Cargando…
Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection
Acute respiratory infection (ARI) with respiratory syncytial virus (RSV) is the most common cause of both hospitalizations and mortality in young infants worldwide. Repeat infections with RSV are common throughout life in both pediatric and elderly populations. Thus far, cotton rats (Sigmodon hispid...
Autores principales: | , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2018
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6063970/ https://www.ncbi.nlm.nih.gov/pubmed/30054492 http://dx.doi.org/10.1038/s41598-018-29374-x |
_version_ | 1783342634183426048 |
---|---|
author | Rajagopala, Seesandra V. Singh, Harinder Patel, Mira C. Wang, Wei Tan, Yi Shilts, Meghan H. Hartert, Tina V. Boukhvalova, Marina S. Blanco, Jorge C. G. Das, Suman R. |
author_facet | Rajagopala, Seesandra V. Singh, Harinder Patel, Mira C. Wang, Wei Tan, Yi Shilts, Meghan H. Hartert, Tina V. Boukhvalova, Marina S. Blanco, Jorge C. G. Das, Suman R. |
author_sort | Rajagopala, Seesandra V. |
collection | PubMed |
description | Acute respiratory infection (ARI) with respiratory syncytial virus (RSV) is the most common cause of both hospitalizations and mortality in young infants worldwide. Repeat infections with RSV are common throughout life in both pediatric and elderly populations. Thus far, cotton rats (Sigmodon hispidus) are found to be the best animal model to study RSV infection. However, the lack of a cotton rat reference genome limits genome-wide host gene expression studies. We constructed the first lung tissue de novo transcriptome for the cotton rat. Cotton rat lung tissue transcripts were assigned to 12,211 unique UniProt genes, which were then utilized to profile the host immune response after RSV infection. Differential expression analysis showed up-regulation of host genes involved in cellular functions including defense responses to viral infection and immune system processes. A number of transcripts were downregulated during the later stage of infection. A set of transcripts unique to RSV-infected cotton rats was identified. To validate RNA-Seq data of three such transcripts (TR453762, TR529629, and TR5333), their expression was confirmed by quantitative real-time polymerase chain reaction. |
format | Online Article Text |
id | pubmed-6063970 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-60639702018-07-31 Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection Rajagopala, Seesandra V. Singh, Harinder Patel, Mira C. Wang, Wei Tan, Yi Shilts, Meghan H. Hartert, Tina V. Boukhvalova, Marina S. Blanco, Jorge C. G. Das, Suman R. Sci Rep Article Acute respiratory infection (ARI) with respiratory syncytial virus (RSV) is the most common cause of both hospitalizations and mortality in young infants worldwide. Repeat infections with RSV are common throughout life in both pediatric and elderly populations. Thus far, cotton rats (Sigmodon hispidus) are found to be the best animal model to study RSV infection. However, the lack of a cotton rat reference genome limits genome-wide host gene expression studies. We constructed the first lung tissue de novo transcriptome for the cotton rat. Cotton rat lung tissue transcripts were assigned to 12,211 unique UniProt genes, which were then utilized to profile the host immune response after RSV infection. Differential expression analysis showed up-regulation of host genes involved in cellular functions including defense responses to viral infection and immune system processes. A number of transcripts were downregulated during the later stage of infection. A set of transcripts unique to RSV-infected cotton rats was identified. To validate RNA-Seq data of three such transcripts (TR453762, TR529629, and TR5333), their expression was confirmed by quantitative real-time polymerase chain reaction. Nature Publishing Group UK 2018-07-27 /pmc/articles/PMC6063970/ /pubmed/30054492 http://dx.doi.org/10.1038/s41598-018-29374-x Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Rajagopala, Seesandra V. Singh, Harinder Patel, Mira C. Wang, Wei Tan, Yi Shilts, Meghan H. Hartert, Tina V. Boukhvalova, Marina S. Blanco, Jorge C. G. Das, Suman R. Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title | Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title_full | Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title_fullStr | Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title_full_unstemmed | Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title_short | Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection |
title_sort | cotton rat lung transcriptome reveals host immune response to respiratory syncytial virus infection |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6063970/ https://www.ncbi.nlm.nih.gov/pubmed/30054492 http://dx.doi.org/10.1038/s41598-018-29374-x |
work_keys_str_mv | AT rajagopalaseesandrav cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT singhharinder cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT patelmirac cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT wangwei cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT tanyi cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT shiltsmeghanh cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT harterttinav cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT boukhvalovamarinas cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT blancojorgecg cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection AT dassumanr cottonratlungtranscriptomerevealshostimmuneresponsetorespiratorysyncytialvirusinfection |