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.
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http://dx.doi.org/10.1007/s10528-024-10772-y | DOI Listing |
J Biochem Mol Toxicol
January 2025
Department of Biochemistry (Medicine), Institute of Health Sciences, Aydın Adnan Menderes University, Aydin, Turkey.
The aim of this study was to investigate the potential role of thymoquinone in the treatment of inflammatory bowel disease (IBD) by examining the effects of various doses of thymoquinone on histopathological changes, oxidative stress, and antioxidant markers in basic stamens in a 2,4,6-trinitrobenzene sulfonic acid (TNBS)-induced colitis model in rats. Thirty-two rats were divided into four groups: control, TNBS, thymoquinone-20 (20 mg/kg), and thymoquinone-50 (50 mg/kg) groups. The basic stamens of 32 rats were used for this experiment.
View Article and Find Full Text PDFJ Biochem Mol Toxicol
January 2025
Department of General Medicine, the Second Affiliated Hospital of Xi'an Jiaotong University, Xinjiang Hospital, Urumqi, China.
Among the diabetes-related complications, diabetic nephropathy is the major complication and it leads to end-stage renal failure. In the current investigation, we examined the protection of brucine, an alkaloid extracted from the seeds of Strychnos nux vomica plant widely used in traditional Chinese and Indian medicines against diabetic-induced nephropathy. Male Wistar rats were divided into four groups: control, diabetic rats, diabetic-induced + 40 mg/kg brucine-treated rats, and diabetic-induced + 25 mg/kg metformin-treated rats.
View Article and Find Full Text PDFFront Plant Sci
December 2024
BIODYNE Biosystems Dynamics and Exchanges, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liege, Gembloux, Belgium.
Introduction: The identification of the physiological processes limiting carbon assimilation under water stress is crucial for improving model predictions and selecting drought-tolerant varieties. However, the influence of soil water availability on photosynthesis-limiting processes is still not fully understood. This study aimed to investigate the origins of photosynthesis limitations on potato () during a field drought experiment.
View Article and Find Full Text PDFThe use of animal-borne devices (= biologgers) has revolutionized the study of marine megafauna, yet there remains a paucity of data concerning the behavioral and physiological impacts of biologger attachment and retention. Here, we used animal-borne cameras to characterize the behavior and dive duration of juvenile green turtles () in The Bahamas for up to 210 min after biologger deployment ( = 58). For a "control," we used unoccupied aerial vehicles (UAVs) to collect comparable data from nonhandled green turtles ( = 25) in the same habitats.
View Article and Find Full Text PDFFront Endocrinol (Lausanne)
December 2024
Medical Research Center, Affiliated Hospital 2 of Nantong University, Nantong, China.
Objective: Energy homeostasis is modulated by the hypothalamic is essential for obesity progression, however, the gene expression profiling remains to be fully understood.
Methods: GEO datasets were downloaded from the GEO website and analyzed by the R packages to obtain the DEGs. And, the WGCNA analysis and PPI networks of co-expressed DEGs were designed using STRING to get key genes.
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