Integrative deep sequencing of the mouse lung transcriptome reveals differential expression of diverse classes of small RNAs in response to respiratory virus infection.
Identifieur interne : 002091 ( Main/Exploration ); précédent : 002090; suivant : 002092Integrative deep sequencing of the mouse lung transcriptome reveals differential expression of diverse classes of small RNAs in response to respiratory virus infection.
Auteurs : Xinxia Peng [États-Unis] ; Lisa Gralinski ; Martin T. Ferris ; Matthew B. Frieman ; Matthew J. Thomas ; Sean Proll ; Marcus J. Korth ; Jennifer R. Tisoncik ; Mark Heise ; Shujun Luo ; Gary P. Schroth ; Terrence M. Tumpey ; Chengjun Li ; Yoshihiro Kawaoka [États-Unis] ; Ralph S. Baric ; Michael G. KatzeSource :
- mBio [ 2150-7511 ] ; 2011.
Descripteurs français
- KwdFr :
- Animaux, Infections à Orthomyxoviridae (immunologie), Infections à coronavirus (immunologie), Petit ARN nucléolaire, Poumon (immunologie), Poumon (virologie), Régulation de l'expression des gènes, Souris, Souris de lignée C57BL, Séquençage nucléotidique à haut débit, Transcriptome, microARN (biosynthèse), microARN (génétique).
- MESH :
- biosynthèse : microARN.
- génétique : microARN.
- immunologie : Infections à Orthomyxoviridae, Infections à coronavirus, Poumon.
- virologie : Poumon.
- Animaux, Petit ARN nucléolaire, Régulation de l'expression des gènes, Souris, Souris de lignée C57BL, Séquençage nucléotidique à haut débit, Transcriptome.
English descriptors
- KwdEn :
- Animals, Coronavirus Infections (immunology), Gene Expression Regulation, High-Throughput Nucleotide Sequencing, Lung (immunology), Lung (virology), Mice, Mice, Inbred C57BL, MicroRNAs (biosynthesis), MicroRNAs (genetics), Orthomyxoviridae Infections (immunology), RNA, Small Nucleolar, Transcriptome.
- MESH :
- chemical , biosynthesis : MicroRNAs.
- chemical , genetics : MicroRNAs.
- immunology : Coronavirus Infections, Lung, Orthomyxoviridae Infections.
- virology : Lung.
- Animals, Gene Expression Regulation, High-Throughput Nucleotide Sequencing, Mice, Mice, Inbred C57BL, RNA, Small Nucleolar, Transcriptome.
Abstract
We previously reported widespread differential expression of long non-protein-coding RNAs (ncRNAs) in response to virus infection. Here, we expanded the study through small RNA transcriptome sequencing analysis of the host response to both severe acute respiratory syndrome coronavirus (SARS-CoV) and influenza virus infections across four founder mouse strains of the Collaborative Cross, a recombinant inbred mouse resource for mapping complex traits. We observed differential expression of over 200 small RNAs of diverse classes during infection. A majority of identified microRNAs (miRNAs) showed divergent changes in expression across mouse strains with respect to SARS-CoV and influenza virus infections and responded differently to a highly pathogenic reconstructed 1918 virus compared to a minimally pathogenic seasonal influenza virus isolate. Novel insights into miRNA expression changes, including the association with pathogenic outcomes and large differences between in vivo and in vitro experimental systems, were further elucidated by a survey of selected miRNAs across diverse virus infections. The small RNAs identified also included many non-miRNA small RNAs, such as small nucleolar RNAs (snoRNAs), in addition to nonannotated small RNAs. An integrative sequencing analysis of both small RNAs and long transcripts from the same samples showed that the results revealing differential expression of miRNAs during infection were largely due to transcriptional regulation and that the predicted miRNA-mRNA network could modulate global host responses to virus infection in a combinatorial fashion. These findings represent the first integrated sequencing analysis of the response of host small RNAs to virus infection and show that small RNAs are an integrated component of complex networks involved in regulating the host response to infection.
