De novo transcriptome reconstruction and annotation of the Egyptian rousette bat

BACKGROUND: The Egyptian Rousette bat (Rousettus aegyptiacus), a common fruit bat species found throughout Africa and the Middle East, was recently identified as a natural reservoir host of Marburg virus. With Ebola virus, Marburg virus is a member of the family Filoviridae that causes severe hemorr...

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Autores principales: Lee, Albert K., Kulcsar, Kirsten A., Elliott, Oliver, Khiabanian, Hossein, Nagle, Elyse R., Jones, Megan E.B., Amman, Brian R., Sanchez-Lockhart, Mariano, Towner, Jonathan S., Palacios, Gustavo, Rabadan, Raul
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672546/
https://www.ncbi.nlm.nih.gov/pubmed/26643810
http://dx.doi.org/10.1186/s12864-015-2124-x
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author Lee, Albert K.
Kulcsar, Kirsten A.
Elliott, Oliver
Khiabanian, Hossein
Nagle, Elyse R.
Jones, Megan E.B.
Amman, Brian R.
Sanchez-Lockhart, Mariano
Towner, Jonathan S.
Palacios, Gustavo
Rabadan, Raul
author_facet Lee, Albert K.
Kulcsar, Kirsten A.
Elliott, Oliver
Khiabanian, Hossein
Nagle, Elyse R.
Jones, Megan E.B.
Amman, Brian R.
Sanchez-Lockhart, Mariano
Towner, Jonathan S.
Palacios, Gustavo
Rabadan, Raul
author_sort Lee, Albert K.
collection PubMed
description BACKGROUND: The Egyptian Rousette bat (Rousettus aegyptiacus), a common fruit bat species found throughout Africa and the Middle East, was recently identified as a natural reservoir host of Marburg virus. With Ebola virus, Marburg virus is a member of the family Filoviridae that causes severe hemorrhagic fever disease in humans and nonhuman primates, but results in little to no pathological consequences in bats. Understanding host-pathogen interactions within reservoir host species and how it differs from hosts that experience severe disease is an important aspect of evaluating viral pathogenesis and developing novel therapeutics and methods of prevention. RESULTS: Progress in studying bat reservoir host responses to virus infection is hampered by the lack of host-specific reagents required for immunological studies. In order to establish a basis for the design of reagents, we sequenced, assembled, and annotated the R. aegyptiacus transcriptome. We performed de novo transcriptome assembly using deep RNA sequencing data from 11 distinct tissues from one male and one female bat. We observed high similarity between this transcriptome and those available from other bat species. Gene expression analysis demonstrated clustering of expression profiles by tissue, where we also identified enrichment of tissue-specific gene ontology terms. In addition, we identified and experimentally validated the expression of novel coding transcripts that may be specific to this species. CONCLUSION: We comprehensively characterized the R. aegyptiacus transcriptome de novo. This transcriptome will be an important resource for understanding bat immunology, physiology, disease pathogenesis, and virus transmission. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-015-2124-x) contains supplementary material, which is available to authorized users.
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spelling pubmed-46725462015-12-09 De novo transcriptome reconstruction and annotation of the Egyptian rousette bat Lee, Albert K. Kulcsar, Kirsten A. Elliott, Oliver Khiabanian, Hossein Nagle, Elyse R. Jones, Megan E.B. Amman, Brian R. Sanchez-Lockhart, Mariano Towner, Jonathan S. Palacios, Gustavo Rabadan, Raul BMC Genomics Research Article BACKGROUND: The Egyptian Rousette bat (Rousettus aegyptiacus), a common fruit bat species found throughout Africa and the Middle East, was recently identified as a natural reservoir host of Marburg virus. With Ebola virus, Marburg virus is a member of the family Filoviridae that causes severe hemorrhagic fever disease in humans and nonhuman primates, but results in little to no pathological consequences in bats. Understanding host-pathogen interactions within reservoir host species and how it differs from hosts that experience severe disease is an important aspect of evaluating viral pathogenesis and developing novel therapeutics and methods of prevention. RESULTS: Progress in studying bat reservoir host responses to virus infection is hampered by the lack of host-specific reagents required for immunological studies. In order to establish a basis for the design of reagents, we sequenced, assembled, and annotated the R. aegyptiacus transcriptome. We performed de novo transcriptome assembly using deep RNA sequencing data from 11 distinct tissues from one male and one female bat. We observed high similarity between this transcriptome and those available from other bat species. Gene expression analysis demonstrated clustering of expression profiles by tissue, where we also identified enrichment of tissue-specific gene ontology terms. In addition, we identified and experimentally validated the expression of novel coding transcripts that may be specific to this species. CONCLUSION: We comprehensively characterized the R. aegyptiacus transcriptome de novo. This transcriptome will be an important resource for understanding bat immunology, physiology, disease pathogenesis, and virus transmission. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-015-2124-x) contains supplementary material, which is available to authorized users. BioMed Central 2015-12-07 /pmc/articles/PMC4672546/ /pubmed/26643810 http://dx.doi.org/10.1186/s12864-015-2124-x Text en © Lee et al. 2015 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Lee, Albert K.
Kulcsar, Kirsten A.
Elliott, Oliver
Khiabanian, Hossein
Nagle, Elyse R.
Jones, Megan E.B.
Amman, Brian R.
Sanchez-Lockhart, Mariano
Towner, Jonathan S.
Palacios, Gustavo
Rabadan, Raul
De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title_full De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title_fullStr De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title_full_unstemmed De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title_short De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
title_sort de novo transcriptome reconstruction and annotation of the egyptian rousette bat
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672546/
https://www.ncbi.nlm.nih.gov/pubmed/26643810
http://dx.doi.org/10.1186/s12864-015-2124-x
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