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https://www.readbyqxmd.com/read/29781878/hiv-1-proviral-sequence-and-treatment-outcome-of-virologically-suppressed-patients-switching-to-coformulated-elvitegravir-cobicistat-emtricitabine-tenofovir-disoproxil-fumarate
#1
Kristen Andreatta, Silvia Chang, Ross Martin, Rima Kulkarni, Martin Daeumer, Alexander Thielen, Michael D Miller, Kirsten L White
No abstract text is available yet for this article.
May 16, 2018: Journal of Acquired Immune Deficiency Syndromes: JAIDS
https://www.readbyqxmd.com/read/29780163/heteromerization-of-%C3%AE-opioid-receptor-and-cholecystokinin-b-receptor-through-the-third-transmembrane-domain-of-the-%C3%AE-opioid-receptor-contributes-to-the-anti-opioid-effects-of-cholecystokinin-octapeptide
#2
Yin Yang, Qian Li, Qi-Hua He, Ji-Sheng Han, Li Su, You Wan
Activation of the cholecystokinin type B receptor (CCKBR) by cholecystokinin octapeptide (CCK-8) inhibits opioid analgesia. Chronic opiate treatment leads to an increase in the CCK-8 concentration and thus enhances the antagonism of CCK-8 against opioid analgesia; the underlying molecular mechanisms remain of great interest. In the present study, we validated the colocalization of the μ-opioid receptor (MOR) and CCKBR in pain signal transmission-related spinal cord dorsal horn and dorsal root ganglion neurons of rats...
May 21, 2018: Experimental & Molecular Medicine
https://www.readbyqxmd.com/read/29777446/the-degree-of-hiv-1-amino-acid-variability-is-strictly-related-to-different-disease-progression-rates
#3
Rossana Scutari, Monica Faieta, Roberta D'Arrigo, Lavinia Fabeni, Cristina Mussini, Andrea Cossarizza, Claudio Casoli, Carlo Federico Perno, Valentina Svicher, Claudia Alteri, Stefano Aquaro
The aim of this study is to evaluate the amino acid variability of HIV-1 Gp41, C2-V3, and Nef in a group of patients characterized by different disease progression rates. HIV-1 sequences were collected from 19 Long term non progressor patients (LTNPs), 9 slow progressors (SPs), and 11 rapid progressors (RPs). Phylogenetic trees were estimated by MEGA 6. Differences in amino acid variability among sequences belonging to the 3 groups have been evaluated by amino acid divergence, Shannon entropy analysis, and the number of amino acid mutations (defined as amino acid variations compared with HxB2)...
May 17, 2018: Virus Genes
https://www.readbyqxmd.com/read/29776392/molecular-identification-of-tick-borne-pathogens-in-asymptomatic-individuals-with-human-immunodeficiency-virus-type-1-hiv-1-infection-a-retrospective-study
#4
Renata Welc-Falęciak, Justyna D Kowalska, Małgorzata Bednarska, Magdalena Szatan, Agnieszka Pawełczyk
BACKGROUND: The studies on the occurrence and diversity of tick-borne infections in HIV-infected individuals have been few, and the subject has been relatively neglected when compared with other common infections associated with HIV. In HIV-positive patients in whom a serological diagnostics is complicated due to reduced positive predictive value, a method where the microorganism is detected directly is of great value. Therefore, we performed a molecular study to ascertain the prevalence and incidence of tick-borne infections in HIV-infected persons in Poland, an endemic area for Ixodes ricinus ticks...
