Transcriptome signature of juvenile Litopenaeus vannamei cultured under different salinity levels in response to Vibrio harveyi infection

• Rapid changes in abiotic and biotic factors can impose physiological stress on shrimp. • RNA-seq analysis was conducted on the hepatopancreas to assess the effects of these factors on Litopenaeus vannamei . • Shrimp maintained at 20 ppt demonstrated the highest immune response following Vibrio harveyi infection. • Both V. harveyi and salinity stress independently or in combination, activate a broad spectrum of immune and stress regulatory genes, highlighting their potential role in the development of effective prophylactic strategies for L. vannamei . Although the widely cultured Litopenaeus vannamei is highly tolerant to varying salinity levels, the rapid fluctuation of abiotic and biotic factors due to climatic changes may become stressors to the shrimp's physiology, resulting in impaired immunity and increased disease susceptibility. This study aimed to investigate the combined effects of both factors towards L. vannamei at transcriptomic level. L. vannamei were cultured at three different salinity levels (5 ppt, 20 ppt and 30 ppt) for 60 days and were challenged with Vibrio harveyi . RNA-seq analysis was conducted on the hepatopancreas to assess the differential expressed genes (DEGs) in both control and V. harveyi infected groups. Our results revealed 5,725 DEGs was observed in shrimp reared at 5 ppt, 3,643 DEGs at 20 ppt and 1,560 DEGs at 30 ppt. Most DEGs were identified to be associated with osmoregulation and transport activities, immune and stress regulation, nutrient metabolism, growth, chitin binding, gonadal development, and metal ion binding and toxicity. We identified that shrimp cultured at intermediate salinity of 20 ppt exhibits the greatest immunity level after infection by V. harveyi , given that low salinity (5 ppt) may augment the free ion metal toxicity, resulting in higher disease susceptibility. Both V. harveyi and salinity stress function together or separately to activate a wide range of immune and stress regulatory genes, which could be potential candidate markers for future RNAi and knockdown research in developing efficient prophylactic management strategies for L. vannamei .