Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling
Abstract
Mitochondrial dysfunction is associated with many human diseases, including cancer and neurodegeneration, that are often linked to proteins and pathways that are not well-characterized. To begin defining the functions of such poorly characterized proteins, we used mass spectrometry to map the proteomes, lipidomes and metabolomes of 174 yeast strains, each lacking a single gene related to mitochondrial biology. 144 of these genes have human homologs, 60 of which are associated with disease and 39 of which are uncharacterized. We present a multi-omic data analysis and visualization tool that we use to find covariance networks that can predict molecular functions, correlations between profiles of related gene deletions, gene-specific perturbations that reflect protein functions, and a global respiration deficiency response. Using this multi-omic approach, we link seven proteins including Hfd1p and its human homolog ALDH3A1 to mitochondrial coenzyme Q (CoQ) biosynthesis, an essential pathway disrupted in many human diseases. This Resource should provide broad molecular insights into mitochondrial protein functions.
- Authors:
-
- Univ. of Wisconsin, Madison, WI (United States); Morgridge Inst. for Research, Madison, WI (United States)
- Univ. of Wisconsin, Madison, WI (United States); Genome Center of Wisconsin, Madison, WI (United States)
- Morgridge Inst. for Research, Madison, WI (United States)
- Genome Center of Wisconsin, Madison, WI (United States)
- Publication Date:
- Research Org.:
- Univ. of Wisconsin, Madison, WI (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1463133
- Grant/Contract Number:
- FC02-07ER64494
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Nature Biotechnology
- Additional Journal Information:
- Journal Volume: 34; Journal Issue: 11; Journal ID: ISSN 1087-0156
- Publisher:
- Springer Nature
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES
Citation Formats
Stefely, Jonathan A., Kwiecien, Nicholas W., Freiberger, Elyse C., Richards, Alicia L., Jochem, Adam, Rush, Matthew J. P., Ulbrich, Arne, Robinson, Kyle P., Hutchins, Paul D., Veling, Mike T., Guo, Xiao, Kemmerer, Zachary A., Connors, Kyle J., Trujillo, Edna A., Sokol, Jacob, Marx, Harald, Westphall, Michael S., Hebert, Alexander S., Pagliarini, David J., and Coon, Joshua J. Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling. United States: N. p., 2016.
Web. doi:10.1038/nbt.3683.
Stefely, Jonathan A., Kwiecien, Nicholas W., Freiberger, Elyse C., Richards, Alicia L., Jochem, Adam, Rush, Matthew J. P., Ulbrich, Arne, Robinson, Kyle P., Hutchins, Paul D., Veling, Mike T., Guo, Xiao, Kemmerer, Zachary A., Connors, Kyle J., Trujillo, Edna A., Sokol, Jacob, Marx, Harald, Westphall, Michael S., Hebert, Alexander S., Pagliarini, David J., & Coon, Joshua J. Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling. United States. https://doi.org/10.1038/nbt.3683
Stefely, Jonathan A., Kwiecien, Nicholas W., Freiberger, Elyse C., Richards, Alicia L., Jochem, Adam, Rush, Matthew J. P., Ulbrich, Arne, Robinson, Kyle P., Hutchins, Paul D., Veling, Mike T., Guo, Xiao, Kemmerer, Zachary A., Connors, Kyle J., Trujillo, Edna A., Sokol, Jacob, Marx, Harald, Westphall, Michael S., Hebert, Alexander S., Pagliarini, David J., and Coon, Joshua J. Mon .
"Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling". United States. https://doi.org/10.1038/nbt.3683. https://www.osti.gov/servlets/purl/1463133.
@article{osti_1463133,
title = {Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling},
author = {Stefely, Jonathan A. and Kwiecien, Nicholas W. and Freiberger, Elyse C. and Richards, Alicia L. and Jochem, Adam and Rush, Matthew J. P. and Ulbrich, Arne and Robinson, Kyle P. and Hutchins, Paul D. and Veling, Mike T. and Guo, Xiao and Kemmerer, Zachary A. and Connors, Kyle J. and Trujillo, Edna A. and Sokol, Jacob and Marx, Harald and Westphall, Michael S. and Hebert, Alexander S. and Pagliarini, David J. and Coon, Joshua J.},
abstractNote = {Mitochondrial dysfunction is associated with many human diseases, including cancer and neurodegeneration, that are often linked to proteins and pathways that are not well-characterized. To begin defining the functions of such poorly characterized proteins, we used mass spectrometry to map the proteomes, lipidomes and metabolomes of 174 yeast strains, each lacking a single gene related to mitochondrial biology. 144 of these genes have human homologs, 60 of which are associated with disease and 39 of which are uncharacterized. We present a multi-omic data analysis and visualization tool that we use to find covariance networks that can predict molecular functions, correlations between profiles of related gene deletions, gene-specific perturbations that reflect protein functions, and a global respiration deficiency response. Using this multi-omic approach, we link seven proteins including Hfd1p and its human homolog ALDH3A1 to mitochondrial coenzyme Q (CoQ) biosynthesis, an essential pathway disrupted in many human diseases. This Resource should provide broad molecular insights into mitochondrial protein functions.},
doi = {10.1038/nbt.3683},
journal = {Nature Biotechnology},
number = 11,
volume = 34,
place = {United States},
year = {Mon Sep 26 00:00:00 EDT 2016},
month = {Mon Sep 26 00:00:00 EDT 2016}
}
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