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Single‐cell proteomics differentiates Arabidopsis root cell types
Open accessPublished version of a preprint
Abstract
Summary: Single‐cell proteomics (SCP) is an emerging approach to resolve cellular heterogeneity within complex tissues of multi‐cellular organisms. Here, we demonstrate the feasibility of SCP on plant samples using the model plant Arabidopsis thaliana . Specifically, we focused on examining isolated single cells from the cortex and endodermis, which are two adjacent root cell types derived from a common stem cell lineage. From 756 root cells, we identified 3763 proteins and 1118 proteins/cell. Ultimately, we focus on 3217 proteins quantified following stringent filtering. Of these, we identified 596 proteins whose expression is enriched in either the cortex or endodermis and are able to differentiate these closely related plant cell types. Collectivity, this study demonstrates that SCP can resolve neighboring cell types with distinct functions, thereby facilitating the identification of biomarkers and candidate proteins to enable functional genomics.
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Metadata
- Authors
- Montes, C., Zhang, J., Nolan, T. M., & Walley, J. W.
- Affiliations
- Iowa State University (US)
- Duke University (US)
- Howard Hughes Medical Institute (US)
- Corresponding author
- Walley, Justin W.
- Venue
- New Phytologist
- Publisher
- Wiley
- Published
- 2024-06-24
- Volume
- 244
- Issue
- 5
- Pages
- 1750-1759
- ISSN
- 0028-646X (ISSN-L)
- 1469-8137
- OpenAlex
- W4399978423
- Cited by
- 48
- References
- 2
- Citations by year
- 2026: 23 · 2025: 14 · 2024: 11
- FWCI
- 5.99
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- New Phytologist (publishedVersion, cc-by-nc)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- Funders
- Plant Sciences Institute, Iowa State University
- Howard Hughes Medical Institute
- Division of Integrative Organismal Systems (2010686, 2039489)
- National Institute of Food and Agriculture (IOW04108)
- Topics
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
- Keywords
- single-cell proteomics, Arabidopsis thaliana, root cell types, root cortex, root endodermis, cell differentiation, cellular heterogeneity, biomarkers, root development
- MeSH terms
- Arabidopsis, Plant Roots, Arabidopsis Proteins, Proteomics, Single-Cell Analysis
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