Development of an efficient, effective, and economical technology for proteome analysis.

CP: Biotechnology E3technology E4technology Empore membrane glass beads in-cell digestion on-filter digestion proteomics sample preparation silica microparticles

Journal

Cell reports methods
ISSN: 2667-2375
Titre abrégé: Cell Rep Methods
Pays: United States
ID NLM: 9918227360606676

Informations de publication

Date de publication:
10 Jun 2024
Historique:
received: 19 01 2024
revised: 21 03 2024
accepted: 20 05 2024
medline: 13 6 2024
pubmed: 13 6 2024
entrez: 12 6 2024
Statut: aheadofprint

Résumé

We present an efficient, effective, and economical approach, named E3technology, for proteomics sample preparation. By immobilizing silica microparticles into the polytetrafluoroethylene matrix, we develop a robust membrane medium, which could serve as a reliable platform to generate proteomics-friendly samples in a rapid and low-cost fashion. We benchmark its performance using different formats and demonstrate them with a variety of sample types of varied complexity, quantity, and volume. Our data suggest that E3technology provides proteome-wide identification and quantitation performance equivalent or superior to many existing methods. We further propose an enhanced single-vessel approach, named E4technology, which performs on-filter in-cell digestion with minimal sample loss and high sensitivity, enabling low-input and low-cell proteomics. Lastly, we utilized the above technologies to investigate RNA-binding proteins and profile the intact bacterial cell proteome.

Identifiants

DOI: 10.1016/j.crmeth.2024.100796 PMID: 38866007
pubmed: 38866007
pii: S2667-2375(24)00152-8
doi: 10.1016/j.crmeth.2024.100796
pii:
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

100796

Informations de copyright

Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved.

Déclaration de conflit d'intérêts

Declaration of interests G.L. and X.Z. are employees of CDS Analytical LLC. Y.Y. is a paid consultant of CDS Analytical LLC. Y.Y. is a named inventor on a patent application (PCT/US2023/020215) for the technologies developed in this study. The patent was published under the publication number WO2023/212205 and has been licensed exclusively to CDS Analytical LLC through the University of Delaware.

Auteurs

Katherine R Martin (KR)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.

Ha T Le (HT)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.

Ahmed Abdelgawad (A)

Department of Biological Sciences, University of Delaware, Newark, DE 19716, USA; Department of Medical and Molecular Sciences, University of Delaware, Newark, DE 19716, USA.

Canyuan Yang (C)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.

Guotao Lu (G)

CDS Analytical, LLC, Oxford, PA 19363, USA.

Jessica L Keffer (JL)

Department of Earth Sciences, University of Delaware, Newark, DE 19716, USA.

Xiaohui Zhang (X)

CDS Analytical, LLC, Oxford, PA 19363, USA.

Zhihao Zhuang (Z)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.

Papa Nii Asare-Okai (PN)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.

Clara S Chan (CS)

Department of Earth Sciences, University of Delaware, Newark, DE 19716, USA; School of Marine Science and Policy, University of Delaware, Newark, DE 19716, USA.

Mona Batish (M)

Department of Biological Sciences, University of Delaware, Newark, DE 19716, USA; Department of Medical and Molecular Sciences, University of Delaware, Newark, DE 19716, USA. Electronic address: batish@udel.edu.

Yanbao Yu (Y)

Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA. Electronic address: yybyu@udel.edu.

Classifications MeSH