References
- Accardi, G. and Caruso, C. (2018). Immune-inflammatory responses in the elderly: an update. Immun. Ageing 15, 11. https://doi.org/10.1186/s12979-018-0117-8
- Adzhubei, I.A., Schmidt, S., Peshkin, L., Ramensky, V.E., Gerasimova, A., Bork, P., Kondrashov, A.S., and Sunyaev, S.R. (2010). A method and server for predicting damaging missense mutations. Nat. Methods 7, 248-249. https://doi.org/10.1038/nmeth0410-248
- Ashburner, M., Ball, C.A., Blake, J.A., Botstein, D., Butler, H., Cherry, J.M., Davis, A.P., Dolinski, K., Dwight, S.S., Eppig, J.T., et al. (2000). Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25, 25-29. https://doi.org/10.1038/75556
- Boulon, S., Verheggen, C., Jady, B.E., Girard, C., Pescia, C., Paul, C., Ospina, J.K., Kiss, T., Matera, A.G., Bordonne, R., et al. (2004). PHAX and CRM1 are required sequentially to transport U3 snoRNA to nucleoli. Mol. Cell 16, 777-787. https://doi.org/10.1016/j.molcel.2004.11.013
- Chen, W., Ma, J., Zhang, H., Li, D., and Zhang, X. (2012). Behavioural alterations in domestication process: comparative studies between wild, captive and inbred red-crowned cranes (Grus japonensis). J. Anim. Vet. Adv. 11, 2711-2715. https://doi.org/10.3923/javaa.2012.2711.2715
- Choi, Y., Sims, G.E., Murphy, S., Miller, J.R., and Chan, A.P. (2012). Predicting the functional effect of amino acid substitutions and indels. PLoS One 7, e46688. https://doi.org/10.1371/journal.pone.0046688
- Collins, K. (2008). Physiological assembly and activity of human telomerase complexes. Mech. Ageing Dev. 129, 91-98. https://doi.org/10.1016/j.mad.2007.10.008
- Collins, K. and Mitchell, J.R. (2002). Telomerase in the human organism. Oncogene 21, 564-579. https://doi.org/10.1038/sj.onc.1205083
- del Hoyo, J., Elliott, A., and Sargatal, J. (1996). Handbook of the Birds of the World (Barcelona: Lynx Edicions).
- Egan, E.D. and Collins, K. (2012). Biogenesis of telomerase ribonucleoproteins. RNA 18, 1747-1759. https://doi.org/10.1261/rna.034629.112
- Eggenschwiler, J.T. and Anderson, K.V. (2007). Cilia and developmental signaling. Annu. Rev. Cell Dev. Biol. 23, 345-373. https://doi.org/10.1146/annurev.cellbio.23.090506.123249
- Gentschew, L., Flachsbart, F., Kleindorp, R., Badarinarayan, N., Schreiber, S., and Nebel, A. (2013). Polymorphisms in the superoxidase dismutase genes reveal no association with human longevity in Germans: a case-control association study. Biogerontology 14, 719-727. https://doi.org/10.1007/s10522-013-9470-3
- Ghosh, S., Lertwattanarak, R., Lefort, N., Molina-Carrion, M., Joya-Galeana, J., Bowen, B.P., Garduno-Garcia Jde, J., Abdul-Ghani, M., Richardson, A., DeFronzo, R.A., et al. (2011). Reduction in reactive oxygen species production by mitochondria from elderly subjects with normal and impaired glucose tolerance. Diabetes 60, 2051-2060. https://doi.org/10.2337/db11-0121
- Hedges, S.B., Marin, J., Suleski, M., Paymer, M., and Kumar, S. (2015). Tree of life reveals clock-like speciation and diversification. Mol. Biol. Evol. 32, 835-845. https://doi.org/10.1093/molbev/msv037
- Held, P. (2012). An Introduction to Reactive Oxygen Species: Measurement of ROS in Cells. Application Guide (Winooski: BioTek Instruments).
