PandemieGrippaleV1, PubMed, Corpus, bibRecord, 000608

Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.

Identifieur interne : 000608 ( PubMed/Corpus ); précédent : 000607; suivant : 000609

Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.

Auteurs : Yongli Xiao ; Zong-Mei Sheng ; Jeffery K. Taubenberger

Source :

Current protocols in microbiology [ 1934-8533 ] ; 2015.

RBID : pubmed:26344216

English descriptors

KwdEn :
- Gene Library, High-Throughput Nucleotide Sequencing, Humans, Influenza A Virus, H1N1 Subtype (genetics), Influenza A Virus, H1N1 Subtype (isolation & purification), Influenza Pandemic, 1918-1919, Pathology, Molecular (methods), RNA, Viral (genetics), RNA, Viral (isolation & purification).
MESH :
- chemical , genetics : RNA, Viral.
- genetics : Influenza A Virus, H1N1 Subtype.
- isolation & purification : Influenza A Virus, H1N1 Subtype, RNA, Viral.
- methods : Pathology, Molecular.
- Gene Library, High-Throughput Nucleotide Sequencing, Humans, Influenza Pandemic, 1918-1919.

Abstract

The vast majority of surgical biopsy and post-mortem tissue samples are formalin-fixed and paraffin-embedded (FFPE), but this process leads to RNA degradation that limits gene expression analysis. As an example, the viral RNA genome of the 1918 pandemic influenza A virus was previously determined in a 9-year effort by overlapping RT-PCR from post-mortem samples. Using the protocols described here, the full genome of the 1918 virus was determined at high coverage in one high-throughput sequencing run of a cDNA library derived from total RNA of a 1918 FFPE sample after duplex-specific nuclease treatments. This basic methodological approach should assist in the analysis of FFPE tissue samples isolated over the past century from a variety of infectious diseases.

DOI: 10.1002/9780471729259.mc01e08s37
PubMed: 26344216

Links to Exploration step

pubmed:26344216

Le document en format XML

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<author><name sortKey="Xiao, Yongli" sort="Xiao, Yongli" uniqKey="Xiao Y" first="Yongli" last="Xiao">Yongli Xiao</name>
<affiliation><nlm:affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</nlm:affiliation>
</affiliation>
</author>
<author><name sortKey="Sheng, Zong Mei" sort="Sheng, Zong Mei" uniqKey="Sheng Z" first="Zong-Mei" last="Sheng">Zong-Mei Sheng</name>
<affiliation><nlm:affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</nlm:affiliation>
</affiliation>
</author>
<author><name sortKey="Taubenberger, Jeffery K" sort="Taubenberger, Jeffery K" uniqKey="Taubenberger J" first="Jeffery K" last="Taubenberger">Jeffery K. Taubenberger</name>
<affiliation><nlm:affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</nlm:affiliation>
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<sourceDesc><biblStruct><analytic><title xml:lang="en">Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.</title>
<author><name sortKey="Xiao, Yongli" sort="Xiao, Yongli" uniqKey="Xiao Y" first="Yongli" last="Xiao">Yongli Xiao</name>
<affiliation><nlm:affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</nlm:affiliation>
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<author><name sortKey="Sheng, Zong Mei" sort="Sheng, Zong Mei" uniqKey="Sheng Z" first="Zong-Mei" last="Sheng">Zong-Mei Sheng</name>
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<author><name sortKey="Taubenberger, Jeffery K" sort="Taubenberger, Jeffery K" uniqKey="Taubenberger J" first="Jeffery K" last="Taubenberger">Jeffery K. Taubenberger</name>
<affiliation><nlm:affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</nlm:affiliation>
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<series><title level="j">Current protocols in microbiology</title>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Gene Library</term>
<term>High-Throughput Nucleotide Sequencing</term>
<term>Humans</term>
<term>Influenza A Virus, H1N1 Subtype (genetics)</term>
<term>Influenza A Virus, H1N1 Subtype (isolation & purification)</term>
<term>Influenza Pandemic, 1918-1919</term>
<term>Pathology, Molecular (methods)</term>
<term>RNA, Viral (genetics)</term>
<term>RNA, Viral (isolation & purification)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Viral</term>
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<keywords scheme="MESH" xml:lang="en"><term>Gene Library</term>
<term>High-Throughput Nucleotide Sequencing</term>
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<term>Influenza Pandemic, 1918-1919</term>
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<front><div type="abstract" xml:lang="en">The vast majority of surgical biopsy and post-mortem tissue samples are formalin-fixed and paraffin-embedded (FFPE), but this process leads to RNA degradation that limits gene expression analysis. As an example, the viral RNA genome of the 1918 pandemic influenza A virus was previously determined in a 9-year effort by overlapping RT-PCR from post-mortem samples. Using the protocols described here, the full genome of the 1918 virus was determined at high coverage in one high-throughput sequencing run of a cDNA library derived from total RNA of a 1918 FFPE sample after duplex-specific nuclease treatments. This basic methodological approach should assist in the analysis of FFPE tissue samples isolated over the past century from a variety of infectious diseases.</div>
</front>
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<DateCompleted><Year>2016</Year>
<Month>09</Month>
<Day>07</Day>
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<DateRevised><Year>2019</Year>
<Month>10</Month>
<Day>08</Day>
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<Month>May</Month>
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<Title>Current protocols in microbiology</Title>
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<ArticleTitle>Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.</ArticleTitle>
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<Abstract><AbstractText>The vast majority of surgical biopsy and post-mortem tissue samples are formalin-fixed and paraffin-embedded (FFPE), but this process leads to RNA degradation that limits gene expression analysis. As an example, the viral RNA genome of the 1918 pandemic influenza A virus was previously determined in a 9-year effort by overlapping RT-PCR from post-mortem samples. Using the protocols described here, the full genome of the 1918 virus was determined at high coverage in one high-throughput sequencing run of a cDNA library derived from total RNA of a 1918 FFPE sample after duplex-specific nuclease treatments. This basic methodological approach should assist in the analysis of FFPE tissue samples isolated over the past century from a variety of infectious diseases.</AbstractText>
<CopyrightInformation>Copyright © 2005 John Wiley & Sons, Inc. All rights reserved.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xiao</LastName>
<ForeName>Yongli</ForeName>
<Initials>Y</Initials>
<AffiliationInfo><Affiliation>Viral Pathogenesis and Evolution Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland.</Affiliation>
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<Author ValidYN="Y"><LastName>Sheng</LastName>
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<Country>United States</Country>
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<Keyword MajorTopicYN="N">cDNA</Keyword>
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<Keyword MajorTopicYN="N">library</Keyword>
<Keyword MajorTopicYN="N">polymerase chain reaction</Keyword>
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Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.

Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing.

Source :

English descriptors

Abstract

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki