Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins
Abstract
Abstract Copper (Cu) is an essential, but toxic, micronutrient for living organisms and cells have developed sophisticated response mechanisms towards both the lack and the excess of Cu in their environments. In this study, we achieved a global view of Cu-responsive changes in the prokaryotic model organism Rhodobacter capsulatus using label-free quantitative differential proteomics. Semi-aerobically grown cells under heterotrophic conditions in minimal medium (∼0.3 μM Cu) were compared with cells supplemented with either 5 μM Cu or with 5 mM of the Cu-chelator bathocuproine sulfonate. Mass spectrometry based bottom-up proteomics of unfractionated cell lysates identified 2430 of the 3632 putative proteins encoded by the genome, producing a robust proteome dataset for R. capsulatus. Use of biological and technical replicates for each growth condition yielded high reproducibility and reliable quantification for 1926 of the identified proteins. Comparison of cells grown under Cu-excess or Cu-depleted conditions to those grown under minimal Cu-sufficient conditions revealed that 75 proteins exhibited statistically significant (p < 0.05) abundance changes, ranging from 2- to 300-fold. A subset of the highly Cu-responsive proteins was orthogonally probed using molecular genetics, validating that several of them were indeed involved in cellular Cu homeostasis.
- Authors:
-
[1];
[2];
[1]
- Department of Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA. Tel: +1 215 898 4394
- Department of Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA. Tel: +1 215 898 4394, Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA
- Department of Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA. Tel: +1 215 898 4394, Institute of Biochemistry and Molecular Biology, ZBMZ, Faculty of Medicine, Albert-Ludwigs University of Freiburg, 79104 Freiburg, Germany
- Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA
- Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
- Institute of Biochemistry and Molecular Biology, ZBMZ, Faculty of Medicine, Albert-Ludwigs University of Freiburg, 79104 Freiburg, Germany
- Publication Date:
- Research Org.:
- Brookhaven National Lab. (BNL), Upton, NY (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Office of Science (SC), Basic Energy Sciences (BES); National Institutes of Health (NIH); German Research Foundation (DGK)
- OSTI Identifier:
- 1770458
- Alternate Identifier(s):
- OSTI ID: 1603716; OSTI ID: 1649987
- Report Number(s):
- BNL-216251-2020-JAAM
Journal ID: ISSN 1756-5901
- Grant/Contract Number:
- Quantitative Plant Science Initiative; DOE DE-FG02-91ER20052; SC0012704; FG02-91ER20052; GM 38237; GRK2202-235777276; IRTG1478; GM 110174
- Resource Type:
- Published Article
- Journal Name:
- Metallomics
- Additional Journal Information:
- Journal Name: Metallomics Journal Volume: 12 Journal Issue: 4; Journal ID: ISSN 1756-5901
- Publisher:
- Oxford University Press
- Country of Publication:
- United Kingdom
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Rhodobacter capsulatus proteome; differential cuproproteomics; copper homeostasis; copper-responsive proteins; uncharacterized proteins
Citation Formats
Selamoglu, Nur, Önder, Özlem, Öztürk, Yavuz, Khalfaoui-Hassani, Bahia, Blaby-Haas, Crysten E., Garcia, Benjamin A., Koch, Hans-Georg, and Daldal, Fevzi. Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins. United Kingdom: N. p., 2020.
Web. doi:10.1039/c9mt00314b.
Selamoglu, Nur, Önder, Özlem, Öztürk, Yavuz, Khalfaoui-Hassani, Bahia, Blaby-Haas, Crysten E., Garcia, Benjamin A., Koch, Hans-Georg, & Daldal, Fevzi. Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins. United Kingdom. https://doi.org/10.1039/c9mt00314b
Selamoglu, Nur, Önder, Özlem, Öztürk, Yavuz, Khalfaoui-Hassani, Bahia, Blaby-Haas, Crysten E., Garcia, Benjamin A., Koch, Hans-Georg, and Daldal, Fevzi. Mon .
"Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins". United Kingdom. https://doi.org/10.1039/c9mt00314b.
@article{osti_1770458,
title = {Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins},
author = {Selamoglu, Nur and Önder, Özlem and Öztürk, Yavuz and Khalfaoui-Hassani, Bahia and Blaby-Haas, Crysten E. and Garcia, Benjamin A. and Koch, Hans-Georg and Daldal, Fevzi},
abstractNote = {Abstract Copper (Cu) is an essential, but toxic, micronutrient for living organisms and cells have developed sophisticated response mechanisms towards both the lack and the excess of Cu in their environments. In this study, we achieved a global view of Cu-responsive changes in the prokaryotic model organism Rhodobacter capsulatus using label-free quantitative differential proteomics. Semi-aerobically grown cells under heterotrophic conditions in minimal medium (∼0.3 μM Cu) were compared with cells supplemented with either 5 μM Cu or with 5 mM of the Cu-chelator bathocuproine sulfonate. Mass spectrometry based bottom-up proteomics of unfractionated cell lysates identified 2430 of the 3632 putative proteins encoded by the genome, producing a robust proteome dataset for R. capsulatus. Use of biological and technical replicates for each growth condition yielded high reproducibility and reliable quantification for 1926 of the identified proteins. Comparison of cells grown under Cu-excess or Cu-depleted conditions to those grown under minimal Cu-sufficient conditions revealed that 75 proteins exhibited statistically significant (p < 0.05) abundance changes, ranging from 2- to 300-fold. A subset of the highly Cu-responsive proteins was orthogonally probed using molecular genetics, validating that several of them were indeed involved in cellular Cu homeostasis.},
doi = {10.1039/c9mt00314b},
journal = {Metallomics},
number = 4,
volume = 12,
place = {United Kingdom},
year = {Mon Mar 09 00:00:00 EDT 2020},
month = {Mon Mar 09 00:00:00 EDT 2020}
}
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https://doi.org/10.1039/c9mt00314b
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