The predicted subcellular localisation of the sugarcane proteome
Renato Vicentini A B and Marcelo Menossi AA Departamento de Genética e Evolução, Laboratório de Genoma Funcional, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas - UNICAMP, 13083-970, Campinas, SP, Brazil.
B Corresponding author. Email: shinapes@unicamp.br
Functional Plant Biology 36(3) 242-250 https://doi.org/10.1071/FP08252
Submitted: 30 September 2008 Accepted: 12 January 2009 Published: 2 March 2009
Abstract
Plant cells are highly organised, and many biological processes are associated with specialised subcellular structures. Subcellular localisation is a key feature of proteins, since it is related to biological function. The subcellular localisation of such proteins can be predicted, providing information that is particularly relevant to those proteins with unknown or putative function. We performed the first in silico genome-wide subcellular localisation analysis for the sugarcane transcriptome (with 11 882 predicted proteins) and found that most of the proteins were localised in four compartments: nucleus (44%), cytosol (19%), mitochondria (12%) and secretory destinations (11%). We also showed that ~19% of the proteins were localised in multiple compartments. Other results allowed identification of a potential set of sugarcane proteins that could show dual targeting by the use of N-truncated forms that started from the nearest downstream in-frame AUG codons. This study was a first step in increasing knowledge about the subcellular localisation of the sugarcane proteome.
Additional keywords: dual targeting, N-truncated, PWMSubLoc, Saccharum ssp.
Acknowledgements
RV was supported by a fellowship from the UNIEMP Institute and MM received a research fellowship from CNPq. This work was partially supported by grant 05/58104–0 from FAPESP, awarded to MM.
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