral
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Anti-Retroviral Agents); 0 (RNA, Viral)
[Em] Mês de entrada:1703
[Cu] Atualização por classe:170324
[Lr] Data última revisão:
170324
[Sb] Subgrupo de revista:AIM; IM
[Da] Data de entrada para processamento:170309
[St] Status:MEDLINE
[do] DOI:10.1097/MD.0000000000006282


  7 / 1090 MEDLINE  
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[PMID]:28181034
[Au] Autor:Vahabpour R; Bokharaei-Salim F; Kalantari S; Garshasbi S; Monavari SH; Esghaei M; Memarnejadian A; Fakhim A; Keyvani H
[Ad] Endereço:Department of Medical Lab Technology, School of Allied Medical Sciences, Shahid Beheshti University of Medical Sciences;, Tehran, Iran.
[Ti] Título:HIV-1 genetic diversity and transmitted drug resistance frequency among Iranian treatment-naive, sexually infected individuals.
[So] Source:Arch Virol;162(6):1477-1485, 2017 Jun.
[Is] ISSN:1432-8798
[Cp] País de publicação:Austria
[La] Idioma:eng
[Ab] Resumo:In recent years, the patterns of human immunodeficiency virus 1 (HIV-1) transmission in Iran have been changing gradually from drug injection to unprotected sexual contact. This study sought to investigate the phylogenetic trends and characteristics of transmitted drug resistance (TDR) mutations of HIV-1 in a population that is mainly infected through homo/heterosexual contacts. Sixty newly diagnosed antiretroviral-naive individuals with HIV infection living in Tehran were recruited to this survey, and among them, 42 subjects were established to be infected through sexual intercourse. Following amplification and sequencing of the main part of the HIV-1 pol region, phylogenetic and drug-resistance mutation (DRM) analysis was successfully performed on these 42 patients. Phylogenetic analysis showed that the majority of the subjects were infected with subtype CRF35_AD (88%), followed by subtype B, with 7.1%, and subtype CRF01_AE, with 4.7%. A total of 7.1% of the subjects were found to be infected with HIV-1 variants with surveillance drug-resistant mutations (SDRMs) according to the last world health organisation (WHO) algorithm. All of the identified SDRMs belonged to the non-nucleoside reverse transcriptase inhibitors (NNRTIs) class, including K103 N and V106A, which were found in three patients. Two minor HIV protease-inhibitor-related mutations (L10I and G73S) were detected in two patients, but these mutations are not included in the WHO SDRMs list. The dominance of HIV-1 subtype CRF35_AD was observed among subjects of this study who were infected through sexual contact. The moderate prevalence of SDRMs (7.1%) in this population emphasises the fact that the risk of treatment failure in HIV-infected individuals might increase in the future, and preventive measures should be considered by health authorities.
[Mh] Termos MeSH primário: Farmacorresistência Viral
Variação Genética
Infecções por HIV/virologia
HIV-1/genética
[Mh] Termos MeSH secundário: Adolescente
Adulto
Fármacos Anti-HIV/uso terapêutico
Criança
Pré-Escolar
Farmacorresistência Viral/genética
Feminino
Genes pol
Genótipo
Infecções por HIV/epidemiologia
Infecções por HIV/transmissão
HIV-1/classificação
HIV-1/efeitos dos fármacos
HIV-1/isolamento & purificação
Seres Humanos
Irã (Geográfico)/epidemiologia
Masculino
Meia-Idade
Mutação
Filogenia
Prevalência
Reação em Cadeia da Polimerase em Tempo Real
Comportamento Sexual
Adulto Jovem
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Anti-HIV Agents)
[Em] Mês de entrada:1707
[Cu] Atualização por classe:170720
[Lr] Data última revisão:
170720
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170210
[St] Status:MEDLINE
[do] DOI:10.1007/s00705-017-3228-1


