Insights into hypoxic adaptation in Tibetan chicken embryos from comparative proteomics

Yawen Zhang1, Wenyu Gou1, Ying Zhang1, Hao Zhang1, Changxin Wu1
1National Engineering Laboratory for Animal Breeding, Beijing Key Laboratory for Animal Genetic Improvement, College of Animal Science and Technology, China Agricultural University, Beijing, China

Tài liệu tham khảo

Bao, 2008, alignment of mitochondrial genomes of Tibetan chicken and two lowland chicken breeds, Sci China C Life Sci, 51, 47, 10.1007/s11427-008-0005-0 Beall, 2010, Natural selection on EPAS1 (HIF2alpha) associated with low hemoglobin concentration in Tibetan highlanders, Proc. Natl. Acad. Sci. U. S. A., 107, 11459, 10.1073/pnas.1002443107 Biddlestone, 2015, The role of hypoxia in inflammatory disease (review), Int. J. Mol. Med., 35, 859, 10.3892/ijmm.2015.2079 Bigham, 2010, Identifying signatures of natural selection in Tibetan and Andean populations using dense genome scan data, PLoS Genet., 6, 10.1371/journal.pgen.1001116 Brahimi-Horn, 2007, Hypoxia and cancer, J. Mol. Med. (Berl.), 85, 1301, 10.1007/s00109-007-0281-3 Chen, 2017, Hypoxia inducible factors in hepatocellular carcinoma, Oncotarget, 8, 46691, 10.18632/oncotarget.17358 Fukuda, 2002, Insulin-like growth factor 1 induces hypoxia-inducible factor 1-mediated vascular endothelial growth factor expression, which is dependent on MAP kinase and phosphatidylinositol 3-kinase signaling in colon cancer cells, J. Biol. Chem., 277, 38205, 10.1074/jbc.M203781200 Hackett, 2001, High-altitude illness, N. Engl. J. Med., 345, 107, 10.1056/NEJM200107123450206 Han, 2017, Hypoxia is a key driver of alternative splicing in human breast cancer cells Sci. Rep., 7, 4108 Harris, 2002, Hypoxia—a key regulatory factor in tumour growth, Nat. Rev. Cancer, 2, 38, 10.1038/nrc704 Hartmann, 2000, High altitude increases circulating interleukin-6, interleukin-1 receptor antagonist and C-reactive protein, Cytokine, 12, 246, 10.1006/cyto.1999.0533 Huang, 2009, Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources, Nat. Protoc., 4, 44, 10.1038/nprot.2008.211 Kim, 2015, Recent advances in developing inhibitors for hypoxia-inducible factor prolyl hydroxylases and their therapeutic implications, Molecules, 20, 20551, 10.3390/molecules201119717 King, 2012, Hypoxic enhancement of exosome release by breast cancer cells BMC Cancer, 12, 421 Kiriakidis, 2015, Factor-inhibiting HIF-1 (FIH-1) is required for human vascular endothelial cell survival, FASEB J., 29, 2814, 10.1096/fj.14-252379 H. Kumar, D.-K. Choi Hypoxia inducible factor pathway and physiological adaptation: a cell survival pathway? Mediators of Inflammation 2015 (2015), 584758-. Latosinska, 2015, Comparative analysis of label-free and 8-Plex iTRAQ approach for quantitative tissue proteomic analysis, PLoS One, 10, 10.1371/journal.pone.0137048 Liu, 2009, Highly efficient dissociation of oxygen from hemoglobin in Tibetan chicken embryos compared with lowland chicken embryos incubated in hypoxia, Poult. Sci., 88, 2689, 10.3382/ps.2009-00311 F.R. Lorenzo, T.S. Simonson, Y.Z. Yang, R.L. Ge, J.T. Prchal A Novel PHD2 mutation associated with Tibetan genetic adaptation to high altitude hypoxia Blood 116 (2010), 1076-. Maccallini, 2017, The positive regulation of eNOS signaling by PPAR agonists in cardiovascular diseases, Am. J. Cardiovasc. Drugs, 17, 273, 10.1007/s40256-017-0220-9 Marsiglia, 2014, Hypertrophic cardiomyopathy: how do mutations lead to disease?, Arq. Bras. Cardiol., 102, 295 Martinsen, 2014, Regulation of calcium channels in smooth muscle: new insights into the role of myosin light chain kinase, Channels (Austin, Tex.), 8, 402, 10.4161/19336950.2014.950537 Mi, 2013, Large-scale gene function analysis with the PANTHER classification system, Nat. Protoc., 8, 1551, 10.1038/nprot.2013.092 Michaelis, 2014, Mechanisms of endothelial cell migration, Cell. Mol. Life Sci., 71, 4131, 10.1007/s00018-014-1678-0 Mucaj, 2012, Effects of hypoxia and HIFs on cancer metabolism, Int. J. Hematol., 95, 464, 10.1007/s12185-012-1070-5 Y. Nikolsky, J. Bryant Protein networks and pathway analysis. Preface Methods Mol Biol 563 (2009), v-vii. Noman, 2015, Hypoxia: a key player