Comparative analysis of whey protein in goat milk throughout the lactation cycle using data-independent acquisition and data-dependent acquisition based proteomics methods

We have investigated whey proteome of goat milk at 1, 3, 30, 90, 150, and 240 d using data-independent acquisition and data-dependent acquisition quantitative proteomics approaches. The clustering and principal component analysis revealed that the protein components in goat milk was associated with specific lactation stages. Protein-protein interaction showed that fibronectin had more interaction with other proteins and was considered as a central node. Our results can provide a better understanding of the whey proteome during the lactation cycle of dairy goats and indicate which proteins are important for the development of newborns and mammary gland.本研究采用数据非依赖采集（data-independent acquisition, DIA）与数据依赖采集（data-dependent acquisition, DDA）定量蛋白质组学方法，对泌乳第1、3、30、90、150及240天的山羊乳清蛋白质组开展了系统性分析。聚类分析与主成分分析（principal component analysis, PCA）结果显示，山羊乳中的蛋白质组分与特定泌乳阶段存在显著关联。蛋白质相互作用分析表明，纤连蛋白（fibronectin）与其他蛋白质的互作更为广泛，被鉴定为核心互作节点。本研究结果可为深入解析奶山羊泌乳周期内的乳清蛋白质组特征提供支撑，并明确对新生幼崽发育及乳腺发育具有重要作用的蛋白质组分。