MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins

By Sarah E. Calvo, Karl R. Clauser, Vamsi K. Mootha. Nucleic Acids Res., 2015

1,212 citations recorded by the source corpus.

Mitochondria are complex organelles that house essential pathways involved in energy metabolism, ion homeostasis, signalling and apoptosis. To understand mitochondrial pathways in health and disease, it is crucial to have an accurate inventory of the organelle's protein components. In 2008, we made substantial progress toward this goal by performing in-depth mass spectrometry of mitochondria from 14 organs, epitope tagging/microscopy and Bayesian integration to assemble MitoCarta (www.broadinstitute.org/pubs/MitoCarta): an inventory of genes encoding mitochondrial-localized proteins and their expression across 14 mouse tissues. Using the same strategy we have now reconstructed this inventory separately for human and for mouse based on (i) improved gene transcript models, (ii) updated literature curation, including results from proteomic analyses of mitochondrial sub-compartments, (iii) improved homology mapping and (iv) updated versions of all seven original data sets. The updated human MitoCarta2.0 consists of 1158 human genes, including 918 genes in the original inventory as well as 240 additional genes. The updated mouse MitoCarta2.0 consists of 1158 genes, including 967 genes in the original inventory plus 191 additional genes. The improved MitoCarta 2.0 inventory provides a molecular framework for system-level analysis of mammalian mitochondria.

Subfields: Clinical Biochemistry, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/d642cc745d5f585c2947cea83f9c05e6a359aeb0

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In Clinical Biochemistry

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Citations in the corpus

• SynGO: an evidence-based, expert-curated knowledgebase for the synapse (2019, background): “SynGO did not define mitochondria as part of a specific synaptic CC because mitochondrial proteins are already well annotated (Calvo et al., 2016; Smith and Robinson, 2019).”
• Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome (2020, neutral): “(Calvo et al., 2016), protein kinases (85”
• The Science and Translation of Lactate Shuttle Theory. (2018, background): “, 2006), both of which were found as soon as probed for and are now listed in mitochondrial constituent databases such as MitoCarta (Calvo et al., 2016; Pagliarini et al., 2008) and MitoMiner (http://mitominer.”
• The stress granule transcriptome reveals principles of mRNA accumulation in stress granules (2017, positive): “…cells were significantly distinct from mRNAs that encode proteins that localize to the mitochondria (Figures S6B and S6D) (Chartron et al., 2016) (Calvo et al., 2015; Pagliarini et al., 2008), while SG-depleted mRNAs showed significant overlap with mRNAs encoding mitochondria-localized proteins…”
• A deep proteome and transcriptome abundance atlas of 29 healthy human tissues (2018, methodology): “The list of 1,158 mitochondrial genes was obtained from MitoCarta 2.0 (Calvo, Clauser, and Mootha 2016).”
• Multi-omics analysis identifies ATF4 as a key regulator of the mitochondrial stress response in mammals (2017, background): “0 (Calvo et al., 2016), representing 6.9% and 10.8% of the transcriptome and proteome, respectively (Fig.”