Yan Jiahao, Ding Yuhe, Peng Zhao, Qin Lu, Gu Jingyu, Wan Cuihong
School of Life Sciences, and Hubei Key Laboratory of Genetic Regulation and Integrative Biology, Central China Normal University, 152 Luoyu Road, Wuhan, Hubei 430079, People's Republic of China.
J Proteome Res. 2023 Sep 1;22(9):2814-2826. doi: 10.1021/acs.jproteome.3c00056. Epub 2023 Jul 27.
The early development of zebrafish () is a complex and dynamic physiological process involving cell division, differentiation, and movement. Currently, the genome and transcriptome techniques have been widely used to study the embryonic development of zebrafish. However, the research of proteomics based on proteins that directly execute functions is relatively vacant. In this work, we apply label-free quantitative proteomics to explore protein profiling during zebrafish's embryogenesis, and a total of 5961 proteins were identified at 10 stages of zebrafish's early development. The identified proteins were divided into 11 modules according to weighted gene coexpression network analysis (WGCNA), and the characteristics between modules were significantly different. For example, mitochondria-related functions enriched the early development of zebrafish. Primordial germ cell-related proteins were identified at the 4-cell stage, while the eye development event is dominated at 5 days post fertilization (dpf). By combining with published transcriptomics data, we discovered some proteins that may be involved in activating zygotic genes. Meanwhile, 137 novel proteins were identified. This study comprehensively analyzed the dynamic processes in the embryonic development of zebrafish from the perspective of proteomics. It provided solid data support for further understanding of the molecular mechanism of its development.
斑马鱼的早期发育是一个复杂且动态的生理过程，涉及细胞分裂、分化和运动。目前，基因组和转录组技术已被广泛用于研究斑马鱼的胚胎发育。然而，基于直接执行功能的蛋白质的蛋白质组学研究相对空白。在这项工作中，我们应用无标记定量蛋白质组学来探索斑马鱼胚胎发生过程中的蛋白质谱，在斑马鱼早期发育的10个阶段共鉴定出5961种蛋白质。根据加权基因共表达网络分析（WGCNA）将鉴定出的蛋白质分为11个模块，各模块之间的特征差异显著。例如，线粒体相关功能在斑马鱼早期发育中富集。在4细胞阶段鉴定出原始生殖细胞相关蛋白，而在受精后5天（dpf）眼睛发育事件占主导。通过与已发表的转录组学数据相结合，我们发现了一些可能参与激活合子基因的蛋白质。同时，鉴定出137种新蛋白质。本研究从蛋白质组学角度全面分析了斑马鱼胚胎发育中的动态过程。为进一步了解其发育的分子机制提供了坚实的数据支持。
