About: A phylogeographical study of the Turnip mosaic virus population in East Asia reveals an ‘emergent’ lineage in Japan

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About: A phylogeographical study of the Turnip mosaic virus population in East Asia reveals an ‘emergent’ lineage in Japan Goto Sponge NotDistinct Permalink

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	A phylogeographical study of the Turnip mosaic virus population in East Asia reveals an ‘emergent’ lineage in Japan
Creator	U H I R O T O M I T, Y Z U S A T O O H S H I M A, K
Source	PMC
abstract	The genetic structure of populations of Turnip mosaic virus (TuMV) in East Asia was assessed by making host range and gene sequence comparisons of 118 isolates utilizing a population genetic approach. Most, but not all, isolates collected from Brassica plants in China infected only Brassica plants, whereas those from Japan infected both Brassica and Raphanus (BR) plants. Analyses of the positions of recombination sites in five regions of the genomes (one third of the full sequence) of the many recombinant isolates were fully congruent with the results of phylogenetic analysis, and at least one recombination type pattern was shared between Chinese and Japanese populations. One lineage of nonrecombinant isolates from the basal‐BR lineage was found in 2000 in Kyushu, Japan but none in China, and have since been found over the whole island. The sudden expansion of this basal‐BR population was strongly supported by calculations showing the deviations from the neutral equilibrium model for the individual geographical lineages with overall lack of nucleotide diversity, and by analysis of mismatch distribution. Our study shows that the recent Chinese and Japanese TuMV isolates are part of the same population but are discrete lineages.
has issue date	2006-11-14(xsd:dateTime)
bibo:doi	10.1111/j.1365-294x.2006.03094.x
bibo:pmid	17107475
has license	no-cc
sha1sum (hex)	87634587c3e88e58b6833a638bdf4de5d55ae03e
schema:url	https://doi.org/10.1111/j.1365-294x.2006.03094.x
resource representing a document's title	A phylogeographical study of the Turnip mosaic virus population in East Asia reveals an ‘emergent’ lineage in Japan
has PubMed Central identifier	PMC7201873
has PubMed identifier	17107475
schema:publication	Mol Ecol
resource representing a document's body	covid:87634587c3e88e58b6833a638bdf4de5d55ae03e#body_text
is schema:about of	named entity 'East Asia' named entity 'plants' named entity 'East Asia' named entity 'INDIVIDUAL' named entity 'CHINESE' named entity 'HAVE' named entity 'BUT' named entity 'NEUTRAL' named entity 'population' named entity 'collected' named entity 'Chinese' named entity 'Japan' named entity 'genetic structure' named entity 'type' named entity 'Most' named entity 'sudden' named entity 'China' named entity 'nucleotide diversity' named entity 'East Asia' named entity 'Japan' named entity 'phylogeographical' named entity 'gene' named entity 'Brassica' named entity 'Maynard Smith' named entity 'virus' named entity 'clustal' named entity 'clustal' named entity 'QIAGEN' named entity 'Japan' named entity 'Brassica plants' named entity 'phylogeny' named entity 'phylogeny' named entity 'genomic recombination' named entity 'plant viruses' named entity 'Japan' named entity 'phylogenies' named entity 'phylogenetic' named entity 'phylogenetic analyses' named entity 'mosaic virus' named entity 'phylogeographical' named entity 'Invitrogen' named entity 'Revers' named entity 'Brassica' named entity 'plant virus' named entity 'gene' named entity 'China' named entity 'young plants' named entity 'Japan' named entity 'plant viruses' named entity 'Strimmer' named entity 'homologous sequences' named entity 'Ranunculus asiaticus' named entity 'viral infection' named entity 'Provvidenti' named entity 'Brassica' named entity 'single-stranded' named entity 'China' named entity 'GenBank' named entity 'Taiwan' named entity 'virions' named entity 'P-value' named entity 'Kyushu' named entity 'reverse transcription-polymerase chain reaction' named entity 'Turnip mosaic virus' named entity 'Brassica' named entity 'RSs' named entity 'host plant' named entity 'shared ancestor' named entity 'Honshu' named entity 'Brassica' named entity 'Taiwan' named entity 'Strimmer' named entity 'RSs' named entity 'phylogeographical' named entity 'TSWV' named entity 'Japan' named entity 'B. rapa' named entity 'phylip' named entity 'recombination' named entity 'molecular studies'

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