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

Sneha Rath; Rohit Sharma; Rahul Gupta; Tslil Ast; Connie Chan; Timothy J. Durham; Russell P. Goodman; Zenon Grabarek; Mary E. Haas; Wendy H.W. Hung; Pallavi R. Joshi; Alexis A. Jourdain; Sharon H. Kim; Anna V. Kotrys; Stephanie S. Lam; Jason G. McCoy; Joshua D. Meisel; Maria Miranda; Apekshya Panda; Anupam Patgiri; Robert Rogers; Shayan Sadre; Hardik Shah; Owen S. Skinner; Tsz Leung To; Melissa A. Walker; Hong Wang; Patrick S. Ward; Jordan Wengrod; Chen Ching Yuan; Sarah E. Calvo; Vamsi K. Mootha

doi:10.1093/nar/gkaa1011

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

Sneha Rath, Rohit Sharma, Rahul Gupta, Tslil Ast, Connie Chan, Timothy J. Durham, Russell P. Goodman, Zenon Grabarek, Mary E. Haas, Wendy H.W. Hung, Pallavi R. Joshi, Alexis A. Jourdain, Sharon H. Kim, Anna V. Kotrys, Stephanie S. Lam, Jason G. McCoy, Joshua D. Meisel, Maria Miranda, Apekshya Panda, Anupam PatgiriRobert Rogers, Shayan Sadre, Hardik Shah, Owen S. Skinner, Tsz Leung To, Melissa A. Walker, Hong Wang, Patrick S. Ward, Jordan Wengrod, Chen Ching Yuan, Sarah E. Calvo, Vamsi K. Mootha

Research output: Contribution to journal › Article › peer-review

Abstract

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.

Original language	English
Pages (from-to)	D1541-D1547
Number of pages	7
Journal	Nucleic acids research
Volume	49
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkaa1011
State	Published - 8 Jan 2021
Externally published	Yes

All Science Journal Classification (ASJC) codes

Genetics

Access to Document

10.1093/nar/gkaa1011License: CC BY-NC

Cite this

Rath, S., Sharma, R., Gupta, R., Ast, T., Chan, C., Durham, T. J., Goodman, R. P., Grabarek, Z., Haas, M. E., Hung, W. H. W., Joshi, P. R., Jourdain, A. A., Kim, S. H., Kotrys, A. V., Lam, S. S., McCoy, J. G., Meisel, J. D., Miranda, M., Panda, A., ... Mootha, V. K. (2021). MitoCarta3.0: An updated mitochondrial proteome now with sub-organelle localization and pathway annotations. Nucleic acids research, 49(D1), D1541-D1547. https://doi.org/10.1093/nar/gkaa1011

@article{1c44765d68504f41b115f43af1868cbb,

title = "MitoCarta3.0: An updated mitochondrial proteome now with sub-organelle localization and pathway annotations",

abstract = "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.",

author = "Sneha Rath and Rohit Sharma and Rahul Gupta and Tslil Ast and Connie Chan and Durham, {Timothy J.} and Goodman, {Russell P.} and Zenon Grabarek and Haas, {Mary E.} and Hung, {Wendy H.W.} and Joshi, {Pallavi R.} and Jourdain, {Alexis A.} and Kim, {Sharon H.} and Kotrys, {Anna V.} and Lam, {Stephanie S.} and McCoy, {Jason G.} and Meisel, {Joshua D.} and Maria Miranda and Apekshya Panda and Anupam Patgiri and Robert Rogers and Shayan Sadre and Hardik Shah and Skinner, {Owen S.} and To, {Tsz Leung} and Walker, {Melissa A.} and Hong Wang and Ward, {Patrick S.} and Jordan Wengrod and Yuan, {Chen Ching} and Calvo, {Sarah E.} and Mootha, {Vamsi K.}",

year = "2021",

month = jan,

day = "8",

doi = "10.1093/nar/gkaa1011",

language = "الإنجليزيّة",

volume = "49",

pages = "D1541--D1547",

journal = "Nucleic acids research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "D1",

}

Rath, S, Sharma, R, Gupta, R, Ast, T, Chan, C, Durham, TJ, Goodman, RP, Grabarek, Z, Haas, ME, Hung, WHW, Joshi, PR, Jourdain, AA, Kim, SH, Kotrys, AV, Lam, SS, McCoy, JG, Meisel, JD, Miranda, M, Panda, A, Patgiri, A, Rogers, R, Sadre, S, Shah, H, Skinner, OS, To, TL, Walker, MA, Wang, H, Ward, PS, Wengrod, J, Yuan, CC, Calvo, SE & Mootha, VK 2021, 'MitoCarta3.0: An updated mitochondrial proteome now with sub-organelle localization and pathway annotations', Nucleic acids research, vol. 49, no. D1, pp. D1541-D1547. https://doi.org/10.1093/nar/gkaa1011

TY - JOUR

T1 - MitoCarta3.0

T2 - An updated mitochondrial proteome now with sub-organelle localization and pathway annotations

AU - Rath, Sneha

AU - Sharma, Rohit

AU - Gupta, Rahul

AU - Ast, Tslil

AU - Chan, Connie

AU - Durham, Timothy J.

AU - Goodman, Russell P.

AU - Grabarek, Zenon

AU - Haas, Mary E.

AU - Hung, Wendy H.W.

AU - Joshi, Pallavi R.

AU - Jourdain, Alexis A.

AU - Kim, Sharon H.

AU - Kotrys, Anna V.

AU - Lam, Stephanie S.

AU - McCoy, Jason G.

AU - Meisel, Joshua D.

AU - Miranda, Maria

AU - Panda, Apekshya

AU - Patgiri, Anupam

AU - Rogers, Robert

AU - Sadre, Shayan

AU - Shah, Hardik

AU - Skinner, Owen S.

AU - To, Tsz Leung

AU - Walker, Melissa A.

AU - Wang, Hong

AU - Ward, Patrick S.

AU - Wengrod, Jordan

AU - Yuan, Chen Ching

AU - Calvo, Sarah E.

AU - Mootha, Vamsi K.

PY - 2021/1/8

Y1 - 2021/1/8

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=85098048074&partnerID=8YFLogxK

U2 - 10.1093/nar/gkaa1011

DO - 10.1093/nar/gkaa1011

M3 - مقالة

C2 - 33174596

SN - 0305-1048

VL - 49

SP - D1541-D1547

JO - Nucleic acids research

JF - Nucleic acids research

IS - D1

ER -

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

Abstract

All Science Journal Classification (ASJC) codes

Access to Document

Other files and links

Fingerprint

Cite this