DOI: 10.5061/dryad.6f48r
title: Data from: Large-scale proteomics of the cassava storage root and identification of a target gene to reduce post-harvest deterioration

description: Cassava (Manihot esculenta) is the most important root crop in the
 tropics, but rapid postharvest physiological deterioration (PPD) of the
 root is a major constraint to commercial cassava production. We
 established a reliable method for image-based PPD symptom quantification
 and used label-free quantitative proteomics to generate an extensive
 cassava root and PPD proteome. Over 2600 unique proteins were identified
 in the cassava root, and nearly 300 proteins showed significant abundance
 regulation during PPD. We identified protein abundance modulation in
 pathways associated with oxidative stress, phenylpropanoid biosynthesis
 (including scopoletin), the glutathione cycle, fatty acid α-oxidation,
 folate transformation, and the sulfate reduction II pathway. Increasing
 protein abundances and enzymatic activities of glutathione-associated
 enzymes, including glutathione reductases, glutaredoxins, and glutathione
 S-transferases, indicated a key role for ascorbate/glutathione cycles.
 Based on combined proteomics data, enzymatic activities, and lipid
 peroxidation assays, we identified glutathione peroxidase as a candidate
 for reducing PPD. Transgenic cassava overexpressing a cytosolic
 glutathione peroxidase in storage roots showed delayed PPD and reduced
 lipid peroxidation as well as decreased H2O2 accumulation. Quantitative
 proteomics data from ethene and phenylpropanoid pathways indicate
 additional gene candidates to further delay PPD. Cassava root proteomics
 data are available at www.pep2pro.ethz.ch for easy access and comparison
 with other proteomics data.
description: Supplemental Data Set
 1Proteins identified in
 cassava samples from 4 PPD time pointsSupplemental Data Set
 2Supplemental Data Set
 3T3PQ-based protein
 abundances of identified proteins in cassava roots at time 0
 hSupplemental Data Set
 4Label-free MS1-based
 quantitative data and statistical analysis of cassava proteins detected in
 cassava samples from 4 PPD time pointsSupplemental Data Set
 5List
 of proteins identified with single PSM and their corresponding
 spectrum.Supplemental File
 1Please note: The package
 must be installed with admin rights on a win machine. The MATLAB Compiler
 Runtime (MCR, MathWorks, http://www.mathworks.ch/products/compiler/mcr/)
 should be installed prior to the installation of the PPD Symptom Score
 Software. The clk_root_sec_hist.exe is extracted in the same folder and
 can be executed as follows: i) a figure file is chosen; ii) the root
 section is marked with a polygon and finished by a double click or return
 (points can be deleted with backspace) iii) Histogram data and
 distribution parameter including the PPD score are written in a csv file
 in the subfolder Regionhist. Disclaimer: The program is provided without
 any guarantees or warranty. Although the author has attempted to find and
 correct any bugs in the free software programs, the author is not
 responsible for any damage or losses of any kind caused by the use or
 misuse of the programs. The author is under no obligation to provide
 support, service, corrections, or upgrades to the free software
 programs.clk_root_sec_hist.zip