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Top-down proteomics and intact protein imaging of soybean root nodules infected with Bradyrhizobium japonicum

ABSTRACT: Global top-down proteomics LCMS analysis of proteins purified from soybean root nodules infected with either WT or nifH- mutant Bradyrhizobium japonicum. Raw LCMS data were processed with TopPIC; combined proteoform-spectral-matches, and label free quantitation results are included as separate csv files ("*_all_PrSMs.csv", "*_LFQ_Table.csv"). Also includes MALDI-Orbitrap data of intact proteins. The MALDI raw files and xml files can be loaded into imaging software for viewing ion images. Representative summed spectra are included separately in two "IMAGE-avg11567_from100to200min.raw" files. More detailed analysis and representative proteoform ion images are discussed in the associated manuscript. For sample processing, frozen tissue were homogenized for LCMS and proteins were extracted with the MPlex protocol. For MALDI, frozen tissues were sliced and embedded on ITO slides and sprayed with DHA matrix. LCMS data were processed with TopPIC and TopPICR. Imaging data were collected with Spectroglyph software.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Glycine Max (ncbitaxon:3847) Bradyrhizobium Diazoefficiens (ncbitaxon:1355477)

SUBMITTER: Mowei Zhou

PROVIDER: MSV000089984 | MassIVE | Tue Jul 26 12:56:00 BST 2022

REPOSITORIES: MassIVE

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