A prioritized and validated resource of mitochondrial proteins in Plasmodium identifies leads to unique biology

van Esveld, S. L.; Meerstein-Kessel, L.; Boshoven, C.; Baaij, J.; Barylyuk, K.; Coolen, J.; Duim, R. A. J.; Dutilh, B. E.; Garza, D. R.; Letterie, M.; Proellochs, N. I.; de Ridder, M. N.; Venkatasubramanian, P. B.; de Vries, L. E.; Waller, R. F.; Kooij, T. W. A.; Huynen, M. A.

doi:10.1101/2021.01.22.427784

bioRxiv · 10.1101/2021.01.22.427784

A prioritized and validated resource of mitochondrial proteins in Plasmodium identifies leads to unique biology

van Esveld, S. L.·Meerstein-Kessel, L.·Boshoven, C.·Baaij, J.·Barylyuk, K.·Coolen, J.·Duim, R. A. J.·Dutilh, B. E.·Garza, D. R.·Letterie, M.·Proellochs, N. I.·de Ridder, M. N.·Venkatasubramanian, P. B.·de Vries, L. E.·Waller, R. F.·Kooij, T. W. A.·Huynen, M. A.

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Abstract

Plasmodium species have a single mitochondrion that is essential for their survival and has been successfully targeted by anti-malarial drugs. Most mitochondrial proteins are imported into this organelle and our picture of the Plasmodium mitochondrial proteome remains incomplete. Many data sources contain information about mitochondrial localization, including proteome and gene expression profiles, orthology to mitochondrial proteins from other species, co-evolutionary relationships, and amino acid sequences, each with different coverage and reliability. To obtain a comprehensive, prioritized list of Plasmodium falciparum mitochondrial proteins, we rigorously analyzed and integrated eight datasets using Bayesian statistics into a predictive score per protein for mitochondrial localization. At a corrected false discovery rate of 25%, we identified 445 proteins with a sensitivity of 87% and a specificity of 97%. They include proteins that have not been identified as mitochondrial in other eukaryotes but have characterized homologs in bacteria that are involved in metabolism or translation. Mitochondrial localization of seven Plasmodium berghei orthologs was confirmed by epitope labeling and co-localization with a mitochondrial marker protein. One of these belongs to a newly identified apicomplexan mitochondrial protein family that in P. falciparum has four members. With the experimentally validated mitochondrial proteins and the complete ranked P. falciparum proteome, which we have named PlasmoMitoCarta, we present a resource to study unique proteins of Plasmodium mitochondria.

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van Esveld, S. L., Meerstein-Kessel, L., Boshoven, C., Baaij, J., Barylyuk, K., Coolen, J., Duim, R. A. J., Dutilh, B. E., Garza, D. R., Letterie, M., Proellochs, N. I., de Ridder, M. N., Venkatasubramanian, P. B., de Vries, L. E., Waller, R. F., Kooij, T. W. A., Huynen, M. A.. 2021-01-23. A prioritized and validated resource of mitochondrial proteins in Plasmodium identifies leads to unique biology. https://doi.org/10.1101/2021.01.22.427784

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