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Proteomic Profile of Daphnia pulex using Data-Independent Acquisition Mass Spectrometry and Ion Mobility Separation

ABSTRACT: In this study, various sample preparation and mass spectrometry acquisition methods were performed for the purpose of improving Daphnia pulex proteome exploration. We observed benefits for employing both in-gel and in-solution methods of trypsin digestion. Furthermore, data independent acquisition methods employing ion-mobility separation greatly increased peptide identification and more than doubled our proteome coverage.

INSTRUMENT(S): SYNAPT G2-Si

ORGANISM(S): Daphnia Pulex (water Flea)

TISSUE(S): Whole Body

SUBMITTER: Robert Gombar

LAB HEAD: Panayiotis, O., Vacratsis

PROVIDER: PXD008455 | Pride | 2018-07-11

REPOSITORIES: Pride

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Proteomic Profile of Daphnia pulex using Data-Independent Acquisition Mass Spectrometry and Ion Mobility Separation.

Steevensz Aaron A Gombar Robert R Vergilino Roland R Cristescu Melania E ME Vacratsis Panayiotis O PO

Proteomics 20180807 16

Daphnia pulex is a keystone species for aquatic habitats and an ecological/evolution model organism. Although significant progress has been made on characterizing its genome, the D. pulex proteome remains largely uncharacterized partially due to abnormally high protein degradation during homogenization and emphasis on genomic analysis. In this study, various sample preparation and mass spectrometry acquisition methods are performed for the purpose of improving D. pulex proteome exploration. Bene ...[more]

PMID: 29972280

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