Comparative transcriptomic analysis delineates adaptation strategies of Rana kukunoris toward cold stress on the Qinghai-Tibet Plateau

• Published in: BMC genomics 2024-04, Vol.25 (1), p.363-363, Article 363
• Main Authors: Zhang, Tao, Jia, Lun, Niu, Zhiyi, Li, Xinying, Men, Shengkang, Jiang, Lu, Ma, Miaojun, Wang, Huihui, Tang, Xiaolong, Chen, Qiang
• Format: Article
• Language: English
• Subjects: Amino acids; Amphibians; Analysis; Animals; Antifreeze proteins; Antifreezes; Anura; Aquatic reptiles; Catabolism; Cold; Cold hardiness; Cold tolerance; Cold-Shock Response - genetics; Cryoprotectants; Cryoprotectors; Dextrose; Emergence period; Energy; Energy metabolism; Enzymes; Freeze exposure; Freezing; Frogs; Gene expression; Gene Expression Profiling; Gene regulation; Genes; Genetic resources; Glucose; Hibernation; Invertebrates; Lipid metabolism; Lipids; Liver; Methods; Muscle; Muscles; Pacbio sequel; Physiology; Protein biosynthesis; Protein metabolism; Protein synthesis; Protein turnover; Proteins; Rana kukunoris; Ranidae - genetics; Reptiles & amphibians; Ribosomes; RNA; SMRT protein; Spring; Survival; Temperature; Tibet; Transcriptome; Transcriptomes; Transcriptomics; Urea; Winter; Yeast
• ISSN: 1471-2164; 1471-2164
• DOI: 10.1186/s12864-024-10248-8

Cold hardiness is fundamental for amphibians to survive during the extremely cold winter on the Qinghai-Tibet plateau. Exploring the gene regulation mechanism of freezing-tolerant Rana kukunoris could help us to understand how the frogs survive in winter. Transcriptome of liver and muscle of R. kukunoris collected in hibernation and spring were assisted by single molecule real-time (SMRT) sequencing technology. A total of 10,062 unigenes of R. kukunoris were obtained, and 9,924 coding sequences (CDS) were successfully annotated. Our examination of the mRNA response to whole body freezing and recover in the frogs revealed key genes concerning underlying antifreeze proteins and cryoprotectants (glucose and urea). Functional pathway analyses revealed differential regulated pathways of ribosome, energy supply, and protein metabolism which displayed a freeze-induced response and damage recover. Genes related to energy supply in the muscle of winter frogs were up-regulated compared with the muscle of spring frogs. The liver of hibernating frogs maintained modest levels of protein synthesis in the winter. In contrast, the liver underwent intensive high levels of protein synthesis and lipid catabolism to produce substantial quantity of fresh proteins and energy in spring. Differences between hibernation and spring were smaller than that between tissues, yet the physiological traits of hibernation were nevertheless passed down to active state in spring. Based on our comparative transcriptomic analyses, we revealed the likely adaptive mechanisms of R. kukunoris. Ultimately, our study expands genetic resources for the freezing-tolerant frogs.