GrippeEspagneV1, Main, Exploration, bibRecord, 000274

BK polyomavirus genotyping at inter- and intra-patient level in Spain.

Identifieur interne : 000274 ( Main/Exploration ); précédent : 000273; suivant : 000275

BK polyomavirus genotyping at inter- and intra-patient level in Spain.

Auteurs : J. Ledesma [Espagne] ; E. Bouza ; M A González-Nicolás ; D. García De Viedma ; B. Rodríguez-Sánchez ; P. Mu Oz

Source :

Journal of medical virology [ 1096-9071 ] ; 2013.

RBID : pubmed:23765776

Descripteurs français

KwdFr :
- ADN viral (composition chimique), ADN viral (génétique), Analyse de regroupements (MeSH), Analyse de séquence d'ADN (MeSH), Données de séquences moléculaires (MeSH), Enfant (MeSH), Espagne (MeSH), Génotype (MeSH), Humains (MeSH), Infections à polyomavirus (virologie), Mâle (MeSH), Phylogenèse (MeSH), Plasma sanguin (virologie), Protéines de capside (génétique), Similitude de séquences (MeSH), Urine (virologie), Virus BK (classification), Virus BK (génétique), Virus BK (isolement et purification).
MESH :
- composition chimique : ADN viral, Virus BK.
- génétique : ADN viral, Protéines de capside, Virus BK.
- isolement et purification : Virus BK.
- virologie : Infections à polyomavirus, Plasma sanguin, Urine.
- Analyse de regroupements, Analyse de séquence d'ADN, Données de séquences moléculaires, Enfant, Espagne, Génotype, Humains, Mâle, Phylogenèse, Similitude de séquences.
Wicri :
- geographic : Espagne.

English descriptors

KwdEn :
- BK Virus (classification), BK Virus (genetics), BK Virus (isolation & purification), Capsid Proteins (genetics), Child (MeSH), Cluster Analysis (MeSH), DNA, Viral (chemistry), DNA, Viral (genetics), Genotype (MeSH), Humans (MeSH), Male (MeSH), Molecular Sequence Data (MeSH), Phylogeny (MeSH), Plasma (virology), Polyomavirus Infections (virology), Sequence Analysis, DNA (MeSH), Sequence Homology (MeSH), Spain (MeSH), Urine (virology).
MESH :
- chemical , chemistry : DNA, Viral.
- chemical , genetics : Capsid Proteins, DNA, Viral.
- geographic : Spain.
- classification : BK Virus.
- genetics : BK Virus.
- isolation & purification : BK Virus.
- virology : Plasma, Polyomavirus Infections, Urine.
- Child, Cluster Analysis, Genotype, Humans, Male, Molecular Sequence Data, Phylogeny, Sequence Analysis, DNA, Sequence Homology.

Abstract

BK polyomavirus (BKV) is classified into four subtypes based on nucleotide variation of a 287 bp typing region in the VP1 protein. Most studies show that subtype I is predominant in different geographic settings, followed by subtype IV. However, BKV subtypes II and III are detected at low rates. In Spain, the prevalence of each subtype is not well known. The aim of this study was to identify the BKV subtypes from a selection of different types of patients and to determine whether different subtypes could be infecting the same patient. A hundred and twenty nine BKV-positive urine samples were selected to amplify and sequence the typing region. Plasma specimens collected at the same time as the urine samples were also studied in 34 patients. A phylogenetic analysis and a study of substitutions in the VP1 protein were carried out with the sequences obtained. Subtype I was the predominant subtype detected in urine (61.2%) and plasma (38.2%) samples followed by subtype II. The analysis of paired samples showed that the subtype found in urine was different from that found in plasma in 10 patients. Fourteen BKV variants based on substitutions in VP1 were identified. The finding of compartmentalized infections involving different subtypes at different sites in some patients might mean specific and different selective pressure in each tissue. The potential involvement in the viral cycle of the different BKV variants found should be analyzed.

DOI: 10.1002/jmv.23612
PubMed: 23765776

Affiliations:

Links toward previous steps (curation, corpus...)

