Toward the Standardization of Mitochondrial Proteomics: The Italian Mitochondrial Human Proteome Project Initiative

Tiziana Alberio, Luisa Pieroni, Maurizio Ronci, Cristina Banfi, Italia Bongarzone, Patrizia Bottoni, Maura Brioschi, Marianna Caterino, Clizia Chinello, Antonella Cormio, Flora Cozzolino, Vincenzo Cunsolo, Simona Fontana, Barbara Garavaglia, Laura Giusti, Viviana Greco, Antonio Lucacchini, Elisa Maffioli, Fulvio Magni, Francesca MonteleoneMaria Monti, Valentina Monti, Clara Musicco, Giuseppe Petrosillo, Vito Porcelli, Rosaria Saletti, Roberto Scatena, Alessio Soggiu, Gabriella Tedeschi, Mara Zilocchi, Paola Roncada, Andrea Urbani, Mauro Fasano

Research output: Contribution to journalArticle

Abstract

The Mitochondrial Human Proteome Project aims at understanding the function of the mitochondrial proteome and its crosstalk with the proteome of other organelles. Being able to choose a suitable and validated enrichment protocol of functional mitochondria, based on the specific needs of the downstream proteomics analysis, would greatly help the researchers in the field. Mitochondrial fractions from ten model cell lines were prepared using three enrichment protocols and analyzed on seven different LC-MS/MS platforms. All data were processed using neXtProt as reference database. The data are available for the Human Proteome Project purposes through the ProteomeXchange Consortium with the identifier PXD007053. The processed data sets were analyzed using a suite of R routines to perform a statistical analysis and to retrieve subcellular and submitochondrial localizations. Although the overall number of identified total and mitochondrial proteins was not significantly dependent on the enrichment protocol, specific line to line differences were observed. Moreover, the protein lists were mapped to a network representing the functional mitochondrial proteome, encompassing mitochondrial proteins and their first interactors. More than 80% of the identified proteins resulted in nodes of this network but with a different ability in coisolating mitochondria-associated structures for each enrichment protocol/cell line pair.
Original languageUndefined/Unknown
Pages (from-to)4319-4329
Number of pages11
JournalJournal of Proteome Research
Volume16
Issue number12
DOIs
Publication statusPublished - Dec 1 2017

Keywords

  • Journal Article

Cite this

Alberio, T., Pieroni, L., Ronci, M., Banfi, C., Bongarzone, I., Bottoni, P., Brioschi, M., Caterino, M., Chinello, C., Cormio, A., Cozzolino, F., Cunsolo, V., Fontana, S., Garavaglia, B., Giusti, L., Greco, V., Lucacchini, A., Maffioli, E., Magni, F., ... Fasano, M. (2017). Toward the Standardization of Mitochondrial Proteomics: The Italian Mitochondrial Human Proteome Project Initiative. Journal of Proteome Research, 16(12), 4319-4329. https://doi.org/10.1021/acs.jproteome.7b00350