Dataset Information

Multimodal single-cell resolved spatial proteomics reveal pancreatic tumor heterogeneity

ABSTRACT: In this study, we offer a competitive solution for uncovering the comprehensive heterogeneity of tissue context.

ORGANISM(S): Mus Musculus

SUBMITTER: Ruijun Tian

PROVIDER: PXD038882 | iProX | Wed Oct 23 00:00:00 BST 2024

REPOSITORIES: iProX

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Publications

Multimodal single cell-resolved spatial proteomics reveal pancreatic tumor heterogeneity.

Xu Yanfen Y Wang Xi X Li Yuan Y Mao Yiheng Y Su Yiran Y Mao Yize Y Yang Yun Y Gao Weina W Fu Changying C Chen Wendong W Ye Xueting X Liang Fuchao F Bai Panzhu P Sun Ying Y Li Shengping S Xu Ruilian R Tian Ruijun R

Nature communications 20241121 1

Despite the advances in antibody-guided cell typing and mass spectrometry-based proteomics, their integration is hindered by challenges for processing rare cells in the heterogeneous tissue context. Here, we introduce Spatial and Cell-type Proteomics (SCPro), which combines multiplexed imaging and flow cytometry with ion exchange-based protein aggregation capture technology to characterize spatial proteome heterogeneity with single-cell resolution. The SCPro is employed to explore the pancreatic ...[more]

PMID: 39572534

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Project description:In multicellular organisms, the specification, coordination, and compartmentalization of cell types enable the formation of complex body plans. However, some eukaryotic protists such as slime molds generate diverse and complex structures while remaining in a multinucleated syncytial state. It is unknown if different regions of these giant syncytial cells have distinct transcriptional responses to environmental encounters, and if nuclei within the cell diversify into heterogeneous states. Here we performed spatial transcriptome analysis of the slime mold Physarum polycephalum in the plasmodium state under different environmental conditions, and used single-nucleus RNA-sequencing to dissect gene expression heterogeneity among nuclei. Our data identifies transcriptome regionality in the organism that associates with proliferation, syncytial substructures, and localized environmental conditions. Further, we find that nuclei are heterogenous in their transcriptional profile, and may process local signals within the plasmodium to coordinate cell growth, metabolism, and reproduction. To understand how nuclei variation within the syncytium compares to heterogeneity in single-nucleated cells, we analyzed states in single Physarum amoebal cells. We observed amoebal cell states at different stages of mitosis and meiosis, and identified cytokinetic features that are specific to nuclei divisions within the syncytium. Notably, we do not find evidence for predefined transcriptomic states in the amoebae that are observed in the syncytium. Our data shows that a single-celled slime mold can control its gene expression in a region-specific manner while lacking cellular compartmentalization, and suggests that nuclei are mobile processors facilitating local specialized functions. More broadly, slime molds offer the extraordinary opportunity to explore how organisms can evolve regulatory mechanisms to divide labor, specialize, balance competition with cooperation, and perform other foundational principles that govern the logic of life.

Dataset Information

Multimodal single-cell resolved spatial proteomics reveal pancreatic tumor heterogeneity

Publications

Multimodal single cell-resolved spatial proteomics reveal pancreatic tumor heterogeneity.

Similar Datasets

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