HIV-1 Unique Recombinant Forms Identified in Slovenia and Their Characterization by Near Full-Length Genome Sequencing [PDF]
Viruses, 2020 Surveillance of HIV circulating recombinant forms (CRFs) is important because HIV diversity can affect various aspects of HIV infection from prevention to diagnosis and patient management.
Maja M. Lunar +3 more
doaj +4 more sources
Comparative HIV-1 Phylogenies Characterized by PR/RT, Pol and Near-Full-Length Genome Sequences [PDF]
Viruses, 2022 In an effort to evaluate the accuracy of HIV-1 phylogenies based on genomes of increasing length, we developed a comprehensive near-full-length HIV-1 genome RT–PCR assay and performed a comparative evaluation via phylogenetic analyses.
Cicek Topcu +3 more
doaj +2 more sources
Measuring the latent reservoir for HIV-1: Quantification bias in near full-length genome sequencing methods. [PDF]
PLoS Pathogens, 2022 Antiretroviral therapy (ART) effectively inhibits HIV-1 replication but is not curative due to the persistence of a latent viral reservoir in resting CD4+ T cells. This reservoir is a major barrier to cure.
Jennifer A White +9 more
doaj +2 more sources
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea [PDF]
Scientific Reports, 2021 In Korea, subtype B is the predominant variant of HIV-1, but full genome sequencing and analysis of its viral variants are lacking. We performed near full-length genome (NFLG) sequencing and phylogenetic and recombination analyses of fifty plasma samples
Sangmi Ryou +14 more
doaj +2 more sources
Quasispecies Analyses of the HIV-1 Near-full-length Genome with Illumina MiSeq [PDF]
Frontiers in Microbiology, 2015 Human immunodeficiency virus type-1 (HIV-1) exhibits high between-host genetic diversity and within-host heterogeneity, recognized as quasispecies. Because HIV-1 quasispecies fluctuate in terms of multiple factors, such as antiretroviral exposure and ...
Hirotaka eOde +10 more
doaj +2 more sources
PacBio high-fidelity near full-length genome sequencing for HIV-1 quasispecies: methodological framework and validation [PDF]
Frontiers in MicrobiologyThis study aimed to develop an optimized sequencing workflow for HIV-1 near full-length genome (NFLG) quasispecies, integrating the PacBio Revio platform with a streamlined bioinformatics pipeline to enable precise characterization of the genetic ...
Bo Zhu +12 more
doaj +2 more sources
T-shaped alignments integrating HIV-1 near full-length genome and partial pol sequences can improve phylogenetic inference of transmission clusters. [PDF]
PLoS Computational BiologyMolecular epidemiology and HIV-1 transmission networks reconstruction can provide insights into transmission dynamics and inform public health strategies.
August Guang +4 more
doaj +2 more sources
Progress in Flax Genome Assembly from Nanopore Sequencing Data [PDF]
PlantsIn recent years, the quality of genome assemblies has notably improved, primarily due to advances in third-generation sequencing technologies and bioinformatics tools.
Elena N. Pushkova +15 more
doaj +2 more sources
Signals Involved in Regulation of Hepatitis C Virus RNA Genome Translation and Replication [PDF]
Frontiers in Microbiology, 2018 Hepatitis C virus (HCV) preferentially replicates in the human liver and frequently causes chronic infection, often leading to cirrhosis and liver cancer.
Michael Niepmann +5 more
doaj +3 more sources
Vesicular stomatitis Indiana virus near-full-length genome sequences reveal low genetic diversity during the 2019 outbreak in Colorado, USA [PDF]
Frontiers in Veterinary Science, 2023 Miranda R. Bertram +6 more
doaj +2 more sources