title: Generation of multiple reporter ions from a single isobaric reagent increases multiplexing capacity for quantitative proteomics.
abstract: Isobaric labeling strategies for mass spectrometry-based proteomics enable multiplexed simultaneous quantification of samples and therefore substantially increase the sample throughput in proteomics. However, despite these benefits, current limits to multiplexing capacity are prohibitive for large sample sizes and impose limitations on experimental design. Here, we introduce a novel mechanism for increasing the multiplexing density of isobaric reagents. We present Combinatorial Isobaric Mass Tags (CMTs), an isobaric labeling architecture with the unique ability to generate multiple series of reporter ions simultaneously. We demonstrate that utilization of multiple reporter ion series improves multiplexing capacity of CMT with respect to a commercially available isobaric labeling reagent with preserved quantitative accuracy and depth of coverage in complex mixtures. We provide a blueprint for the realization of 16-plex reagents with 1 Da spacing between reporter ions and up to 28-plex at 6 mDa spacing using only 5 heavy isotopes per reagent. We anticipate that this improvement in multiplexing capacity will further advance the application of quantitative proteomics, particularly in high-throughput screening assays.
authors: Craig R
authors: CR
authors: Braun
authors: Department of Pediatric Oncology and the Linde Program in Cancer Chemical Biology, Dana-Farber Cancer Institute , Boston, Massachusetts 02215, United States.
authors: Gregory H
authors: GH
authors: Bird
authors: Martin
authors: M
authors: Wühr
authors: Brian K
authors: BK
authors: Erickson
authors: Ramin
authors: R
authors: Rad
authors: Department of Pediatric Oncology and the Linde Program in Cancer Chemical Biology, Dana-Farber Cancer Institute , Boston, Massachusetts 02215, United States.
authors: Loren D
authors: LD
authors: Walensky
authors: Steven P
authors: SP
authors: Gygi
authors: Massachusetts General Hospital Cancer Center and Department of Medicine, Harvard Medical School , Charlestown, Massachusetts 02129, United States.
authors: Wilhelm
authors: W
authors: Haas
mesh_terms: D057166:High-Throughput Screening Assays / Q000379:methods; D007202:Indicators and Reagents / Q000737:chemistry; D007477:Ions / Q000737:chemistry; D013058:Mass Spectrometry / Q000379:methods*; D010455:Peptides / Q000032:analysis*; D040901:Proteomics / Q000379:methods*
chemical_list: D007202:Indicators and Reagents; D007477:Ions; D010455:Peptides