Journal
BIOMOLECULES
Volume 10, Issue 9, Pages -Publisher
MDPI
DOI: 10.3390/biom10091282
Keywords
snake venom; venomics; absolute protein quantification; label-free shotgun mass spectrometry
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Funding
- Slovak Research and Development Agency, Ministry of Education, Science, Research and Sport of the Slovak Republic [APVV-17-0017]
- Scientific Grant Agency of the Ministry of Education, Science, Research and Sport of the Slovak Republic [VEGA 1/0241/18]
- Slovak Academy of Sciences [VEGA 1/0241/18]
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The dynamic development of venomics in recent years has resulted in a significant increase in publicly available proteomic data. The information contained therein is often used for comparisons between different datasets and to draw biological conclusions therefrom. In this article, we aimed to show the possible differences that can arise, in the final results of the proteomic experiment, while using different research workflows. We applied two software solutions (PeptideShaker and MaxQuant) to process data from shotgun LC-MS/MS analysis ofNaja asheivenom and collate it with the previous report concerning this species. We were able to provide new information regarding the protein composition of this venom but also present the qualitative and quantitative limitations of currently used proteomic methods. Moreover, we reported a rapid and straightforward technique for the separation of the fraction of proteins from the three-finger toxin family. Our results underline the necessary caution in the interpretation of data based on a comparative analysis of data derived from different studies.
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