DOI: 10.1128/mBio.00198-11
PubMed: 22086488
Affiliations:
- États-Unis
- Washington (État), Wisconsin
- Madison (Wisconsin), Seattle
- Université de Washington, Université du Wisconsin à Madison
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Le document en format XML
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Here, we expanded the study through small RNA transcriptome sequencing analysis of the host response to both severe acute respiratory syndrome coronavirus (SARS-CoV) and influenza virus infections across four founder mouse strains of the Collaborative Cross, a recombinant inbred mouse resource for mapping complex traits. We observed differential expression of over 200 small RNAs of diverse classes during infection. A majority of identified microRNAs (miRNAs) showed divergent changes in expression across mouse strains with respect to SARS-CoV and influenza virus infections and responded differently to a highly pathogenic reconstructed 1918 virus compared to a minimally pathogenic seasonal influenza virus isolate. Novel insights into miRNA expression changes, including the association with pathogenic outcomes and large differences between in vivo and in vitro experimental systems, were further elucidated by a survey of selected miRNAs across diverse virus infections. The small RNAs identified also included many non-miRNA small RNAs, such as small nucleolar RNAs (snoRNAs), in addition to nonannotated small RNAs. An integrative sequencing analysis of both small RNAs and long transcripts from the same samples showed that the results revealing differential expression of miRNAs during infection were largely due to transcriptional regulation and that the predicted miRNA-mRNA network could modulate global host responses to virus infection in a combinatorial fashion. These findings represent the first integrated sequencing analysis of the response of host small RNAs to virus infection and show that small RNAs are an integrated component of complex networks involved in regulating the host response to infection.</div></front></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Washington (État)</li><li>Wisconsin</li></region><settlement><li>Madison (Wisconsin)</li><li>Seattle</li></settlement><orgName><li>Université de Washington</li><li>Université du Wisconsin à Madison</li></orgName></list><tree><noCountry><name sortKey="Baric, Ralph S" sort="Baric, Ralph S" uniqKey="Baric R" first="Ralph S" last="Baric">Ralph S. Baric</name><name sortKey="Ferris, Martin T" sort="Ferris, Martin T" uniqKey="Ferris M" first="Martin T" last="Ferris">Martin T. Ferris</name><name sortKey="Frieman, Matthew B" sort="Frieman, Matthew B" uniqKey="Frieman M" first="Matthew B" last="Frieman">Matthew B. Frieman</name><name sortKey="Gralinski, Lisa" sort="Gralinski, Lisa" uniqKey="Gralinski L" first="Lisa" last="Gralinski">Lisa Gralinski</name><name sortKey="Heise, Mark" sort="Heise, Mark" uniqKey="Heise M" first="Mark" last="Heise">Mark Heise</name><name sortKey="Katze, Michael G" sort="Katze, Michael G" uniqKey="Katze M" first="Michael G" last="Katze">Michael G. Katze</name><name sortKey="Korth, Marcus J" sort="Korth, Marcus J" uniqKey="Korth M" first="Marcus J" last="Korth">Marcus J. Korth</name><name sortKey="Li, Chengjun" sort="Li, Chengjun" uniqKey="Li C" first="Chengjun" last="Li">Chengjun Li</name><name sortKey="Luo, Shujun" sort="Luo, Shujun" uniqKey="Luo S" first="Shujun" last="Luo">Shujun Luo</name><name sortKey="Proll, Sean" sort="Proll, Sean" uniqKey="Proll S" first="Sean" last="Proll">Sean Proll</name><name sortKey="Schroth, Gary P" sort="Schroth, Gary P" uniqKey="Schroth G" first="Gary P" last="Schroth">Gary P. Schroth</name><name sortKey="Thomas, Matthew J" sort="Thomas, Matthew J" uniqKey="Thomas M" first="Matthew J" last="Thomas">Matthew J. Thomas</name><name sortKey="Tisoncik, Jennifer R" sort="Tisoncik, Jennifer R" uniqKey="Tisoncik J" first="Jennifer R" last="Tisoncik">Jennifer R. Tisoncik</name><name sortKey="Tumpey, Terrence M" sort="Tumpey, Terrence M" uniqKey="Tumpey T" first="Terrence M" last="Tumpey">Terrence M. Tumpey</name></noCountry><country name="États-Unis"><region name="Washington (État)"><name sortKey="Peng, Xinxia" sort="Peng, Xinxia" uniqKey="Peng X" first="Xinxia" last="Peng">Xinxia Peng</name></region><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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