  8 / 1090 MEDLINE  
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[PMID]:28086981
[Au] Autor:Palanisamy N; Osman N; Ohnona F; Xu HT; Brenner B; Mesplède T; Wainberg MA
[Ad] Endereço:McGill University AIDS Centre, Lady Davis Institute for Medical Research, Jewish General Hospital, 3755, Ch. Cote-Ste-Catherine, Montréal, QC, Canada. navastones@gmail.com.
[Ti] Título:Does antiretroviral treatment change HIV-1 codon usage patterns in its genes: a preliminary bioinformatics study.
[So] Source:AIDS Res Ther;14(1):2, 2017 Jan 07.
[Is] ISSN:1742-6405
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Codon usage bias has been described for various organisms and is thought to contribute to the regulation of numerous biological processes including viral infections. HIV-1 codon usage has been previously shown to be different from that of other viruses and man. It is evident that the antiretroviral drugs used to restrict HIV-1 replication also select for resistance variants. We wanted to test whether codon frequencies in HIV-1 sequences from treatment-experienced patients differ from those of treatment-naive individuals due to drug pressure affecting codon usage bias. RESULTS: We developed a JavaScript to determine the codon frequencies of aligned nucleotide sequences. Irrespective of subtypes, using HIV-1 pol sequences from 532 treatment-naive and 52 treatment-experienced individuals, we found that pol sequences from treatment-experienced patients had significantly increased AGA (arginine; p = 0.0002***) and GGU (glycine; p = 0.0001***), and decreased AGG (arginine; p = 0.0001***) codon frequencies. The same pattern was not observed when subtypes B and C sequences were analyzed separately. Additionally, irrespective of subtypes, using HIV-1 gag sequences from 524 treatment-naive and 54 treatment-experienced individuals, gag sequences from treatment-experienced patients had significantly increased CUA (leucine; p < 0.0001***), CAG (glutamine; p = 0.0006***), AUC (isoleucine; p < 0.0001***) and UCU (serine; p = 0.0005***), and decreased AUA (isoleucine; p = 0.0003***) and CAA (glutamine; p = 0.0006***) codon frequencies. CONCLUSION: Using pol and gag genes derived from the same HIV-1 genome, we show that antiretroviral therapy changed certain HIV-1 codon frequencies in a subtype specific way.
[Mh] Termos MeSH primário: Fármacos Anti-HIV/farmacologia
Fármacos Anti-HIV/uso terapêutico
Códon
Infecções por HIV/tratamento farmacológico
Infecções por HIV/virologia
HIV-1/efeitos dos fármacos
HIV-1/genética
[Mh] Termos MeSH secundário: Sequência de Bases
Biologia Computacional
Farmacorresistência Viral/efeitos dos fármacos
Farmacorresistência Viral/genética
Genes pol
Genoma Viral
Integrase de HIV/genética
Protease de HIV/genética
Seres Humanos
Filogenia
Análise de Sequência
Replicação Viral/genética
Produtos do Gene gag do Vírus da Imunodeficiência Humana/genética
Produtos do Gene pol do Vírus da Imunodeficiência Humana/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Anti-HIV Agents); 0 (Codon); 0 (gag Gene Products, Human Immunodeficiency Virus); 0 (pol Gene Products, Human Immunodeficiency Virus); EC 2.7.7.- (HIV Integrase); EC 3.4.23.- (HIV Protease)
[Em] Mês de entrada:1709
[Cu] Atualização por classe:170911
[Lr] Data última revisão:
170911
[Sb] Subgrupo de revista:IM; X
[Da] Data de entrada para processamento:170115
[St] Status:MEDLINE
[do] DOI:10.1186/s12981-016-0130-y


