De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
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De novo transcriptome reconstruction and annotation of the Egyptian rousette bat

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Details:

  • Alternative Title:
    BMC Genomics
  • Personal Author:
  • 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.

  • Subjects:
  • Source:
    BMC Genomics. 16.
  • Pubmed ID:
    26643810
  • Pubmed Central ID:
    PMC4672546
  • Document Type:
    Journal Article
  • Funding:
    5T32GM082797-07/GM/NIGMS NIH HHS/United States
  • Collection(s):
  • Main Document Checksum:
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Datasets

    • Additional file 3 of De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
      Dataset Icon
      Cite
      Filetype[HTM]
      Personal Author:
      Amman, Brian R. ;
      Elliott, Oliver
      ...
      2015 | NCEZID
      12/14/2016
      Description:
      Sequences used in Additional file 2 . Information on sequences used in Additional file 1 is described. (XLS 25 kb)
      File Type:
      Filetype[HTM]
      File Type:
      Filetype[HTM]
      Additional file 4 of De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
      Dataset Icon
      Cite
      Filetype[HTM]
      2015 | NCEZID
      12/14/2016
      Description:
      Novel transcripts information. Various Information on 8 novel coding transcripts are provided including average expression value, transcript length, C...
      File Type:
      Filetype[HTM]
      File Type:
      Filetype[HTM]
      Additional file 3 of De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
      Dataset Icon
      Cite
      Filetype[HTM]
      Personal Author:
      Amman, Brian R. ;
      Elliott, Oliver
      ...
      2015 | NCEZID
      12/14/2016
      Description:
      Sequences used in Additional file 2 . Information on sequences used in Additional file 1 is described. (XLS 25 kb)
      File Type:
      Filetype[HTM]
      File Type:
      Filetype[HTM]
      Additional file 5 of De novo transcriptome reconstruction and annotation of the Egyptian rousette bat
      Dataset Icon
      Cite
      Filetype[HTM]
      Personal Author:
      Amman, Brian R. ;
      Elliott, Oliver
      ...
      2015 | NCEZID
      12/14/2016
      Description:
      BLAST results of validated novel transcripts. The table is the BLAST output of the validated novel transcripts mapped to P. alecto genome. (XLS r27 kb...
      File Type:
      Filetype[HTM]
      File Type:
      Filetype[HTM]

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