Heat-treatment-responsive proteins in different developmental stages of tomato pollen detected by targeted mass accuracy precursor alignment (tMAPA)

Author(s)
Palak Chaturvedi, Hannes Doerfler, Sridharan Jegadeesan, Arindam Ghatak, Etan Pressman, Maria Angeles Castillejo, Stefanie Wienkoop, Volker Egelhofer, Nurit Firon, Wolfram Weckwerth
Abstract

Recently, we have developed a quantitative shotgun proteomics strategy called mass accuracy precursor alignment (MAPA). The MAPA algorithm uses high mass accuracy to bin mass-to-charge (m/z) ratios of precursor ions from LC-MS analyses, determines their intensities, and extracts a quantitative sample versus m/z ratio data alignment matrix from a multitude of samples. Here, we introduce a novel feature of this algorithm that allows the extraction and alignment of proteotypic peptide precursor ions or any other target peptide from complex shotgun proteomics data for accurate quantification of unique proteins. This strategy circumvents the problem of confusing the quantification of proteins due to indistinguishable protein isoforms by a typical shotgun proteomics approach. We applied this strategy to a comparison of control and heat-treated tomato pollen grains at two developmental stages, post-meiotic and mature. Pollen is a temperature-sensitive tissue involved in the reproductive cycle of plants and plays a major role in fruit setting and yield. By LC-MS-based shotgun proteomics, we identified more than 2000 proteins in total for all different tissues. By applying the targeted MAPA data-processing strategy, 51 unique proteins were identified as heat-treatment-responsive protein candidates. The potential function of the identified candidates in a specific developmental stage is discussed.

Organisation(s)
Large-Instrument Facility for Mass Spectrometry in Life Sciences
External organisation(s)
Volcani Centre, D.Y. Patil University, Universität Wien
Journal
Journal of Proteome Research
Volume
14
Pages
4463-4471
No. of pages
9
ISSN
1535-3893
DOI
https://doi.org/10.1021/pr501240n
Publication date
11-2015
Peer reviewed
Yes
Austrian Fields of Science 2012
106037 Proteomics, 106002 Biochemistry, 106005 Bioinformatics
Keywords
ASJC Scopus subject areas
Biochemistry, Chemistry(all)
Portal url
https://ucris.univie.ac.at/portal/en/publications/heattreatmentresponsive-proteins-in-different-developmental-stages-of-tomato-pollen-detected-by-targeted-mass-accuracy-precursor-alignment-tmapa(cd50ace4-20e7-4aee-9e01-e4a0e8d975a8).html