May 18, 2018: BMC Infectious Diseases
https://www.readbyqxmd.com/read/29773895/crispr-cas9-system-targeting-regulatory-genes-of-hiv-1-inhibits-viral-replication-in-infected-t-cell-cultures
#5
Youdiil Ophinni, Mari Inoue, Tomohiro Kotaki, Masanori Kameoka
The CRISPR/Cas9 system provides a novel and promising tool for editing the HIV-1 proviral genome. We designed RNA-guided CRISPR/Cas9 targeting the HIV-1 regulatory genes tat and rev with guide RNAs (gRNA) selected from each gene based on CRISPR specificity and sequence conservation across six major HIV-1 subtypes. Each gRNA was cloned into lentiCRISPRv2 before co-transfection to create a lentiviral vector and transduction into target cells. CRISPR/Cas9 transduction into 293 T and HeLa cells stably expressing Tat and Rev proteins successfully abolished the expression of each protein relative to that in non-transduced and gRNA-absent vector-transduced cells...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29773649/ptap-motif-duplication-in-the-p6-gag-protein-confers-a-replication-advantage-on-hiv-1-subtype-c
#6
Shilpee Sharma, Prabhu S Arunachalam, Malini Menon, Viswanath Ragupathy, Ravi Vijaya Satya, Joshua Jebaraj, Shambhu Ganeshappa Aralaguppe, Chaitra Rao, Sreshtha Pal, Shanmugam Saravanan, Kailapuri G Murugavel, Pachamuthu Balakrishnan, Suniti Solomon, Indira Hewlett, Udaykumar Ranga
HIV-1 subtype C (HIV-1C) may duplicate longer amino acid stretches in the p6 Gag protein, leading to the creation of an additional Pro-Thr/Ser-Ala-Pro (PTAP) motif necessary for viral packaging. However, the biological significance of a duplication of the PTAP motif for HIV-1 replication and pathogenesis has not been experimentally validated. In a longitudinal study of two different clinical cohorts of select HIV-1 seropositive, drug-naive individuals from India, we found that 8 of 50 of these individuals harbored a mixed infection of viral strains discordant for the PTAP duplication...
May 17, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29767639/pharmacokinetics-and-pharmacodynamics-of-tenofovir-reduced-glycerin-1-gel-in-the-rectal-and-vaginal-compartments-in-women-a-cross-compartmental-study-with-directly-observed-dosing
#7
Jessica E Justman, Gonasagrie Lulu Nair, Craig W Hendrix, Jeanna M Piper, Mark A Marzinke, James Y Dai, Zhenyu Pan, Beth Galaska, Lisa Levy, Jill L Schwartz, Bhavna Balar, Ratiya P Kunjara Na Ayudhya, Ivy Mushamiri, Ian McGowan, Charlene S Dezzutti
BACKGROUND: Evidence is lacking regarding whether vaginal pre-exposure prophylaxis with topical tenofovir (TFV) reduces the risk of rectal HIV acquisition. SETTING: Bronx, NY. METHODS: MTN-014 was a phase 1, cross-over, randomized sequence trial comparing the cross-compartment pharmacokinetics and pharmacodynamics of daily TFV reduced-glycerin 1% gel after 14 days each of rectal and vaginal application, with directly observed dosing and a 6-week washout period between phases...
June 1, 2018: Journal of Acquired Immune Deficiency Syndromes: JAIDS
https://www.readbyqxmd.com/read/29766813/coreceptor-tropism-and-maraviroc-sensitivity-of-clonally-derived-ethiopian-hiv-1c-strains-using-an-in-house-phenotypic-assay-and-commonly-used-genotypic-methods
#8
Amare Worku Kalu, Nigus Fikrie Telele, Shambhu Aralaguppe, Solomon Gebre-Selassie, Daniel Fekade, Gaetano Marrone, Anders Sonnerborg
OBJECTIVES: Genotypic tropism testing (GTT) tools are generally developed based on HIV-1 subtype B (HIV-1B) and used for HIV-1C as well but with a large discordance of prediction between different methods. We used an established phenotypic assay for comparison with GTT methods and for determination of in vitro maraviroc sensitivity of pure R5-tropic and dual-tropic HIV-1C. METHODS: Plasma was obtained from 58 HIV-1C infected Ethiopians. Envgp120 was cloned into a luciferase tagged NL4-3 plasmid...
