An efficient transcriptome analysis pipeline to accelerate venom peptide discovery and characterisation

Prashanth, Jutty Rajan and Lewis, Richard J. (2015) An efficient transcriptome analysis pipeline to accelerate venom peptide discovery and characterisation. Toxicon, 107 282-289. doi:10.1016/j.toxicon.2015.09.012

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Author Prashanth, Jutty Rajan
Lewis, Richard J.
Title An efficient transcriptome analysis pipeline to accelerate venom peptide discovery and characterisation
Journal name Toxicon   Check publisher's open access policy
ISSN 1879-3150
0041-0101
Publication date 2015-09-14
Year available 2015
Sub-type Article (original research)
DOI 10.1016/j.toxicon.2015.09.012
Open Access Status File (Author Post-print)
Volume 107
Start page 282
End page 289
Total pages 8
Place of publication Kidlington, Oxford,United Kingdom
Publisher Pergamon Press
Language eng
Formatted abstract
Transcriptome sequencing is now widely adopted as an efficient means to study the chemical diversity of venoms. To improve the efficiency of analysis of these large datasets, we have optimised an analysis pipeline for cone snail venom gland transcriptomes. The pipeline combines ConoSorter with sequence architecture-based elimination and similarity searching using BLAST to improve the accuracy of sequence identification and classification, while reducing requirements for manual intervention. As a proof-of-concept, we used this approach reanalysed three previously published cone snail transcriptomes from diverse dietary groups. Our pipeline method generated similar results to the published studies with significantly less manual intervention. We additionally found undiscovered sequences in the piscovorous Conus geographus and vermivorous Conus miles and identified sequences in incorrect superfamilies in the molluscivorus Conus marmoreus and C. geographus transcriptomes. Our results indicate that this method can improve toxin detection without extending analysis time. While this method was evaluated on cone snail transcriptomes it can be easily optimised to retrieve toxins from other venomous animals.
Keyword Venomics
Proteomics
Transcriptomics
Conotoxins
Venom peptides
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2016 Collection
Institute for Molecular Bioscience - Publications
 
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Citation counts: TR Web of Science Citation Count  Cited 4 times in Thomson Reuters Web of Science Article | Citations
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