to stream Main, to step Corpus: 00237
to stream Main, to step Curation: 000237

Le document en format XML

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<front><div type="abstract" xml:lang="en">BK polyomavirus (BKV) is classified into four subtypes based on nucleotide variation of a 287 bp typing region in the VP1 protein. Most studies show that subtype I is predominant in different geographic settings, followed by subtype IV. However, BKV subtypes II and III are detected at low rates. In Spain, the prevalence of each subtype is not well known. The aim of this study was to identify the BKV subtypes from a selection of different types of patients and to determine whether different subtypes could be infecting the same patient. A hundred and twenty nine BKV-positive urine samples were selected to amplify and sequence the typing region. Plasma specimens collected at the same time as the urine samples were also studied in 34 patients. A phylogenetic analysis and a study of substitutions in the VP1 protein were carried out with the sequences obtained. Subtype I was the predominant subtype detected in urine (61.2%) and plasma (38.2%) samples followed by subtype II. The analysis of paired samples showed that the subtype found in urine was different from that found in plasma in 10 patients. Fourteen BKV variants based on substitutions in VP1 were identified. The finding of compartmentalized infections involving different subtypes at different sites in some patients might mean specific and different selective pressure in each tissue. The potential involvement in the viral cycle of the different BKV variants found should be analyzed.</div>
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<Abstract><AbstractText>BK polyomavirus (BKV) is classified into four subtypes based on nucleotide variation of a 287 bp typing region in the VP1 protein. Most studies show that subtype I is predominant in different geographic settings, followed by subtype IV. However, BKV subtypes II and III are detected at low rates. In Spain, the prevalence of each subtype is not well known. The aim of this study was to identify the BKV subtypes from a selection of different types of patients and to determine whether different subtypes could be infecting the same patient. A hundred and twenty nine BKV-positive urine samples were selected to amplify and sequence the typing region. Plasma specimens collected at the same time as the urine samples were also studied in 34 patients. A phylogenetic analysis and a study of substitutions in the VP1 protein were carried out with the sequences obtained. Subtype I was the predominant subtype detected in urine (61.2%) and plasma (38.2%) samples followed by subtype II. The analysis of paired samples showed that the subtype found in urine was different from that found in plasma in 10 patients. Fourteen BKV variants based on substitutions in VP1 were identified. The finding of compartmentalized infections involving different subtypes at different sites in some patients might mean specific and different selective pressure in each tissue. The potential involvement in the viral cycle of the different BKV variants found should be analyzed.</AbstractText>
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<NlmUniqueID>7705876</NlmUniqueID>
<ISSNLinking>0146-6615</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D036022">Capsid Proteins</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D004279">DNA, Viral</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="C062481">VP1 protein, polyomavirus</NameOfSubstance>
</Chemical>
</ChemicalList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D001739" MajorTopicYN="N">BK Virus</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D036022" MajorTopicYN="N">Capsid Proteins</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D002648" MajorTopicYN="N">Child</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D016000" MajorTopicYN="N">Cluster Analysis</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D004279" MajorTopicYN="N">DNA, Viral</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D005838" MajorTopicYN="N">Genotype</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008297" MajorTopicYN="N">Male</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010949" MajorTopicYN="N">Plasma</DescriptorName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D027601" MajorTopicYN="N">Polyomavirus Infections</DescriptorName>
<QualifierName UI="Q000821" MajorTopicYN="Y">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017385" MajorTopicYN="N">Sequence Homology</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D013030" MajorTopicYN="N" Type="Geographic">Spain</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014556" MajorTopicYN="N">Urine</DescriptorName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
</MeshHeadingList>
</MedlineCitation>
<PubmedData><History><PubMedPubDate PubStatus="accepted"><Year>2013</Year>
<Month>03</Month>
<Day>06</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="entrez"><Year>2013</Year>
<Month>6</Month>
<Day>15</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="pubmed"><Year>2013</Year>
<Month>6</Month>
<Day>15</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="medline"><Year>2013</Year>
<Month>12</Month>
<Day>24</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
</History>
<PublicationStatus>ppublish</PublicationStatus>
<ArticleIdList><ArticleId IdType="pubmed">23765776</ArticleId>
<ArticleId IdType="doi">10.1002/jmv.23612</ArticleId>
</ArticleIdList>
</PubmedData>
</pubmed>
<affiliations><list><country><li>Espagne</li>
</country>
<region><li>Communauté de Madrid</li>
</region>
<settlement><li>Madrid</li>
</settlement>
</list>
<tree><noCountry><name sortKey="Bouza, E" sort="Bouza, E" uniqKey="Bouza E" first="E" last="Bouza">E. Bouza</name>
<name sortKey="Garcia De Viedma, D" sort="Garcia De Viedma, D" uniqKey="Garcia De Viedma D" first="D" last="García De Viedma">D. García De Viedma</name>
<name sortKey="Gonzalez Nicolas, M A" sort="Gonzalez Nicolas, M A" uniqKey="Gonzalez Nicolas M" first="M A" last="González-Nicolás">M A González-Nicolás</name>
<name sortKey="Mu Oz, P" sort="Mu Oz, P" uniqKey="Mu Oz P" first="P" last="Mu Oz">P. Mu Oz</name>
<name sortKey="Rodriguez Sanchez, B" sort="Rodriguez Sanchez, B" uniqKey="Rodriguez Sanchez B" first="B" last="Rodríguez-Sánchez">B. Rodríguez-Sánchez</name>
</noCountry>
<country name="Espagne"><region name="Communauté de Madrid"><name sortKey="Ledesma, J" sort="Ledesma, J" uniqKey="Ledesma J" first="J" last="Ledesma">J. Ledesma</name>
</region>
</country>
</tree>
</affiliations>
</record>

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BK polyomavirus genotyping at inter- and intra-patient level in Spain.

BK polyomavirus genotyping at inter- and intra-patient level in Spain.

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