Subcellular spatial proteomics of the heterotrophic nanoflagellate, Cafeteria roenbergensis
- 1Arizona State University
Abstract
Cafeteria roenbergensis is the best-studied free-living heterotrophic nanoflagellate, an abundant marine bacterivore and the host of the giant virus CroV, yet almost nothing is known about how its cell is organized. To provide broad insight into the localization of its proteome, we used subcellular spatial proteomics (SSP), based on a label-free version of LOPIT-DC (Localisation of Organelle Proteins by Isotope Tagging after Differential ultraCentrifugation), in which organelles are separated by differential centrifugation and each protein is assigned to a compartment from its abundance profile across fractions. We detected 5,948 proteins (5,889 protein groups), corresponding to 69.7% of the predicted C. roenbergensis proteome, and assigned high-confidence localizations to 2,945 proteins across 14 subcellular compartments, including basal body/cilia, cytosol, ER, Golgi, lysosome, membrane-trafficking, mitochondria, nucleoplasm, nucleus, peroxisome, plasma membrane, proteasome, ribosome, and spliceosome. This study serves as a proteomic dataset to resolve protein compartmentalization in a free-living heterotrophic stramenopile, enabling evolutionary, biological and functional insight and analysis. Investigators interested in using these data prior to publication are encouraged to contact us to avoid overlap and to facilitate coordinated and collaborative use of this resource.
Related
- Subcellular spatial proteomics of the close animal relative, Capsaspora owczarzaki
- Global mapping of protein localization in vegetative Dictyostelium discoideum by subcellular spatial proteomics
- Subcellular spatiotemporal proteomics delineates distinct phases of ER stress proteostatic response
- Small Free-Living Heterotrophic Flagellates from Marine Sediments of Gippsland Basin, South-Eastern Australia
- Heterotrophic succession of invertebrate assemblages on fallen guava fruits in a tropical grove
BibTeX
@misc{jirsova2026subcellular,
title = {{Subcellular spatial proteomics of the heterotrophic nanoflagellate, Cafeteria roenbergensis}},
author = {D. Jirsova and Y.-P. Poh and K. Dabrowska and P. G. Pirrotte and R. Sharma and J. G. Wideman},
howpublished = {bioRxiv},
year = {2026},
month = oct,
doi = {10.64898/2026.10.13.758971},
url = {https://www.biorxiv.org/content/10.64898/2026.10.13.758971v1},
note = {CC BY-NC-ND},
}
RIS
TY - UNPB
TI - Subcellular spatial proteomics of the heterotrophic nanoflagellate, Cafeteria roenbergensis
AU - D. Jirsova
AU - Y.-P. Poh
AU - K. Dabrowska
AU - P. G. Pirrotte
AU - R. Sharma
AU - J. G. Wideman
PY - 2026
DA - 2026/10/13
PB - bioRxiv
DO - 10.64898/2026.10.13.758971
UR - https://www.biorxiv.org/content/10.64898/2026.10.13.758971v1
AB - Cafeteria roenbergensis is the best-studied free-living heterotrophic nanoflagellate, an abundant marine bacterivore and the host of the giant virus CroV, yet almost nothing is known about how its cell is organized. To provide broad insight into the localization of its proteome, we used subcellular spatial proteomics (SSP), based on a label-free version of LOPIT-DC (Localisation of Organelle Proteins by Isotope Tagging after Differential ultraCentrifugation), in which organelles are separated by differential centrifugation and each protein is assigned to a compartment from its abundance profile across fractions. We detected 5,948 proteins (5,889 protein groups), corresponding to 69.7% of the predicted C. roenbergensis proteome, and assigned high-confidence localizations to 2,945 proteins across 14 subcellular compartments, including basal body/cilia, cytosol, ER, Golgi, lysosome, membrane-trafficking, mitochondria, nucleoplasm, nucleus, peroxisome, plasma membrane, proteasome, ribosome, and spliceosome. This study serves as a proteomic dataset to resolve protein compartmentalization in a free-living heterotrophic stramenopile, enabling evolutionary, biological and functional insight and analysis. Investigators interested in using these data prior to publication are encouraged to contact us to avoid overlap and to facilitate coordinated and collaborative use of this resource.
SN - 2692-8205
ER -