Comparative proteome analysis of LPS-stimulated porcine PBMCs between two genetically diverse breeds revealed potential biomarkers for immune competence

IF 0.9 Q4 GENETICS & HEREDITY

Gene Reports Pub Date : 2025-08-15 DOI:10.1016/j.genrep.2025.102322

Jagan Mohanarao Gali , Prasant Kumar Subudhi , Parthasarathi Behera , Mohammad Ayub Ali , Tapan Kumar Dutta , Ankan De

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引用次数: 0

Abstract

Comparative proteome profiling of unstimulated and LPS-stimulated PBMCs of indigenous (Zovawk) vis-à-vis exotic (Large White Yorkshire - LWY) pig breeds reared in India was carried out by a label-free quantitation-based mass spectrometry to determine the potential protein biomarkers for immune competence against gram-negative bacterial infections. This resulted in the identification of more than 3000 proteins across breeds and experimental groups with 1 % protein and peptide false discovery rate. A total of 138 and 156 differentially expressed proteins (DEPs) were found to be significantly different (p ≤ 0.05) with a log2 fold change of >1.2 between unstimulated and LPS-stimulated PBMCs of Zovawk and LWY pigs, respectively. Enhanced expressions of several innate and adaptive immune response determinant proteins were observed inherently in the PBMCs of both pig breeds, revealing higher expression of a few key proteins in native pigs. Functional annotation and network analysis of these DEPs also depicted differences between the pig breeds for the mediation of innate and adaptive immune responses and other pathways. This work provides valuable insight into the global proteomic changes in PBMCs in response to LPS stimulation for the first time in pigs. We have delineated the differential expression of major immune response determinant proteins in Indian native pigs in contrast to exotic pig breeds. Based on our results, we propose IL1B, GZMA, PRF1, A2M, and CLU as potential protein biomarkers for immune competence assessment in pigs. This can help in the conservation of germplasm with robust genetic resistance against gram-negative bacterial infections in the population developed for food safety and security.

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通过比较蛋白质组学分析，两个遗传差异品种的lps刺激下的猪PBMCs揭示了潜在的免疫能力生物标志物

采用无标记定量质谱法，对印度饲养的本地猪（Zovawk）和外来猪（LWY）未经刺激和lps刺激的PBMCs进行了蛋白质组学分析，以确定抗革兰氏阴性细菌感染的免疫能力的潜在蛋白质生物标志物。结果在不同品种和实验组中鉴定了3000多种蛋白质，蛋白质和肽的错误发现率为1%。结果显示，Zovawk和LWY猪的PBMCs中有138个和156个差异表达蛋白（DEPs）差异显著（p≤0.05），差异表达蛋白的变化幅度为log2倍（p≤1.2）。在两个猪品种的pbmc中观察到一些先天和适应性免疫反应决定蛋白的表达增强，揭示了本地猪中一些关键蛋白的表达更高。这些DEPs的功能注释和网络分析还描述了猪品种之间介导先天和适应性免疫反应和其他途径的差异。这项工作首次在猪的pbmc中提供了对LPS刺激响应的整体蛋白质组学变化的有价值的见解。我们描述了主要免疫反应决定蛋白在印度本地猪与外来猪品种的差异表达。基于我们的研究结果，我们建议IL1B、GZMA、PRF1、A2M和CLU作为猪免疫能力评估的潜在蛋白质生物标志物。这有助于在为食品安全和保障而开发的人群中保存对革兰氏阴性细菌感染具有强大遗传抗性的种质。

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

Gene Reports Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.30

自引率

7.70%

发文量

246

审稿时长

49 days

期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.