- Hernanz, A., Fernandez-Vivancos, E., Montiel, C., Vazquez, J.J., and Arnalich, F. (2000). Changes in the intracellular homocysteine and glutathione content associated with aging. Life Sci. 67, 1317-1324. https://doi.org/10.1016/S0024-3205(00)00722-0
- Hine, C., Harputlugil, E., Zhang, Y., Ruckenstuhl, C., Lee, B.C., Brace, L., Longchamp, A., Trevino-Villarreal, J.H., Mejia, P., Ozaki, C.K., et al. (2015). Endogenous hydrogen sulfide production is essential for dietary restriction benefits. Cell 160, 132-144. https://doi.org/10.1016/j.cell.2014.11.048
- Huang, D.W., Sherman, B.T., and Lempicki, R.A. (2008). Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc. 4, 44-57. https://doi.org/10.1038/nprot.2008.211
- IUCN (International Union for Conservation of Nature) (2017). The IUCN Red List of Threatened Species. IUCN Data, https://www.iucnredlist.org/species/22692167/93339099.
- Jarvis, E.D., Mirarab, S., Aberer, A.J., Li, B., Houde, P., Li, C., Ho, S.Y.W., Faircloth, B.C., Nabholz, B., Howard, J.T., et al. (2015). Phylogenomic analyses data of the avian phylogenomics project. GigaScience 4, 4. https://doi.org/10.1186/s13742-014-0038-1
- Ji, Y. and DeWoody, J.A. (2017). Relationships among powered flight, metabolic rate, body mass, genome size, and the retrotransposon complement of volant birds. Evol. Biol. 44, 261-272. https://doi.org/10.1007/s11692-016-9405-4
- John, B. and Dunning, J. (2008). CRC Handbook of Avian Body Masses (Florida: CRC Press).
- Kanehisa, M. and Goto, S. (2000). KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28, 27-30. https://doi.org/10.1093/nar/28.1.27
- Krajewski, C., Sipiorski, J.T., and Anderson, F.E. (2010). Complete mitochondrial genome sequences and the phylogeny of cranes (gruiformes: gruidae). Auk 127, 440-452. https://doi.org/10.1525/auk.2009.09045
- Li, H. and Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760. https://doi.org/10.1093/bioinformatics/btp324
- Li, H. and Durbin, R. (2011). Inference of human population history from individual whole-genome sequences. Nature 475, 493-496. https://doi.org/10.1038/nature10231
- Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., and Genome Project Data Processing, S. (2009). The sequence alignment/map format and SAMtools. Bioinformatics 25, 2078-2079. https://doi.org/10.1093/bioinformatics/btp352
- Li, L., Stoeckert, C.J., Jr., and Roos, D.S. (2003). OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 13, 2178-2189. https://doi.org/10.1101/gr.1224503
- Loncarek, J. and Bettencourt-Dias, M. (2017). Building the right centriole for each cell type. J. Cell Biol. 217, 823-835. https://doi.org/10.1083/jcb.201704093
- Loytynoja, A. and Goldman, N. (2010). webPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser. BMC Bioinformatics 11, 579. https://doi.org/10.1186/1471-2105-11-579
- Marcais, G. and Kingsford, C. (2011). A fast, lock-free approach for efficient parallel counting of occurrences of k-mers. Bioinformatics 27, 764-770. https://doi.org/10.1093/bioinformatics/btr011
- McKechnie, A.E. and Wolf, B.O. (2004). The allometry of avian basal metabolic rate: good predictions need good data. Physiol. Biochem. Zool. 77, 502-521. https://doi.org/10.1086/383511
- McKenna, A.H., Hanna, M., Banks, E., Sivachenko, A., Cibulskis, K., Kernytsky, A., Garimella, K., Altshuler, D., Gabriel, S., Daly, M., et al. (2010). The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20, 1297-1303. https://doi.org/10.1101/gr.107524.110
- Mendez, J.I., Nicholson, W.J., and Taylor, W.R. (2005). SOD isoforms and signaling in blood vessels: evidence for the importance of ROS compartmentalization. Arterioscler. Thromb. Vasc. Biol. 25, 887-888. https://doi.org/10.1161/01.ATV.0000164043.24549.50
