Type
ArticleAuthors
Zhang, Huoming
Liu, Peng
Guo, Tiannan

Zhao, Huayan
Bensaddek, Dalila
Aebersold, Ruedi

Xiong, Liming

KAUST Department
Proteomics and Protein ExpressionBiological and Environmental Sciences and Engineering (BESE) Division
Desert Agriculture Initiative
Office of the VP
Plant Science
Date
2019-11-22Online Publication Date
2019-11-22Print Publication Date
2019-12Permanent link to this record
http://hdl.handle.net/10754/660455
Metadata
Show full item recordAbstract
Arabidopsis is an important model organism and the first plant with its genome completely sequenced. Knowledge from studying this species has either direct or indirect applications for agriculture and human health. Quantitative proteomics by data-independent acquisition mass spectrometry (SWATH/DIA-MS) was recently developed and is considered as a high-throughput, massively parallel targeted approach for accurate proteome quantification. In this approach, a high-quality and comprehensive spectral library is a prerequisite. Here, we generated an expression atlas of 10 organs of Arabidopsis and created a library consisting of 15,514 protein groups, 187,265 unique peptide sequences, and 278,278 precursors. The identified protein groups correspond to ~56.5% of the predicted proteome. Further proteogenomics analysis identified 28 novel proteins. We applied DIA-MS using this library to quantify the effect of abscisic acid on Arabidopsis. We were able to recover 8,793 protein groups of which 1,787 were differentially expressed. MS data are available via ProteomeXchange with identifier PXD012708 and PXD012710 for data-dependent acquisition and PXD014032 for DIA analyses.Citation
Zhang, H., Liu, P., Guo, T., Zhao, H., Bensaddek, D., Aebersold, R., & Xiong, L. (2019). Arabidopsis proteome and the mass spectral assay library. Scientific Data, 6(1). doi:10.1038/s41597-019-0294-0Sponsors
We thank the facilities director of bioscience and analytical core labs, Stine Buechmann-Moeller, for her endorsement and support in this project.Publisher
Springer Science and Business Media LLCJournal
Scientific dataAdditional Links
http://www.nature.com/articles/s41597-019-0294-0https://www.nature.com/articles/s41597-019-0294-0.pdf
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Is Supplemented By:- [Dataset]
Huoming Zhang, Liu, P., Tiannan Guo, Huayan Zhao, Bensaddek, D., Aebersold, R., & Liming Xiong. (2019). Arabidopsis proteome and the mass spectral assay library. figshare. https://doi.org/10.6084/M9.FIGSHARE.C.4647293. DOI: 10.6084/m9.figshare.c.4647293 Handle: 10754/665164
ae974a485f413a2113503eed53cd6c53
10.1038/s41597-019-0294-0
Scopus Count
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