Strand-Specific Dual RNA Sequencing of Bronchial Epithelial Cells Infected with Influenza A/H3N2 Viruses Reveals Splicing of Gene Segment 6 and Novel Host-Virus Interactions
Identifieur interne : 000157 ( Main/Exploration ); précédent : 000156; suivant : 000158Strand-Specific Dual RNA Sequencing of Bronchial Epithelial Cells Infected with Influenza A/H3N2 Viruses Reveals Splicing of Gene Segment 6 and Novel Host-Virus Interactions
Auteurs : Giulia Fabozzi [États-Unis] ; Andrew J. Oler [États-Unis] ; Poching Liu [États-Unis] ; Yong Chen [États-Unis] ; Samuel Mindaye [États-Unis] ; Michael A. Dolan [États-Unis] ; Heather Kenney [États-Unis] ; Marjan Gucek [États-Unis] ; Jun Zhu [États-Unis] ; Ronald L. Rabin [États-Unis] ; Kanta Subbarao [États-Unis]Source :
- Journal of Virology [ 0022-538X ] ; 2018.
Abstract
The use of massively parallel RNA sequencing (RNA-seq) has revealed insights into human and pathogen genomes and their evolution. Dual RNA-seq allows simultaneous dissection of host and pathogen genomes and strand-specific RNA-seq provides information about the polarity of the RNA. This is important in the case of negative-strand RNA viruses like influenza virus, which generate positive (complementary and mRNA) and negative-strand RNAs (genome) that differ in their potential to trigger innate immunity. Here, we characterize interactions between human bronchial epithelial cells and three influenza A/H3N2 strains using strand-specific dual RNA-seq. We focused on this subtype because of its epidemiological importance in causing significant morbidity and mortality during influenza epidemics. We report novel elements that differ between seasonal and laboratory strains highlighting the complexity of the host-virus interplay at the RNA level.
Url:
DOI: 10.1128/JVI.00518-18
PubMed: 29976658
PubMed Central: 6096831
Affiliations:
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Dolan</name><affiliation wicri:level="2"><nlm:aff id="aff3">Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Kenney, Heather" sort="Kenney, Heather" uniqKey="Kenney H" first="Heather" last="Kenney">Heather Kenney</name><affiliation wicri:level="2"><nlm:aff id="aff6">Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Gucek, Marjan" sort="Gucek, Marjan" uniqKey="Gucek M" first="Marjan" last="Gucek">Marjan Gucek</name><affiliation wicri:level="2"><nlm:aff id="aff5">Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name><affiliation wicri:level="2"><nlm:aff id="aff4">Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Rabin, Ronald L" sort="Rabin, Ronald L" uniqKey="Rabin R" first="Ronald L." last="Rabin">Ronald L. 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Oler</name><affiliation wicri:level="2"><nlm:aff id="aff3">Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Liu, Poching" sort="Liu, Poching" uniqKey="Liu P" first="Poching" last="Liu">Poching Liu</name><affiliation wicri:level="2"><nlm:aff id="aff4">Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Chen, Yong" sort="Chen, Yong" uniqKey="Chen Y" first="Yong" last="Chen">Yong Chen</name><affiliation wicri:level="2"><nlm:aff id="aff5">Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Mindaye, Samuel" sort="Mindaye, Samuel" uniqKey="Mindaye S" first="Samuel" last="Mindaye">Samuel Mindaye</name><affiliation wicri:level="2"><nlm:aff id="aff1">Laboratory of Immunobiochemistry, Division of Bacterial, Parasitic and Allergenic Products, Office of Vaccines Research and Review, Center for Biologics Evaluation and Research, U.S. Food and Drug Administration, Silver Spring, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Laboratory of Immunobiochemistry, Division of Bacterial, Parasitic and Allergenic Products, Office of Vaccines Research and Review, Center for Biologics Evaluation and Research, U.S. Food and Drug Administration, Silver Spring, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Dolan, Michael A" sort="Dolan, Michael A" uniqKey="Dolan M" first="Michael A." last="Dolan">Michael A. Dolan</name><affiliation wicri:level="2"><nlm:aff id="aff3">Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Kenney, Heather" sort="Kenney, Heather" uniqKey="Kenney H" first="Heather" last="Kenney">Heather Kenney</name><affiliation wicri:level="2"><nlm:aff