MitoCarta3.0: an updated mitochondrial proteome now with sub-organelle localization and pathway annotations.

Animals Bayes Theorem DNA, Mitochondrial / genetics Databases, Protein Datasets as Topic Humans Internet Machine Learning Mass Spectrometry Mice Mitochondria / genetics Mitochondrial Membranes / metabolism Mitochondrial Proteins / classification Molecular Sequence Annotation Proteome / classification Software

Journal

Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011

Informations de publication

Date de publication:
08 01 2021
Historique:
accepted: 14 10 2020
revised: 12 10 2020
received: 18 09 2020
pubmed: 12 11 2020
medline: 27 1 2021
entrez: 11 11 2020
Statut: ppublish

Résumé

The mammalian mitochondrial proteome is under dual genomic control, with 99% of proteins encoded by the nuclear genome and 13 originating from the mitochondrial DNA (mtDNA). We previously developed MitoCarta, a catalogue of over 1000 genes encoding the mammalian mitochondrial proteome. This catalogue was compiled using a Bayesian integration of multiple sequence features and experimental datasets, notably protein mass spectrometry of mitochondria isolated from fourteen murine tissues. Here, we introduce MitoCarta3.0. Beginning with the MitoCarta2.0 inventory, we performed manual review to remove 100 genes and introduce 78 additional genes, arriving at an updated inventory of 1136 human genes. We now include manually curated annotations of sub-mitochondrial localization (matrix, inner membrane, intermembrane space, outer membrane) as well as assignment to 149 hierarchical 'MitoPathways' spanning seven broad functional categories relevant to mitochondria. MitoCarta3.0, including sub-mitochondrial localization and MitoPathway annotations, is freely available at http://www.broadinstitute.org/mitocarta and should serve as a continued community resource for mitochondrial biology and medicine.

Identifiants

DOI: 10.1093/nar/gkaa1011 PMID: 33174596 PMC: PMC7778944
pubmed: 33174596
pii: 5974091
doi: 10.1093/nar/gkaa1011
pmc: PMC7778944
doi:

Substances chimiques

DNA, Mitochondrial 0
Mitochondrial Proteins 0
Proteome 0

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Langues

eng

Sous-ensembles de citation

IM

Pagination

D1541-D1547

Subventions

Organisme : NIGMS NIH HHS
ID : F32 GM128259
Pays : United States
Organisme : NIDDK NIH HHS
ID : T32 DK007028
Pays : United States
Organisme : NCI NIH HHS
ID : K00 CA212468
Pays : United States
Organisme : NIA NIH HHS
ID : T32 AG000222
Pays : United States
Organisme : Howard Hughes Medical Institute
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM122455
Pays : United States
Organisme : NIGMS NIH HHS
ID : F32 GM133047
Pays : United States
Organisme : NIAMS NIH HHS
ID : R01 AR071942
Pays : United States
Organisme : NIDDK NIH HHS
ID : K08 DK115881
Pays : United States

Informations de copyright

© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Auteurs

Sneha Rath (S)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Rohit Sharma (R)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Rahul Gupta (R)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Tslil Ast (T)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Connie Chan (C)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Timothy J Durham (TJ)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Russell P Goodman (RP)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Zenon Grabarek (Z)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Mary E Haas (ME)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Wendy H W Hung (WHW)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Pallavi R Joshi (PR)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Alexis A Jourdain (AA)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Sharon H Kim (SH)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Anna V Kotrys (AV)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Stephanie S Lam (SS)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Jason G McCoy (JG)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Joshua D Meisel (JD)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Maria Miranda (M)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Apekshya Panda (A)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Anupam Patgiri (A)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Robert Rogers (R)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Shayan Sadre (S)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Hardik Shah (H)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Owen S Skinner (OS)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Tsz-Leung To (TL)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Melissa A Walker (MA)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Hong Wang (H)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Patrick S Ward (PS)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Jordan Wengrod (J)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Chen-Ching Yuan (CC)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Sarah E Calvo (SE)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Vamsi K Mootha (VK)

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Howard Hughes Medical Institute and Departments of Molecular Biology and Medicine, Massachusetts General Hospital, Boston, MA 02114, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

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questionsmedicales.fr › Eucaryotes › Animaux › MitoCarta3.0: an updated mitochondrial...
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