May 15, 2018: Current HIV Research
https://www.readbyqxmd.com/read/29765082/pretreatment-drug-resistance-in-a-large-countrywide-ethiopian-hiv-1c-cohort-a-comparison-of-sanger-and-high-throughput-sequencing
#9
Nigus Fikrie Telele, Amare Worku Kalu, Solomon Gebre-Selassie, Daniel Fekade, Samir Abdurahman, Gaetano Marrone, Ujjwal Neogi, Belete Tegbaru, Anders Sönnerborg
Baseline plasma samples of 490 randomly selected antiretroviral therapy (ART) naïve patients from seven hospitals participating in the first nationwide Ethiopian HIV-1 cohort were analysed for surveillance drug resistance mutations (sDRM) by population based Sanger sequencing (PBSS). Also next generation sequencing (NGS) was used in a subset of 109 baseline samples of patients. Treatment outcome after 6- and 12-months was assessed by on-treatment (OT) and intention-to-treat (ITT) analyses. Transmitted drug resistance (TDR) was detected in 3...
May 15, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29765018/tracking-hiv-1-recombination-to-resolve-its-contribution-to-hiv-1-evolution-in-natural-infection
#10
Hongshuo Song, Elena E Giorgi, Vitaly V Ganusov, Fangping Cai, Gayathri Athreya, Hyejin Yoon, Oana Carja, Bhavna Hora, Peter Hraber, Ethan Romero-Severson, Chunlai Jiang, Xiaojun Li, Shuyi Wang, Hui Li, Jesus F Salazar-Gonzalez, Maria G Salazar, Nilu Goonetilleke, Brandon F Keele, David C Montefiori, Myron S Cohen, George M Shaw, Beatrice H Hahn, Andrew J McMichael, Barton F Haynes, Bette Korber, Tanmoy Bhattacharya, Feng Gao
Recombination in HIV-1 is well documented, but its importance in the low-diversity setting of within-host diversification is less understood. Here we develop a novel computational tool (RAPR (Recombination Analysis PRogram)) to enable a detailed view of in vivo viral recombination during early infection, and we apply it to near-full-length HIV-1 genome sequences from longitudinal samples. Recombinant genomes rapidly replace transmitted/founder (T/F) lineages, with a median half-time of 27 days, increasing the genetic complexity of the viral population...
May 15, 2018: Nature Communications
https://www.readbyqxmd.com/read/29762688/a-multivariate-genetic-analysis-confirms-rs5010528-in-the-human-leucocyte-antigen-c-locus-as-a-significant-contributor-to-stevens-johnson-syndrome-toxic-epidermal-necrolysis-susceptibility-in-a-mozambique-hiv-population-treated-with-nevirapine
#11
Cinzia Ciccacci, Cristina Politi, Sandro Mancinelli, Fausto Ciccacci, Francesca Lucaroni, Giuseppe Novelli, Maria Cristina Marazzi, Leonardo Palombi, Paola Borgiani
Objectives: Nevirapine is used in developing countries for the treatment of HIV infection, but its use is associated with rare serious adverse reactions such as Stevens-Johnson syndrome (SJS) and toxic epidermal necrolysis (TEN). Recently, an association between rs5010528 in the human leucocyte antigen (HLA)-C locus and SJS/TEN susceptibility has been described in sub-Saharan populations. Our aim was to verify this association in a population of nevirapine-treated patients from Mozambique...
May 11, 2018: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29762171/hiv-transmission-in-discordant-couples-in-africa-in-the-context-of-art-availability
#12
Evonne Woodson, Alec Goldberg, Clive Michelo, Debby Basu, Sijia Tao, Raymond Schinazi, Yong Jiang, William Kilembe, Etienne Karita, Susan Allen, Eric Hunter
OBJECTIVE: This study aims to understand the basis of continued HIV-1 transmission in Zambian and Rwandan HIV-1 discordant couples in the context of ART. DESIGN: We identified 9 Zambian and 7 Rwandan acutely-infected, epidemiologically-linked couples from government CVCT clinics where transmitting partners reported being on ART near the time of transmission. METHODS: We quantified viral load (VL) and plasma antiretroviral (ARV) drug concentrations near the time of transmission and used these as surrogate measures for adherence...
