title: Simple and Integrated Spintip-Based Technology Applied for Deep Proteome Profiling.
abstract: Great efforts have been taken for developing high-sensitive mass spectrometry (MS)-based proteomic technologies, among which sample preparation is one of the major focus. Here, a simple and integrated spintip-based proteomics technology (SISPROT) consisting of strong cation exchange beads and C18 disk in one pipet tip was developed. Both proteomics sample preparation steps, including protein preconcentration, reduction, alkylation, and digestion, and reversed phase (RP)-based desalting and high-pH RP-based peptide fractionation can be achieved in a fully integrated manner for the first time. This easy-to-use technology achieved high sensitivity with negligible sample loss. Proteomic analysis of 2000 HEK 293 cells readily identified 1270 proteins within 1.4 h of MS time, while 7826 proteins were identified when 100000 cells were processed and analyzed within only 22 h of MS time. More importantly, the SISPROT can be easily multiplexed on a standard centrifuge with good reproducibility (Pearson correlation coefficient > 0.98) for both single-shot analysis and deep proteome profiling with five-step high-pH RP fractionation. The SISPROT was exemplified by the triplicate analysis of 100000 stem cells from human exfoliated deciduous teeth (SHED). This led to the identification of 9078 proteins containing 3771 annotated membrane proteins, which was the largest proteome data set for dental stem cells reported to date. We expect that the SISPROT will be well suited for deep proteome profiling for fewer than 100000 cells and applied for translational studies where multiplexed technology with good label-free quantification precision is required.
authors.affiliation: Department of Chemistry, Fudan University , Shanghai 200433, China.
authors.forename: Wendong
authors.initials: W
authors.lastname: Chen
authors.affiliation: ENT Institute of Shenzhen University, Shenzhen Longgang ENT Hospital , Shenzhen 518172, China.
authors.forename: Shuai
authors.initials: S
authors.lastname: Wang
authors.forename: Subash
authors.initials: S
authors.lastname: Adhikari
authors.affiliation: ENT Institute of Shenzhen University, Shenzhen Longgang ENT Hospital , Shenzhen 518172, China.
authors.forename: Zuhui
authors.initials: Z
authors.lastname: Deng
authors.forename: Lingjue
authors.initials: L
authors.lastname: Wang
authors.forename: Lan
authors.initials: L
authors.lastname: Chen
authors.forename: Mi
authors.initials: M
authors.lastname: Ke
authors.affiliation: Department of Chemistry, Fudan University , Shanghai 200433, China.
authors.forename: Pengyuan
authors.initials: P
authors.lastname: Yang
authors.forename: Ruijun
authors.initials: R
authors.lastname: Tian
mesh_terms: D057809:HEK293 Cells; D006801:Humans; D013058:Mass Spectrometry; D020543:Proteome / Q000032:analysis*; D013234:Stem Cells / Q000737:chemistry* / Q000473:pathology; D014080:Tooth Exfoliation / Q000473:pathology; D014094:Tooth, Deciduous / Q000473:pathology
chemical_list: D020543:Proteome