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Improving the proteome coverage of Daphnia magna : implications for future ecotoxicoproteomics studies

Title data

Wilde, Magdalena V. ; Brehm, Julian ; Schwarzer, Michael ; Stöckl, Jan B. ; Laforsch, Christian ; Fröhlich, Thomas:
Improving the proteome coverage of Daphnia magna : implications for future ecotoxicoproteomics studies.
In: Proteomics. (10 February 2022) . - No. 2100289.
ISSN 1615-9861
DOI: https://doi.org/10.1002/pmic.202100289

Project information

Project title:
Project's official titleProject's id
SFB 1357 Mikroplastik391977956

Project financing: Deutsche Forschungsgemeinschaft

Abstract in another language

Aquatic pollution is an increasing problem and requires extensive research efforts to understand associated consequences and to find suitable solutions. The crustacean Daphnia is a keystone species in lacustrine ecosystems by connecting primary producers with higher trophic levels. Therefore, Daphnia is perfectly suitable to investigate biological effects of freshwater pollution and is frequently used as an important model organism in ecotoxicology. The field of ecotoxicoproteomics has become increasingly prevalent, as proteins are important for an organism's physiology and respond rapidly to changing environmental conditions. However, one obstacle in proteome analysis of Daphnia is highly abundant proteins like vitellogenin, decreasing the analytical depth of proteome analysis. To improve proteome coverage in Daphnia, we established an easy-to-use procedure based on the LC-MS/MS of whole daphnids and the dissected Daphnia gut, which is the main tissue getting in contact with soluble and particulate pollutants, separately. Using a comprehensive spectral library, generated by gas-phase fractionation and a data-independent acquisition method, we identified 4621 and 5233 protein groups at high confidence (false discovery rate < 0.01) in Daphnia and Daphnia gut samples, respectively. By combining both datasets, a proteome coverage of 6027 proteins was achieved, demonstrating the effectiveness of our approach.

Further data

Item Type: Article in a journal
Refereed: Yes
Institutions of the University: Faculties > Faculty of Biology, Chemistry and Earth Sciences > Department of Biology > Chair Animal Ecology I > Chair Animal Ecology I - Univ.-Prof. Dr. Christian Laforsch
Research Institutions > Research Centres > Bayreuth Center of Ecology and Environmental Research- BayCEER
Research Institutions > Collaborative Research Centers, Research Unit > SFB 1357 - MIKROPLASTIK
Result of work at the UBT: Yes
DDC Subjects: 500 Science > 570 Life sciences, biology
500 Science > 590 Animals (Zoology)
Date Deposited: 22 Feb 2022 08:18
Last Modified: 22 Feb 2022 08:18
URI: https://eref.uni-bayreuth.de/id/eprint/68720