SorbiProt

How to read the data?

Sorghum cultivar RTx430 plants were grown under greenhouse conditions and the lower section of the first stem internode was collected at 5 and 7 weeks after planting. Internode sections were flash frozen and cryosectioned at 20 μm. Three cell-types were collected using laser capture microdissection (LCM), including vascular bundles (VB), sclerenchyma fibers (SF), and parenchyma (Par), as show in the above picture.

Captured cell-types were processed using nanoPOTS on-chip protein extraction and trypin digestion, and peptides were analyzed by LC-MS/MS on an Orbitrap Fusion Lumos Tribrid mass spectrometer. Raw spectra were processed in FragPipe (v 22.0) using MSFragger (v 4.1), validated with Philosopher (v 5.1.1), and quantified with IonQuant (v1.10.27) against the Sorghum bicolor UniProt proteome.

The SorbiProt tool provides protein abundances for each sampled cell-type, measured as MS peak areas of identified proteins in arbitrary units. Identifiers for searched proteins should use the Ensembl format “SORBI_3”. Sorghum paralogs and ortholog proteins in Arabidopsis thaliana and other grass species are provided with each search. The dataset can be used to identify the levels of proteins present in VB, SF, or Par cells to explore pathways related to vascular development, cell wall formation, and stress responses, among others.

Download the raw dataset in these links:  

Excel file (xx MB)

CSV file (XX MB)

Contact details

Questions can be emailed to Jaime Barros (jaime.barros@missouri.edu)

If you use this dataset in your research, please cite it as follows:

Davis, Noah; Kwon, Yu Mi; Bentelspacher, Max; Velickovic, Marija; Chrisler William, Barros, Jaime. A cell-type specific proteomics database of sorghum stem tissues (2026). 

Barros Laboratory
Division of Plant Science & Technology
Interdisciplinary Plant Group
University of Missouri, Columbia, MO, USA

Acknowledgements