Shrimp farming, a dominant economic activity in coastal areas, is affected by different abiotic and biotic stress factors. These stressors, under poor management conditions, could affect growth and health of farmed animals. Understanding the common gene expressions in response to stress, regardless of the specific stress factor, holds significant importance in the field of functional genomics. Scope of this study is to identify the core transcriptomic responses in the shrimp species Penaeus vannamei exposed to various abiotic and biotic stress conditions and to decipher their functional importance. To achieve our objective, we gathered and analyzed multiple RNA-seq datasets related to twelve abiotic and nine biotic stress conditions. Through the in silico meta-analysis, we predicted 961 differentially expressed genes (meta-DEGs) for abiotic stress conditions and 517 meta-DEGs for biotic stress conditions, respectively. These meta-DEGs represent genes that are commonly expressed across different stress factors and are indicative of the organism’s general response to stress. The annotation of nineteen core up-regulated meta-DEGs revealed their diverse functions in detoxification, cell adhesion, metal ion binding, and oxidative phosphorylation. These genes play a crucial role in stress response and immune defense. For abiotic stress, significant pathways associated with the stress response include tryptophan metabolism, starch and sucrose metabolism, fatty acid degradation, carbohydrate digestion and absorption, phenylalanine metabolism, drug metabolism-other enzymes, arachidonic acid metabolism, and fatty acid elongation. Similarly, for biotic stress, metabolism of xenobiotics by cytochrome P450, pentose and glucuronate interconversions, steroid hormone biosynthesis, and drug metabolism-cytochrome P450 were found to be significant pathway associations. In addition, the study also predicted 17 stress regulatory motifs present in the identified meta-DEGs. These motifs have significance in identifying the stress responses of the organism. The metabolic pathways and regulatory motifs associated with abiotic and biotic stress factors identified through this study could be a valuable resource for developing stress management approaches in shrimp aquaculture.

对虾养殖是沿海地区的主要经济活动，受到不同的非生物和生物胁迫因素的影响。在管理条件不佳的情况下，这些压力源可能会影响养殖动物的生长和健康。无论具体的应激因素如何，了解应激反应中常见的基因表达在功能基因组学领域具有重要意义。本研究的范围是确定南美白对虾暴露于各种非生物和生物胁迫条件下的核心转录组反应，并破译其功能重要性。为了实现我们的目标，我们收集并分析了与 12 种非生物胁迫条件和 9 种生物胁迫条件相关的多个 RNA-seq 数据集。通过计算机荟萃分析，我们分别预测了非生物胁迫条件下的 961 个差异表达基因（meta-DEG）和生物胁迫条件下的 517 个差异表达基因（meta-DEG）。这些meta-DEG代表在不同应激因素下通常表达的基因，并表明生物体对应激的一般反应。 19 个核心上调元 DEG 的注释揭示了它们在解毒、细胞粘附、金属离子结合和氧化磷酸化方面的不同功能。这些基因在应激反应和免疫防御中发挥着至关重要的作用。对于非生物胁迫，与胁迫反应相关的重要途径包括色氨酸代谢、淀粉和蔗糖代谢、脂肪酸降解、碳水化合物消化和吸收、苯丙氨酸代谢、药物代谢-其他酶、花生四烯酸代谢和脂肪酸延伸。同样，对于生物胁迫，细胞色素 P450 进行的异生物质代谢、戊糖和葡萄糖醛酸相互转化、类固醇激素生物合成和药物代谢-细胞色素 P450 被发现是显着的途径关联。此外，该研究还预测了已识别的元 DEG 中存在的 17 个应激调节基序。这些基序对于识别生物体的应激反应具有重要意义。通过这项研究确定的与非生物和生物应激因素相关的代谢途径和调节基序可能是开发对虾水产养殖应激管理方法的宝贵资源。