Comparative analysis of liver transcriptome reveals adaptive responses to hypoxia environmental condition in Tibetan chicken
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초록
Objective: Tibetan chickens, which have unique adaptations to extreme high-altitude environments, exhibit phenotypic and physiological characteristics that are distinct from those of lowland chickens. However, the mechanisms underlying hypoxic adaptation in the liver of chickens remain unknown.Methods: RNA-sequencing (RNA-Seq) technology was used to assess the differentially expressed genes (DEGs) involved in hypoxia adaptation in highland chickens (native Tibetan chicken [HT]) and lowland chickens (Langshan chicken [LS], Beijing You chicken [BJ], Qingyuan Partridge chicken [QY], and Chahua chicken [CH]).Results: A total of 352 co-DEGs were specifically screened between HT and four native lowland chicken breeds. Gene ontology and Kyoto encyclopedia of genes and genomes enrichment analyses indicated that these co-DEGs were widely involved in lipid metabolism processes, such as the peroxisome proliferator-activated receptors (PPAR) signaling pathway, fatty acid degradation, fatty acid metabolism and fatty acid biosynthesis. To further determine the relationship from the 352 co-DEGs, protein-protein interaction network was carried out and identified eight genes (<i>ACSL1, CPT1A, ACOX1, PPARC1A, SCD, ACSBG2, ACACA, and FASN</i>) as the potential regulating genes that are responsible for the altitude difference between the HT and other four lowland chicken breeds.Conclusion: This study provides novel insights into the molecular mechanisms regulating hypoxia adaptation via lipid metabolism in Tibetan chickens and other highland animals.
Abstract
Objective: Tibetan chickens, which have unique adaptations to extreme high-altitude environments, exhibit phenotypic and physiological characteristics that are distinct from those of lowland chickens. However, the mechanisms underlying hypoxic adaptation in the liver of chickens remain unknown. Methods: RNA-sequencing (RNA-Seq) technology was used to assess the differentially expressed genes (DEGs) involved in hypoxia adaptation in highland chickens (native Tibetan chicken [HT]) and lowland chickens (Langshan chicken [LS], Beijing You chicken [BJ], Qingyuan Partridge chicken [QY], and Chahua chicken [CH]). Results: A total of 352 co-DEGs were specifically screened between HT and four native lowland chicken breeds. Gene ontology and Kyoto encyclopedia of genes and genomes enrichment analyses indicated that these co-DEGs were widely involved in lipid metabolism processes, such as the peroxisome proliferator-activated receptors (PPAR) signaling pathway, fatty acid degradation, fatty acid metabolism and fatty acid biosynthesis. To further determine the relationship from the 352 co-DEGs, protein-protein interaction network was carried out and identified eight genes (ACSL1, CPT1A, ACOX1, PPARC1A, SCD, ACSBG2, ACACA, and FASN) as the potential regulating genes that are responsible for the altitude difference between the HT and other four lowland chicken breeds. Conclusion: This study provides novel insights into the molecular mechanisms regulating hypoxia adaptation via lipid metabolism in Tibetan chickens and other highland animals.
참고문헌 (42)
- Beall CM, "Two routes to functional adaptation : Tibetan and Andean high-altitude natives", Proc Natl Acad Sci USA, 104(Suppl 1), pp.8655~8660 (2007)[DOI]
- Yang Y, "Characteristics of Tibetan pig lung tissue in response to a hypoxic environment on the Qinghai–Tibet Plateau", Arch Anim Breed, 64, pp.283~292 (2021)[DOI]
- Ivy CM, "Life-long exposure to hypoxia affects metabolism and respiratory physiology across life stages in high-altitude deer mice (Peromyscus maniculatus)", J Exp Biol, 224, pp.jeb237024~ (2021)[DOI]
- Nabi G, "Coping with extremes : Highaltitude sparrows enhance metabolic and thermogenic capacities in the pectoralis muscle and suppress in the liver relative to their lowland counterparts", Gen Comp Endocrinol, 313, pp.113890~ (2021)[DOI]
- Qi X, "The transcriptomic landscape of yaks reveals molecular pathways for high altitude adaptation", Genome Biol Evol, 11, pp.72~85 (2019)[DOI]
- Jain IH, "Genetic screen for cell fitness in high or low oxygen highlights mitochondrial and lipid metabolism", Cell, 181, pp.716~727 (2020)[DOI]
- Murray AJ, "Metabolic adjustment to high-altitude hypoxia : from genetic signals to physiological implications", Biochem Soc Trans, 46, pp.599~607 (2018)[DOI]
- Ivy CM, "Control of breathing and the circulation in high-altitude mammals and birds", Comp Biochem Physiol A Mol Integr Physiol, 186, pp.66~74 (2015)[DOI]
- McClelland GB, "Evolved mechanisms of aerobic performance and hypoxia resistance in high-altitude natives", Annu Rev Physiol, 81, pp.561~583 (2019)[DOI]
- Storz JF, "Life ascending : mechanism and process in physiological adaptation to high-altitude hypoxia", Annu Rev Ecol Evol Syst, 50, pp.503~526 (2019)[DOI]
