About: Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase Regions of Human Norovirus GII.P17-GII.17 in 2013

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About: Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase Regions of Human Norovirus GII.P17-GII.17 in 2013–2017 Goto Sponge NotDistinct Permalink

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

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase Regions of Human Norovirus GII.P17-GII.17 in 2013–2017
Creator	Mizukoshi, Fuminori Ishii, Haruyuki Kimura, Hirokazu Kuroda, Makoto Okabe, Nobuhiko Aso, Jumpei Katayama, Kazuhiko Matsushima, Yuki Motoya, Takumi Nagasawa, Koo Nakamura, Noriko Ogawa, Yasutaka Okamoto-Nakagawa, Reiko Ryo, Akihide Sadamasu, Kenji Sakon, Naomi Shigemoto, Naoki Shimizu, Hideaki Suzuki, Rieko Takahashi, Tomoko Terasoma, Fumio Tsukagoshi, Hiroyuki Tsutsui, Rika Ueki, Yo Yoshitomi, Hideaki Taube, Stefan Doan, Yen Mans, Janet
source	PMC
abstract	Human norovirus (HuNoV) GII.P17-GII.17 (Kawasaki2014 variant) reportedly emerged in 2014 and caused gastroenteritis outbreaks worldwide. To clarify the evolution of both VP1 and RNA-dependent RNA polymerase (RdRp) regions of GII.P17-GII.17, we analyzed both global and novel Japanese strains detected during 2013–2017. Time-scaled phylogenetic trees revealed that the ancestral GII.17 VP1 region diverged around 1949, while the ancestral GII.P17 RdRp region diverged around 2010. The evolutionary rates of the VP1 and RdRp regions were estimated at ~2.7 × 10(−3) and ~2.3 × 10(−3) substitutions/site/year, respectively. The phylogenetic distances of the VP1 region exhibited no overlaps between intra-cluster and inter-cluster peaks in the GII.17 strains, whereas those of the RdRp region exhibited a unimodal distribution in the GII.P17 strains. Conformational epitope positions in the VP1 protein of the GII.P17-GII.17 strains were similar, although some substitutions, insertions and deletions had occurred. Strains belonging to the same cluster also harbored substitutions around the binding sites for the histo-blood group antigens of the VP1 protein. Moreover, some amino acid substitutions were estimated to be near the interface between monomers and the active site of the RdRp protein. These results suggest that the GII.P17-GII.17 virus has produced variants with the potential to alter viral antigenicity, host-binding capability, and replication property over the past 10 years.
has issue date	2019-09-27(xsd:dateTime)
bibo:doi	10.3389/fmicb.2019.02189
bibo:pmid	31611853
has license	cc-by
sha1sum (hex)	81bc2f3c1d93804b0abc16686fe66673dda487f7
schema:url	https://doi.org/10.3389/fmicb.2019.02189
resource representing a document's title	Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase Regions of Human Norovirus GII.P17-GII.17 in 2013–2017
has PubMed Central identifier	PMC6777354
has PubMed identifier	31611853
schema:publication	Front Microbiol
resource representing a document's body	covid:81bc2f3c1d93804b0abc16686fe66673dda487f7#body_text
is schema:about of	named entity 'Strains' named entity 'strains' named entity 'potential' named entity 'distances' named entity 'site' named entity 'protein' named entity 'VP1' named entity 'HUMAN NOROVIRUS' named entity 'REGIONS' named entity 'VP1' named entity 'INTRA' named entity 'REGION' named entity 'VP1' named entity 'POTENTIAL' named entity 'DETECTED' named entity 'EPITOPE' named entity 'PAST' named entity 'PROPERTY' named entity 'CAPABILITY' named entity 'PEAKS' named entity 'GASTROENTERITIS' named entity 'P17' named entity 'STRAINS' named entity 'JAPANESE' named entity 'REPLICATION' named entity 'INTERFACE' named entity 'ESTIMATED' named entity 'DISTANCES' named entity 'CAUSED' named entity 'AMINO ACID SUBSTITUTIONS' named entity 'BC2' named entity 'NEAR' named entity 'VIRAL' named entity 'OCCURRED' named entity 'MONOMERS' named entity 'CLUSTER' named entity 'OVERLAPS' named entity 'VARIANT' named entity 'VIRUS' named entity 'REGIONS' named entity 'EVOLUTION' named entity 'PROTEIN' named entity 'GII' named entity 'ALTER' named entity 'RNA-DEPENDENT RNA POLYMERASE' named entity 'ANALYSIS' named entity 'BLOOD GROUP ANTIGENS' named entity 'RDRP' named entity 'INTER-' named entity '923' named entity 'HARBORED' covid:arg/81bc2f3c1d93804b0abc16686fe66673dda487f7 named entity 'RESULTS' named entity 'CLARIFY'

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