May 11, 2018: AIDS
https://www.readbyqxmd.com/read/29762170/a-compartmentalized-type-i-interferon-response-in-the-gut-during-chronic-hiv-1-infection-is-associated-with-immunopathogenesis
#13
Stephanie M Dillon, Kejun Guo, Gregory L Austin, Sara Gianella, Phillip A Engen, Ece A Mutlu, John Losurdo, Garth Swanson, Prachi Chakradeo, Ali Keshavarzian, Alan L Landay, Mario Santiago, Cara Wilson
OBJECTIVE(S): Type I IFN (IFN-I) responses confer both protective and pathogenic effects in persistent virus infections. IFN-I diversity, stage of infection and tissue compartment may account for this dichotomy. The gut is a major site of early HIV-1 replication and microbial translocation, but the nature of the IFN-I response in this compartment remains unclear. DESIGN: Samples were obtained from two IRB-approved cross-sectional studies. The first study included individuals with chronic, untreated HIV-1 infection (n = 24) and age/gender balanced uninfected controls (n = 14)...
May 11, 2018: AIDS
https://www.readbyqxmd.com/read/29762162/genetic-characterization-of-the-hiv-1-reservoir-after-vacc-4x-and-romidepsin-therapy-in-hiv-1-infected-individuals
#14
Anni Winckelmann, Vincent Morcilla, Wei Shao, Mariane H Schleimann, Jesper F Højen, Timothy E Schlub, Paul W Denton, Lars Østergaard, Ole S Søgaard, Martin Tolstrup, Sarah Palmer
OBJECTIVE: Therapeutic HIV-1 immunization followed by latency reversal has been suggested as a strategy to eradicate HIV-1. Here we investigate the phylogenetic composition of the HIV-1 regions targeted by the therapeutic HIV-1 peptide vaccine Vacc-4x in participants in a clinical trial. DESIGN: Seventeen participants on suppressive antiretroviral therapy were vaccinated with six doses of Vacc-4x followed by three doses of romidepsin. Seven study participants were selected for sequencing analysis...
May 11, 2018: AIDS
https://www.readbyqxmd.com/read/29760177/epigenetic-promoter-dna-methylation-of-mir-124-promotes-hiv-1-tat-mediated-microglial-activation-via-mecp2-stat3-axis
#15
Palsamy Periyasamy, Annadurai Thangaraj, Ming-Lei Guo, Guoku Hu, Shannon Callen, Shilpa Buch
The present study demonstrates HIV-1 Tat-mediated epigenetic downregulation of microglial miR-124 and its association with microglial activation. Exposure of mouse primary microglia isolated from newborn pups of either sex to HIV-1 Tat resulted in decreased expression of primary miR-124-1, primary miR-124-2 as well as the mature miR-124. In parallel, HIV-1 Tat exposure to mouse primary microglial cells resulted in increased expression of DNA methylation enzymes, such as DNMT1, DNMT3A, and DNMT3B that were also accompanied by increased global DNA methylation...
May 14, 2018: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/29757583/what-immunological-defects-predispose-to-non-tuberculosis-mycobacterial-infections
#16
Esmaeil Mortaz, Milad Moloudizargari, Mohammad Varahram, Mehrnaz Movassaghi, Johan Garssen, Mehdi Kazempour Dizagie, Mehdi Mirsaeidi, Ian M Adcock
Nontuberculous mycobacteria (NTM) are categorized as one of the large and diverse groups of environmental organisms which are abundant in water and soil.  NTM cause a variety of diseases in humans that mainly affect the lung. A predisposition to pulmonary NTM is evident in patients with parenchymal structural diseases including bronchiectasis, emphysema, tuberculosis (TB), cystic fibrosis (CF), rheumatologic lung diseases and other chronic diseases with pulmonary manifestations. Lung infections are not the only consequences of being infected by NTM as they can also infect skin and soft tissue and may also cause lymphadenitis (predominantly in young children) and disseminated disease in human immunodeficiency virus (HIV)-infected patients or those with severely compromised immune system...