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[PMID]:27974715
[Au] Autor:Farrokhi M; Moallemi S; Baesi K; Ahsani-Nasab S; Gholami M; Sadeghi L; Mohraz M
[Ad] Endereço:Iranian Research Center for HIV/AIDS, Iranian Institute for Reduction of High Risk Behaviors, Tehran University of Medical Sciences, Tehran, Iran.
[Ti] Título:HIV Drug Resistance and Phylogeny Profile in Naïve and Antiretroviral-Experienced Patients in Tehran, Iran.
[So] Source:Intervirology;59(3):131-136, 2016.
[Is] ISSN:1423-0100
[Cp] País de publicação:Switzerland
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Increasing the accessibility of antiretroviral therapy (ART) has caused the emergence of drug resistance in patients receiving ART and in naïve patients. The aim of this study was to evaluate HIV subtype and drug resistance between naïve patients and ART-experienced patients. METHODS: Blood samples were collected from 78 antiretroviral and naïve HIV-1 patients; antiretroviral-resistant mutations and subtyping were then determined by sequencing pol regions. RESULTS: Phylogenetic analysis revealed that 96.1% of sequences belong to the CRF35-AD subtype. Transmitted drug resistance was determined in 14% of drug-naïve patients and 40% of ART-experienced patients. CONCLUSION: The findings of this study illustrated the importance of resistance testing before and during ART treatment. This study can be used to set up a best medicine strategy in Iranian guidelines.
[Mh] Termos MeSH primário: Fármacos Anti-HIV/uso terapêutico
Farmacorresistência Viral/genética
Infecções por HIV/virologia
HIV-1/efeitos dos fármacos
HIV-1/genética
[Mh] Termos MeSH secundário: Adulto
Fármacos Anti-HIV/farmacologia
Coinfecção/epidemiologia
Coinfecção/virologia
Estudos Transversais
Feminino
Genes pol
Genótipo
Infecções por HIV/tratamento farmacológico
Infecções por HIV/epidemiologia
Seres Humanos
Irã (Geográfico)/epidemiologia
Masculino
Meia-Idade
Mutação
Filogenia
Análise de Sequência de DNA
Adulto Jovem
[Pt] Tipo de publicação:EVALUATION STUDIES; JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Anti-HIV Agents)
[Em] Mês de entrada:1703
[Cu] Atualização por classe:170316
[Lr] Data última revisão:
170316
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161216
[St] Status:MEDLINE
[do] DOI:10.1159/000452712


  10 / 1090 MEDLINE  
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[PMID]:27314585
[Au] Autor:Hora B; Keating SM; Chen Y; Sanchez AM; Sabino E; Hunt G; Ledwaba J; Hackett J; Swanson P; Hewlett I; Ragupathy V; Vikram Vemula S; Zeng P; Tee KK; Chow WZ; Ji H; Sandstrom P; Denny TN; Busch MP; Gao F; REDS-III and EQAPOL programs
[Ad] Endereço:Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center, Durham, North Carolina, United States of America.
[Ti] Título:Genetic Characterization of a Panel of Diverse HIV-1 Isolates at Seven International Sites.
[So] Source:PLoS One;11(6):e0157340, 2016.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:HIV-1 subtypes and drug resistance are routinely tested by many international surveillance groups. However, results from different sites often vary. A systematic comparison of results from multiple sites is needed to determine whether a standardized protocol is required for consistent and accurate data analysis. A panel of well-characterized HIV-1 isolates (N = 50) from the External Quality Assurance Program Oversight Laboratory (EQAPOL) was assembled for evaluation at seven international sites. This virus panel included seven subtypes, six circulating recombinant forms (CRFs), nine unique recombinant forms (URFs) and three group O viruses. Seven viruses contained 10 major drug resistance mutations (DRMs). HIV-1 isolates were prepared at a concentration of 107 copies/ml and compiled into blinded panels. Subtypes and DRMs were determined with partial or full pol gene sequences by conventional Sanger sequencing and/or Next Generation Sequencing (NGS). Subtype and DRM results were reported and decoded for comparison with full-length genome sequences generated by EQAPOL. The partial pol gene was amplified by RT-PCR and sequenced for 89.4%-100% of group M viruses at six sites. Subtyping results of majority of the viruses (83%-97.9%) were correctly determined for the partial pol sequences. All 10 major DRMs in seven isolates were detected at these six sites. The complete pol gene sequence was also obtained by NGS at one site. However, this method missed six group M viruses and sequences contained host chromosome fragments. Three group O viruses were only characterized with additional group O-specific RT-PCR primers employed by one site. These results indicate that PCR protocols and subtyping tools should be standardized to efficiently amplify diverse viruses and more consistently assign virus genotypes, which is critical for accurate global subtype and drug resistance surveillance. Targeted NGS analysis of partial pol sequences can serve as an alternative approach, especially for detection of low-abundance DRMs.
[Mh] Termos MeSH primário: Genes pol/genética
Infecções por HIV/genética
HIV-1/genética
Sequenciamento de Nucleotídeos em Larga Escala
[Mh] Termos MeSH secundário: Farmacorresistência Viral/genética
Genótipo
Infecções por HIV/virologia
HIV-1/efeitos dos fármacos
HIV-1/patogenicidade
Seres Humanos
Dados de Sequência Molecular
Mutação
Filogenia
Recombinação Genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1707
[Cu] Atualização por classe:170713
[Lr] Data última revisão:
170713
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:160618
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0157340



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