Genome sequences of dengue virus serotypes 2, 3, and 4 isolated from adult patients in Thailand.

Here, we present the genome sequences of dengue viruses (DENV) isolated from adult patients in Thailand during 2016-2017: DENV2 (412749), DENV3 (416384), and DENV4 (416709). These sequences provide valuable genetic and evolutionary information for dengue research and antiviral development.

Genome sequence of dengue virus serotype 1 isolated from a pediatric patient enrolled in an Ivermectin trial in Thailand.

We sequenced the genome of dengue virus serotype 1 (DENV1) strain 4101301, isolated from a child with dengue fever in Thailand and cultured in C6/36 mosquito cells. These data are crucial for studying DENV1's genetic diversity, evolution, and epidemiology and advancing the knowledge for developing antiviral drugs and vaccines targeting DENV.

RNA Sequencing Data Sets and Their Whole-Genome Sequence Assembly of Dengue Virus from Three Serial Passages in Vero Cells.

We present RNA sequencing data sets and their genome sequence assembly for dengue virus that was isolated from a patient with dengue hemorrhagic fever and serially propagated in Vero cells. RNA sequencing data obtained from the first, third, and fifth passages and their corresponding whole-genome sequences are provided in this work.

Application of One-Step Reverse Transcription Droplet Digital PCR for Dengue Virus Detection and Quantification in Clinical Specimens.

Detection and quantification of viruses in laboratory and clinical samples are standard assays in dengue virus (DENV) studies. The quantitative reverse transcription polymerase chain reaction (qRT-PCR) is considered to be the standard for DENV detection and quantification due to its high sensitivity. However, qRT-PCR offers only quantification relative to a standard curve and consists of several "in-house" components resulting in interlaboratory variations.

Genetic diversity of the dengue virus population in dengue fever and dengue hemorrhagic fever patients.

Background: The error-prone replication of dengue virus (DENV) in host results in the highly diverse viral population. Together with the host factor, intra-host diversity may influence the disease severity. Therefore, it is worth investigating whether there is a correlation between intra-host genetic diversity and disease severity.

Complete Genome Sequences of Four Serotypes of Dengue Virus Prototype Continuously Maintained in the Laboratory.

Dengue prototype strains are widely used for virological study. The strains presented here have been cultured under different laboratory environments, resulting in accumulating genetic variations. We present the genomes of four serotypes of the dengue prototype strain that were continuously maintained in the laboratory.

Characterising private and shared signatures of positive selection in 37 Asian populations.

The Asian Diversity Project (ADP) assembled 37 cosmopolitan and ethnic minority populations in Asia that have been densely genotyped across over half a million markers to study patterns of genetic diversity and positive natural selection. We performed population structure analyses of the ADP populations and divided these populations into four major groups based on their genographic information. By applying a highly sensitive algorithm haploPS to locate genomic signatures of positive selection, 140 distinct genomic regions exhibiting evidence of positive selection in at least one population were identified.

Sense-antisense gene pairs: sequence, transcription, and structure are not conserved between human and mouse.

Previous efforts to characterize conservation between the human and mouse genomes focused largely on sequence comparisons. These studies are inherently limited because they don't account for gene structure differences, which may exist despite genomic sequence conservation. Recent high-throughput transcriptome studies have revealed widespread and extensive overlaps between genes, and transcripts, encoded on both strands of the genomic sequence.

A simplified positive-sense-RNA virus construction approach that enhances analysis throughput.

Here we present an approach that advances the throughput of a genetic analysis of a positive-sense RNA virus by simplifying virus construction. It enabled comprehensive dissection of a complex, multigene phenotype through rapid derivation of a large number of chimeric viruses and construction of a mutant library directly from a virus pool. The versatility of the approach described here expands the applicability of diverse genetic approaches to study these viruses.

Feasibility of using 454 pyrosequencing for studying quasispecies of the whole dengue viral genome.

Background: Dengue is the world's most common mosquito-borne viral disease. Poor proofreading by RNA polymerase during its replication results in the accumulation of mutations in its genome. This leads to a diversity of genotypes in the viral population termed quasispecies.