Repository logo
 

Spectral Libraries for SWATH-MS Assays for Drosophila melanogaster and Solanum lycopersicum.

Accepted version
Peer-reviewed

Loading...
Thumbnail Image

Type

Article

Change log

Authors

Fabre, Bertrand 
Korona, Dagmara 
Parsons, Harriet T 
Deery, Michael J 

Abstract

Quantitative proteomics methods have emerged as powerful tools for measuring protein expression changes at the proteome level. Using MS-based approaches, it is now possible to routinely quantify thousands of proteins. However, prefractionation of the samples at the protein or peptide level is usually necessary to go deep into the proteome, increasing both MS analysis time and technical variability. Recently, a new MS acquisition method named SWATH is introduced with the potential to provide good coverage of the proteome as well as a good measurement precision without prior sample fractionation. In contrast to shotgun-based MS however, a library containing experimental acquired spectra is necessary for the bioinformatics analysis of SWATH data. In this study, spectral libraries for two widely used models are built to study crop ripening or animal embryogenesis, Solanum lycopersicum (tomato) and Drosophila melanogaster, respectively. The spectral libraries comprise fragments for 5197 and 6040 proteins for S. lycopersicum and D. melanogaster, respectively, and allow reproducible quantification for thousands of peptides per MS analysis. The spectral libraries and all MS data are available in the MassIVE repository with the dataset identifiers MSV000081074 and MSV000081075 and the PRIDE repository with the dataset identifiers PXD006493 and PXD006495.

Description

Keywords

Drosophila melanogaster, SWATH, Solanum lycopersicum, spectral library, Animals, Drosophila melanogaster, Solanum lycopersicum, Peptide Library, Proteome, Proteomics, Reference Standards, Tandem Mass Spectrometry

Journal Title

Proteomics

Conference Name

Journal ISSN

1615-9853
1615-9861

Volume Title

17

Publisher

Wiley
Sponsorship
BBSRC (via University of Manchester) (R116574-LLM)
Biotechnology and Biological Sciences Research Council (BB/L002817/1)