Proteoform Patterns in Hepatocellular Carcinoma Tissues: Aspects of Oncomarkers.

IF 3.6 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY

Proteomes Pub Date : 2025-07-01 DOI:10.3390/proteomes13030027

Elena Zorina, Natalia Ronzhina, Olga Legina, Nikolai Klopov, Victor Zgoda, Stanislav Naryzhny

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引用次数: 0

Abstract

Background: Human proteins exist in numerous modifications-proteoforms-which are promising targets for biomarker studies. In this study, we aimed to generate comparative proteomics data, including proteoform patterns, from hepatocellular carcinoma (HCC) and nonmalignant liver tissues.

Methods: To investigate protein profiles and proteoform patterns, we employed a panoramic, integrative top-down proteomics approach: two-dimensional gel electrophoresis (2DE) coupled with liquid chromatography-electrospray ionization-tandem mass spectrometry (LC-ESI-MS/MS).

Results: We visualized over 2500 proteoform patterns per sample type, enabling the identification of distinct protein signatures and common patterns differentiating nonmalignant and malignant liver cells. Among these, 1270 protein patterns were uniformly observed across all samples. Additionally, 38 proteins-including pyruvate kinase PKM (KPYM), annexin A2 (ANXA2), and others-exhibited pronounced differences in proteoform patterns between nonmalignant and malignant tissues.

Conclusions: Most proteoform patterns of the same protein were highly similar, with the dominant peak corresponding to theoretical (unmodified) protein parameters. However, certain proteins displayed altered proteoform patterns and additional proteoforms in cancer compared to controls. These proteins were prioritized for further characterization.

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肝细胞癌组织中的蛋白质形态模式：肿瘤标志物的方面。

背景：人类蛋白质存在多种修饰-蛋白质形态-是生物标志物研究的有希望的目标。在这项研究中，我们旨在从肝细胞癌（HCC）和非恶性肝组织中生成比较蛋白质组学数据，包括蛋白质形态模式。方法：为了研究蛋白质谱和蛋白质形态模式，我们采用了一种全景的、综合的自上而下的蛋白质组学方法：二维凝胶电泳（2DE）结合液相色谱-电喷雾电离-串联质谱（LC-ESI-MS/MS）。结果：我们可视化了每种样品类型超过2500种蛋白质形态模式，能够识别不同的蛋白质特征和区分非恶性和恶性肝细胞的共同模式。其中，1270种蛋白质模式在所有样品中均被一致观察到。此外，38种蛋白质——包括丙酮酸激酶PKM （KPYM）、膜联蛋白A2 （ANXA2）等——在非恶性和恶性组织中表现出明显的蛋白形态差异。结论：同一蛋白质的大多数蛋白质形态模式高度相似，优势峰对应于理论（未修改的）蛋白质参数。然而，与对照组相比，某些蛋白质在癌症中表现出改变的蛋白质形态模式和额外的蛋白质形态。这些蛋白被优先考虑以进一步表征。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Proteomes Biochemistry, Genetics and Molecular Biology-Clinical Biochemistry

CiteScore

6.50

自引率

3.00%

发文量

审稿时长

11 weeks

期刊介绍： Proteomes (ISSN 2227-7382) is an open access, peer reviewed journal on all aspects of proteome science. Proteomes covers the multi-disciplinary topics of structural and functional biology, protein chemistry, cell biology, methodology used for protein analysis, including mass spectrometry, protein arrays, bioinformatics, HTS assays, etc. Our aim is to encourage scientists to publish their experimental and theoretical results in as much detail as possible. Therefore, there is no restriction on the length of papers. Scope: -whole proteome analysis of any organism -disease/pharmaceutical studies -comparative proteomics -protein-ligand/protein interactions -structure/functional proteomics -gene expression -methodology -bioinformatics -applications of proteomics