id="aff6">Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Gucek, Marjan" sort="Gucek, Marjan" uniqKey="Gucek M" first="Marjan" last="Gucek">Marjan Gucek</name><affiliation wicri:level="2"><nlm:aff id="aff5">Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Proteomics Core, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name><affiliation wicri:level="2"><nlm:aff id="aff4">Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Systems Biology Center, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Rabin, Ronald L" sort="Rabin, Ronald L" uniqKey="Rabin R" first="Ronald L." last="Rabin">Ronald L. Rabin</name><affiliation wicri:level="2"><nlm:aff id="aff1">Laboratory of Immunobiochemistry, Division of Bacterial, Parasitic and Allergenic Products, Office of Vaccines Research and Review, Center for Biologics Evaluation and Research, U.S. Food and Drug Administration, Silver Spring, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Laboratory of Immunobiochemistry, Division of Bacterial, Parasitic and Allergenic Products, Office of Vaccines Research and Review, Center for Biologics Evaluation and Research, U.S. Food and Drug Administration, Silver Spring, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Subbarao, Kanta" sort="Subbarao, Kanta" uniqKey="Subbarao K" first="Kanta" last="Subbarao">Kanta Subbarao</name><affiliation wicri:level="2"><nlm:aff id="aff6">Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Emerging Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author></analytic><series><title level="j">Journal of Virology</title><idno type="ISSN">0022-538X</idno><idno type="eISSN">1098-5514</idno><imprint><date when="2018">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The use of massively parallel RNA sequencing (RNA-seq) has revealed insights into human and pathogen genomes and their evolution. Dual RNA-seq allows simultaneous dissection of host and pathogen genomes and strand-specific RNA-seq provides information about the polarity of the RNA. This is important in the case of negative-strand RNA viruses like influenza virus, which generate positive (complementary and mRNA) and negative-strand RNAs (genome) that differ in their potential to trigger innate immunity. Here, we characterize interactions between human bronchial epithelial cells and three influenza A/H3N2 strains using strand-specific dual RNA-seq. We focused on this subtype because of its epidemiological importance in causing significant morbidity and mortality during influenza epidemics. We report novel elements that differ between seasonal and laboratory strains highlighting the complexity of the host-virus interplay at the RNA level.</p></div></front></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Maryland</li></region></list><tree><country name="États-Unis"><region name="Maryland"><name sortKey="Fabozzi, Giulia" sort="Fabozzi, Giulia" uniqKey="Fabozzi G" first="Giulia" last="Fabozzi">Giulia Fabozzi</name></region><name sortKey="Chen, Yong" sort="Chen, Yong" uniqKey="Chen Y" first="Yong" last="Chen">Yong Chen</name><name sortKey="Dolan, Michael A" sort="Dolan, Michael A" uniqKey="Dolan M" first="Michael A." last="Dolan">Michael A. Dolan</name><name sortKey="Fabozzi, Giulia" sort="Fabozzi, Giulia" uniqKey="Fabozzi G" first="Giulia" last="Fabozzi">Giulia Fabozzi</name><name sortKey="Gucek, Marjan" sort="Gucek, Marjan" uniqKey="Gucek M" first="Marjan" last="Gucek">Marjan Gucek</name><name sortKey="Kenney, Heather" sort="Kenney, Heather" uniqKey="Kenney H" first="Heather" last="Kenney">Heather Kenney</name><name sortKey="Liu, Poching" sort="Liu, Poching" uniqKey="Liu P" first="Poching" last="Liu">Poching Liu</name><name sortKey="Mindaye, Samuel" sort="Mindaye, Samuel" uniqKey="Mindaye S" first="Samuel" last="Mindaye">Samuel Mindaye</name><name sortKey="Oler, Andrew J" sort="Oler, Andrew J" uniqKey="Oler A" first="Andrew J." last="Oler">Andrew J. Oler</name><name sortKey="Rabin, Ronald L" sort="Rabin, Ronald L" uniqKey="Rabin R" first="Ronald L." last="Rabin">Ronald L. Rabin</name><name sortKey="Subbarao, Kanta" sort="Subbarao, Kanta" uniqKey="Subbarao K" first="Kanta" last="Subbarao">Kanta Subbarao</name><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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