April 2018: Iranian Journal of Allergy, Asthma, and Immunology
https://www.readbyqxmd.com/read/29756455/characterization-of-the-transmitted-virus-in-an-ongoing-hiv-1-epidemic-driven-by-injecting-drug-use
#17
Elena Dukhovlinova, Alexey Masharsky, Aleksandra Vasileva, Alessandro Porrello, Shuntai Zhou, Olga Toussova, Sergei Verevochkin, Ekaterina Akulova, Dmitrij Frishman, David Montefiori, Celia Labranche, Irving Hoffman, William Miller, Myron S Cohen, Andrei Kozlov, Ronald Swanstrom
Understanding features of the HIV-1 transmission process have the potential to inform biological interventions for prevention. We have examined the transmitted virus in a cohort of people who inject drugs and who are at risk of HIV-1 infection through blood contamination when injecting in a group. This study focused on seven newly infected participants in St. Petersburg, Russia, who were in acute or early infection. We used end-point dilution PCR to amplify single viral genomes to assess the complexity of the transmitted virus...
May 14, 2018: AIDS Research and Human Retroviruses
https://www.readbyqxmd.com/read/29755620/human-genomic-loci-important-in-common-infectious-diseases-role-of-high-throughput-sequencing-and-genome-wide-association-studies
#18
REVIEW
Gerald Mboowa, Ivan Sserwadda, Marion Amujal, Norah Namatovu
HIV/AIDS, tuberculosis (TB), and malaria are 3 major global public health threats that undermine development in many resource-poor settings. Recently, the notion that positive selection during epidemics or longer periods of exposure to common infectious diseases may have had a major effect in modifying the constitution of the human genome is being interrogated at a large scale in many populations around the world. This positive selection from infectious diseases increases power to detect associations in genome-wide association studies (GWASs)...
2018: Canadian Journal of Infectious Diseases & Medical Microbiology
https://www.readbyqxmd.com/read/29750364/performance-comparison-of-deep-sequencing-platforms-for-detecting-hiv-1-variants-in-the-pol-gene
#19
Florence Nicot, Nicolas Jeanne, Stéphanie Raymond, Olivier Delfour, Romain Carcenac, Caroline Lefebvre, Karine Sauné, Pierre Delobel, Jacques Izopet
The present study compares the performances of an in-house sequencing protocol on MiSeq to those of the Sanger method, and the 454 GS-FLX for detecting and quantifying drug-resistant mutations in the HIV polymerase gene (reverse transcriptase and protease). MiSeq sequencing identified all the resistance mutations detected by bulk sequencing (n=84). The MiSeq and 454 GS-FLX platforms both identified 67 drug-resistant mutations in the reverse transcriptase and protease regions, but a further 25 drug-resistant mutations were seen by only one or other of them...
May 11, 2018: Journal of Medical Virology
https://www.readbyqxmd.com/read/29745847/treeshrink-fast-and-accurate-detection-of-outlier-long-branches-in-collections-of-phylogenetic-trees
#20
Uyen Mai, Siavash Mirarab
BACKGROUND: Sequence data used in reconstructing phylogenetic trees may include various sources of error. Typically errors are detected at the sequence level, but when missed, the erroneous sequences often appear as unexpectedly long branches in the inferred phylogeny. RESULTS: We propose an automatic method to detect such errors. We build a phylogeny including all the data then detect sequences that artificially inflate the tree diameter. We formulate an optimization problem, called the k-shrink problem, that seeks to find k leaves that could be removed to maximally reduce the tree diameter...
May 8, 2018: BMC Genomics
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