- Osada, N. (2014). Extracting population genetics information from a diploid genome sequence. Front. Ecol. Evol. 2, 7. https://doi.org/10.3389/fevo.2014.00007
- Rasmussen, P.C. and Engstrom, R.T. (2004). Threatened birds of Asia: the Birdlife international red data book. Auk 121, 619-622. https://doi.org/10.1642/0004-8038(2004)121[0619:TBOATB]2.0.CO;2
- Schmidt, J.C. and Cech, T.R. (2015). Human telomerase: biogenesis, trafficking, recruitment, and activation. Genes Dev. 29, 1095-1105. https://doi.org/10.1101/gad.263863.115
- Scholander, P.F., Hock, R., Walters, V., and Irving, L. (1950). Adaptation to cold in arctic and tropical mammals and birds in relation to body temperature, insulation, and basal metabolic rate. Biol. Bull 99, 259-271. https://doi.org/10.2307/1538742
- Shannon, P., Markiel, A., Ozier, O., Baliga, N.S., Wang, J.T., Ramage, D., Amin, N., Schwikowski, B., and Ideker, T. (2003). Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504. https://doi.org/10.1101/gr.1239303
- Speakman, J.R. (2005). Body size, energy metabolism and lifespan. J. Exp. Biol. 208, 1717-1730. https://doi.org/10.1242/jeb.01556
- Stroud, D.A., Surgenor, E.E., Formosa, L.E., Reljic, B., Frazier, A.E., Dibley, M.G., Osellame, L.D., Stait, T., Beilharz, T.H., Thorburn, D.R., et al. (2016). Accessory subunits are integral for assembly and function of human mitochondrial complex I. Nature 538, 123. https://doi.org/10.1038/nature19754
- Tacutu, R., Craig, T., Budovsky, A., Wuttke, D., Lehmann, G., Taranukha, D., Costa, J., Fraifeld, V.E., and de Magalhaes, J.P. (2013). Human ageing genomic resources: integrated databases and tools for the biology and genetics of ageing. Nucleic Acids Res. 41, D1027-D1033. https://doi.org/10.1093/nar/gks1155
- Tkemaladze, J.V. and Chichinadze, K.N. (2005). Centriolar mechanisms of differentiation and replicative aging of higher animal cells. Biochemistry (Mosc) 70, 1288-1303. https://doi.org/10.1007/s10541-005-0261-6
- Valentine, R.C. and Valentine, D.L. (2014). Human Longevity: Omega-3 Fatty Acids, Bioenergetics, Molecular Biology, and Evolution (Florida: CRC Press).
- Van der Auwera, G.A., Carneiro, M.O., Hartl, C., Poplin, R., del Angel, G., Levy-Moonshine, A., Jordan, T., Shakir, K., Roazen, D., Thibault, J., et al. (2013). From FastQ data to high confidence variant calls: the genome analysis toolkit best practices pipeline. Curr. Protoc. Bioinformatics 43, 11.10.1-11.10.33.
- Walkinshaw, L. (1973). Cranes of the World (New York: Winchester Press).
- Wang, Z., Li, Z., Beauchamp, G., and Jiang, Z. (2011). Flock size and human disturbance affect vigilance of endangered red-crowned cranes (Grus japonensis). Biol. Conserv. 144, 101-105. https://doi.org/10.1016/j.biocon.2010.06.025
- Wasser, D.E. and Sherman, P.W. (2010). Avian longevities and their interpretation under evolutionary theories of senescence. J. Zool. 280, 103-155. https://doi.org/10.1111/j.1469-7998.2009.00671.x
- Yang, Z. (1997). PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13, 555-556.
- Yu, J., Liu, J., and Jin, W. (2001). Analysis of the environment feature of breeding area and endangered factors of red-crowned crane in China. Chin. Geogr. Sci. 11, 186-191. https://doi.org/10.1007/s11769-001-0041-1
- Zhang, G., Li, C., Li, Q., Li, B., Larkin, D.M., Lee, C., Storz, J.F., Antunes, A., Greenwold, M.J., Meredith, R.W., et al. (2014). Comparative genomics reveals insights into avian genome evolution and adaptation. Science 346, 1311-1320. https://doi.org/10.1126/science.1251385
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