in antitumor immune response. A review in the theme: Cellular Responses to Hypoxia, Am. J. Physiol. Cell Physiol., 309, C569, 10.1152/ajpcell.00207.2015 Pandey, 2015, ROCK2 and MYLK variants under hypobaric hypoxic environment of high altitude associate with high altitude pulmonary edema and adaptation, Appl. Clin. Genet., 8, 257 Paoli, 2002, Structure-function relationships in heme-proteins, DNA Cell Biol., 21, 271, 10.1089/104454902753759690 Peng, 2011, Genetic variations in Tibetan populations and high-altitude adaptation at the Himalayas, Mol. Biol. Evol., 28, 1075, 10.1093/molbev/msq290 Pompella, 2003, The changing faces of glutathione, a cellular protagonist, Biochem. Pharmacol., 66, 1499, 10.1016/S0006-2952(03)00504-5 Rathore, 2008, Hypoxia activates NADPH oxidase to increase [ROS]i and [Ca2+]i through the mitochondrial ROS-PKCɛ signaling axis in pulmonary artery smooth muscle cells, Free Radic. Biol. Med., 45, 1223, 10.1016/j.freeradbiomed.2008.06.012 Ream, 2008, Early fetal hypoxia leads to growth restriction and myocardial thinning, Am. J. Physiol. Regul. Integr. Comp. Physiol., 295, R583, 10.1152/ajpregu.00771.2007 Ross, 2004, Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents, Mol. Cell. Proteomics, 3, 1154, 10.1074/mcp.M400129-MCP200 Semenza, 2002, HIF-1 and tumor progression: pathophysiology and therapeutics, Trends Mol. Med., 8, S62, 10.1016/S1471-4914(02)02317-1 Semenza, 2014, Oxygen sensing, hypoxia-inducible factors, and disease pathophysiology, Annu. Rev. Pathol., 9, 47, 10.1146/annurev-pathol-012513-104720 Shilov, 2007, The paragon algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra, Mol. Cell. Proteomics, 6, 1638, 10.1074/mcp.T600050-MCP200 Simonson, 2010, Genetic evidence for high-altitude adaptation in Tibet, Science, 329, 72, 10.1126/science.1189406 Tashi, 2017, Gain-of-function EGLN1 prolyl hydroxylase (PHD2 D4E:C127S) in combination with EPAS1 (HIF-2alpha) polymorphism lowers hemoglobin concentration in Tibetan highlanders, J. Mol. Med. (Berl.), 95, 665, 10.1007/s00109-017-1519-3 Tintu, 2009, Hypoxia induces dilated cardiomyopathy in the chick embryo: mechanism, intervention, and long-term consequences, PLoS One, 4, 10.1371/journal.pone.0005155 Virtej, 2013, Vascular endothelial growth factors signalling in normal human dental pulp: a study of gene and protein expression, Eur. J. Oral Sci., 121, 92, 10.1111/eos.12019 Wang, 2007, A protein extraction method compatible with proteomic analysis for the euhalophyte Salicornia europaea, Electrophoresis, 28, 3976, 10.1002/elps.200600805 Wang, 2015, Genomic analyses reveal potential independent adaptation to high altitude in Tibetan chickens, Mol. Biol. Evol., 32, 1880, 10.1093/molbev/msv071 Xiang, 2013, Identification of a Tibetan-specific mutation in the hypoxic gene EGLN1 and its contribution to high-altitude adaptation, Mol. Biol. Evol., 30, 1889, 10.1093/molbev/mst090 Xu, 2011, A genome-wide search for signals of high-altitude adaptation in Tibetans, Mol. Biol. Evol., 28, 1003, 10.1093/molbev/msq277 Yi, 2010, Wang Sequencing of fifty human exomes reveals adaptation to high altitude, Science (New York, N.Y.), 329, 75, 10.1126/science.1190371 Zhang, 2012, Hypoxic level and duration differentially affect embryonic organ system development of the chicken (Gallus gallus), Poult. Sci., 91, 3191, 10.3382/ps.2012-02449 Zhang, 2006, Y. Ling Influences of oxygen on embryonic mortality and hatchability of chicken eggs Acta Veterinaria et Zootechnica Sinica, 37, 112 Zhang, 2008, Influences of hypoxia on hatching performance in chickens with different genetic adaptation to high altitude, Poult. Sci., 87, 2112, 10.3382/ps.2008-00122 Zhang, 2016, Genome resequencing identifies unique adaptations of Tibetan chickens to hypoxia and high-dose ultraviolet radiation in high-altitude environments, Genome Biol. Evol., 8, 765, 10.1093/gbe/evw032 Zhang, 2017, Comparative transcriptomic and proteomic analyses provide insights into the key genes involved in high-altitude adaptation in the Tibetan pig, Sci. Rep., 7 Zhang, 2017, Genome methylation and regulatory functions for hypoxic adaptation in Tibetan chicken embryos, Peerj, 5, 10.7717/peerj.3891