About: Phylogeographic analysis of hemorrhagic fever with renal syndrome patients using multiplex PCR-based next generation sequencing

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Phylogeographic analysis of hemorrhagic fever with renal syndrome patients using multiplex PCR-based next generation sequencing
Creator	Palacios, Gustavo Wiley, Michael Kim, Heung-Chul Kim, Won-Keun Lee, Seung-Ho Song, Jin-Won Kim, Jeong-Ah Lee, Daesang Lee, Sook-Young Gu, Hun Jeong, Seong Kho, Jeong Kim, Ji Kim, Yong Klein, Terry No, Jin Song, Dong
Source	PMC
abstract	Emerging and re-emerging infectious diseases caused by RNA viruses pose a critical public health threat. Next generation sequencing (NGS) is a powerful technology to define genomic sequences of the viruses. Of particular interest is the use of whole genome sequencing (WGS) to perform phylogeographic analysis, that allows the detection and tracking of the emergence of viral infections. Hantaviruses, Bunyaviridae, cause hemorrhagic fever with renal syndrome (HFRS) and hantavirus pulmonary syndrome (HPS) in humans. We propose to use WGS for the phylogeographic analysis of human hantavirus infections. A novel multiplex PCR-based NGS was developed to gather whole genome sequences of Hantaan virus (HTNV) from HFRS patients and rodent hosts in endemic areas. The obtained genomes were described for the spatial and temporal links between cases and their sources. Phylogenetic analyses demonstrated geographic clustering of HTNV strains from clinical specimens with the HTNV strains circulating in rodents, suggesting the most likely site and time of infection. Recombination analysis demonstrated a genome organization compatible with recombination of the HTNV S segment. The multiplex PCR-based NGS is useful and robust to acquire viral genomic sequences and may provide important ways to define the phylogeographical association and molecular evolution of hantaviruses.
has issue date	2016-05-25(xsd:dateTime)
bibo:doi	10.1038/srep26017
bibo:pmid	27221218
has license	cc-by
sha1sum (hex)	6518eb44df3244c513ccb0ceea5b7f3eb3dd9b52
schema:url	https://doi.org/10.1038/srep26017
resource representing a document's title	Phylogeographic analysis of hemorrhagic fever with renal syndrome patients using multiplex PCR-based next generation sequencing
has PubMed Central identifier	PMC4879520
has PubMed identifier	27221218
schema:publication	Sci Rep
resource representing a document's body	covid:6518eb44df3244c513ccb0ceea5b7f3eb3dd9b52#body_text
is schema:about of	named entity 'USING' named entity 'rodent' named entity 'multiplex' named entity 'genomic' named entity 'genome' named entity 'infection' named entity 'VIRUSES' named entity 'ENDEMIC' named entity 'GEOGRAPHIC' named entity 'SEQUENCES' named entity 'GENOME ORGANIZATION' named entity 'NEXT GENERATION SEQUENCING' named entity 'RECOMBINATION' named entity 'INTEREST' named entity 'ANALYSIS' named entity 'POSE' named entity 'PATIENTS' named entity 'CLINICAL' named entity 'ROBUST' named entity 'NGS' named entity 'POWERFUL' named entity 'SPATIAL' named entity 'GENOMES' named entity 'SOURCES' named entity 'PARTICULAR' named entity 'TEMPORAL' named entity 'HANTAAN VIRUS' named entity 'NOVEL' named entity 'HEMORRHAGIC FEVER WITH RENAL SYNDROME' named entity 'BASED' named entity 'VIRAL' named entity 'HANTAVIRUS INFECTIONS' named entity 'CLUSTERING' named entity 'GENOMIC' named entity 'AREAS' named entity 'WHOLE GENOME SEQUENCING' named entity 'HOSTS' named entity 'USEFUL' named entity 'SITE' named entity 'HUMANS' named entity 'EMERGING INFECTIOUS DISEASES' named entity 'RODENTS' named entity 'IS A' named entity 'CASES' named entity 'PERFORM' named entity 'MOLECULAR EVOLUTION' named entity 'RNA VIRUSES' named entity 'OPEN' named entity 'SEGMENT' named entity 'COMPATIBLE WITH' named entity 'EMERGENCE' named entity 'PROVIDE' named entity 'MULTIPLEX PCR' named entity 'VIRAL INFECTIONS' named entity 'THEIR' named entity 'HANTAVIRUSES' named entity 'NEXT GENERATION SEQUENCING' named entity 'CRITICAL' named entity 'PATIENTS' named entity 'BASED' named entity 'ANALYSIS' named entity 'CAUSED BY' named entity 'ASSOCIATION' named entity 'MOST LIKELY' named entity 'TRACKING'

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