- Bao H, "Sequencing and alignment of mitochondrial genomes of Tibetan chicken and two lowland chicken breeds", Sci China Ser C Life Sci, 51, pp.47~51 (2008)[DOI]
- Zhang H, "Influences of hypoxia on hatching performance in chickens with different genetic adaptation to high altitude", Poult Sci, 87, pp.2112~2116 (2008)[DOI]
- Zhang Y, "Insights into hypoxic adaptation in Tibetan chicken embryos from comparative proteomics", Comp Biochem Physiol Part D Genomics Proteomics, 31, pp.100602~ (2019)[DOI]
- Zhang Y, "Comparative transcriptomic and proteomic analyses provide insights into functional genes for hypoxic adaptation in embryos of Tibetan chickens", Sci Rep, 10, pp.11213~ (2020)[DOI]
- Kim SY, "Recent advances in developing inhibitors for hypoxia-inducible factor prolyl hydroxylases and their therapeutic implications", Molecules, 20, pp.20551~20568 (2015)[DOI]
- Semenza GL, "Oxygen sensing, hypoxia-inducible factors, and disease pathophysiology", Annu Rev Pathol, 9, pp.47~71 (2014)[DOI]
- Chen C, "Hypoxia inducible factors in hepatocellular carcinoma", Oncotarget, 8, pp.46691~46703 (2017)[DOI]
- Zhao X, "High-altitude adaptation of Tibetan chicken from MT-COI and ATP-6perspective", Mitochondrial DNA A DNA Mapp Seq Anal, 27, pp.3280~3288 (2016)[DOI]
- Zhang Z, "Whole genome bisulfite sequencing reveals unique adaptations to high-altitude environments in Tibetan chickens", PLoS One, 13, pp.e0193597~ (2018)[DOI]
- Zhang Y, "Genome methylation and regulatory functions for hypoxic adaptation in Tibetan chicken embryos", Peer J, 5, pp.e3891~ (2017)[DOI]
- Sharma P, "RNA-seq-based transcriptome profiling reveals differential gene expression in the lungs of Sprague-Dawley rats during early-phase acute hypobaric hypoxia", Mol Genet Genomics, 290, pp.2225~2240 (2015)[DOI]
- Li H, "Transcriptome profile of liver at different physiological stages reveals potential mode for lipid metabolism in laying hens", BMC Genomics, 16, pp.763~ (2015)[DOI]
- Holden JE, "Enhanced cardiac metabolism of plasma glucose in high-altitude natives : adaptation against chronic hypoxia", J Appl Physiol, 79, pp.222~228 (1995)[DOI]
- Andus T, "Effects of cytokines on the liver", Hepatology, 13, pp.364~375 (1991)[DOI]
- Suzuki T, "Hypoxia and fatty liver", World J Gastroenterol, 20, pp.15087~15097 (2014)[DOI]
- Lankford HV, "Dilated hearts at high altitude : words from on high", High Alt Med Biol, 15, pp.511~519 (2014)[DOI]
- Penaloza D, "The heart and pulmonary circulation at high altitudes : healthy highlanders and chronic mountain sickness", Circulation, 115, pp.1132~1146 (2007)[DOI]
- Zhang B, "Comparative transcriptomic and proteomic analyses provide insights into the key genes involved in high-altitude adaptation in the Tibetan pig", Sci Rep, 7, pp.3654~ (2017)[DOI]
- Kennedy SL, "Alterations in enzymes involved in fat metabolism after acute and chronic altitude exposure", J Appl Physiol, 90, pp.17~22 (2001)[DOI]
- Krishnan J, "Activation of a HIF1alphaPPARgamma axis underlies the integration of glycolytic and lipid anabolic pathways in pathologic cardiac hypertrophy", Cell Metab, 9, pp.512~524 (2009)[DOI]
- Chen J, "Hypoxia exacerbates nonalcoholic fatty liver disease via the HIF-2α", PPARα pathway, 2019, pp.317, E710~E722
- Maccallini C, "The positive regulation of eNOS signaling by PPAR agonists in cardiovascular diseases", Am J Cardiovasc Drugs, 17, pp.273~281 (2017)[DOI]
- Jain IH, "Genetic screen for cell fitness in high or low oxygen highlights mitochondrial and lipid metabolism", Cell, 181, pp.716~727 (2020)[DOI]
- St-Pierre J, "Suppression of reactive oxygen species and neurodegeneration by the PGC-1 transcriptional coactivators", Cell, 127, pp.397~408 (2006)[DOI]
- Muoio DM, "Skeletal muscle adaptation to fatty acid depends on coordinated actions of the PPARs and PGC1alpha : implications for metabolic disease", Appl Physiol Nutr Metab, 32, pp.874~883 (2007)[DOI]
- Schlaepfer IR, "CPT1A-mediated fat oxidation, mechanisms, and therapeutic potential", Endocrinology, 161, pp.bqz046~ (2020)[DOI]
- Nakamura MT, "Regulation of energy metabolism by long-chain fatty acids", Prog Lipid Res, 53, pp.124~144 (2014)[DOI]
- Huang TY, "Overexpression of PGC-1α increases peroxisomal activity and mitochondrial fatty acid oxidation in human primary myotubes", Am J Physiol Endocrinol Metab, 312, pp.E253~E263 (2017)[DOI]
- Chu J, "Pharmacological inhibition of fatty acid synthesis blocks SARS-CoV-2 replication", Nat Metab, 3, pp.1466~1475 (2021)[DOI]
- Postic C, "Contribution of de novo fatty acid synthesis to hepatic steatosis and insulin resistance : lessons from genetically engineered mice", J Clin Invest, 118, pp.829~838 (2008)[DOI]
- Lopes-Marques M, "Expansion, retention and loss in the Acyl-CoA synthetase"Bubblegum"(Acsbg)gene family in vertebrate history", Gene, 664, pp.111~118 (2018)[DOI]
- Zhang M, "Identification of differentially expressed genes and pathways between intramuscular and abdominal fat-derived preadipocyte differentiation of chickens in vitro", BMC Genomics, 20, pp.743~ (2019)[DOI]