Abebe, A.F., Cai, T., Wale, M., Song, G., Fjeldså, J., Lei, F., 2019. Factors determining species richness patterns of breeding birds along an elevational gradient in the Horn of Africa region. Ecol. Evol. 9, 9609-9623. doi: 10.1002/ece3.5491 |
Alström, P., Rasmussen, P.C., Zhao, C., Xu, J.Z., Dalvi, S., Cai, T.L., et al., 2016. Integrative taxonomy of the Plain-backed Thrush (Zoothera mollissima) complex (Aves, Turdidae) reveals cryptic species, including a new species. Avian Res. 7, 1. doi: 10.1186/s40657-016-0037-2 |
Anderson, D.R., Burnham, K.P., White, G.C., 1998. Comparison of Akaike information criterion and consistent Akaike information criterion for model selection and statistical inference from capture-recapture studies. J. Appl. Stat. 25, 263-282. doi: 10.1080/02664769823250 |
Cai, T.L., Fjeldså, J., Wu, Y.J., Shao, S.M., Chen, Y.H., Quan, Q., et al., 2018. What makes the Sino-Himalayan mountains the major diversity hotspots for pheasants? J. Biogeogr. 45, 640-651. doi: 10.1111/jbi.13156 |
Cai, T.L., Shao, S.M., Kennedy, J.D., Alström, P., Moyle, R.G., Qu, Y.H., et al., 2020. The role of evolutionary time, diversification rates and dispersal in determining the global diversity of a large radiation of passerine birds. J. Biogeogr. 47, 1612-1625. doi: 10.1111/jbi.13823 |
Cheng, Y.L., Miller, M.J., Zhang, D.Z., Xiong, Y., Hao, Y., Jia, C.X., et al., 2021. Parallel genomic responses to historical climate change and high elevation in East Asian songbirds. Proc. Nat. Acad. Sci. 118, e2023918118. doi: 10.1073/pnas.2023918118 |
Deng, T., Abbott, R.J., Li, W.Q., Sun, H., Volis, S., 2019. Genetic diversity hotspots and refugia identifid by mapping multi-plant species haplotype diversity in China. Israel J. Plant Sci. 66, 136-151. doi: 10.1163/22238980-20191083 |
Dong, F., Hung, C.M., Li, X.L., Gao, J.Y., Zhang, Q., Wu, F., et al., 2017. Ice age unfrozen: severe effect of the last interglacial, not glacial, climate change on East Asian avifauna. BMC Evol. Biol. 17, 244. doi: 10.1186/s12862-017-1100-2 |
Fan, D.M., Huang, J.H., Hu, H.L., Sun, Z.X., Cheng, S.M., Kou, Y.X., et al., 2018. Evolutionary hotspots of seed plants in subtropical China: a comparison with species diversity hotspots of woody seed plants. Front. Genet. 9, 333. doi: 10.3389/fgene.2018.00333 |
Fischer, R.A., 1930. The Genetical Theory of Natural Selection. Oxford University Press, Oxford. |
Fjeldså, J., 2013. The global diversification of songbirds (Oscines) and the build-up of the Sino-Himalayan diversity hotspot. Avian Res. 4, 132-143. https://www.researchgate.net/publication/270018310_The_global_diversification_of_songbirds_Oscines_and_the_build-up_of_the_Sino-Himalayan_diversity_hotspot |
Gratton, P., Marta, S., Bocksberger, G., Winter, M., Keil, P., Trucchi, E., et al., 2017. Which latitudinal gradients for genetic diversity? Trends Ecol. Evol. 32, 724-726. doi: 10.1016/j.tree.2017.07.007 |
He, K., Jiang, X.L., 2014. Sky islands of Southwest China. I: an overview of phylogeographic patterns. Chin. Sci. Bull. 59, 585-597. doi: 10.1007/s11434-013-0089-1 |
He, K., Hu, N.Q., Chen, X., Li, J.T., Jiang, X.L., 2016. Interglacial refugia preserved high genetic diversity of the Chinese mole shrew in the mountains of Southwest China. Heredity 116, 23-32. doi: 10.1038/hdy.2015.62 |
Heywood, V.H., Watson, R.T., 1995. Global Biodiversity Assessment. Cambridge University Press, Cambridge. |
Hijmans, R.J., Cameron, S.E., Parra, J.L., Jones, P.G., Jarvis, A., 2005. Very high resolution interpolated climate surfaces for global land areas. Int. J. Climatol. 25, 1965-1978. doi: 10.1002/joc.1276 |
Hu, Y.B., Fan, H.Z., Chen, Y.H., Chang, J., Zhan, X.J., Wu, H., et al., 2021. Spatial patterns and conservation of genetic and phylogenetic diversity of wildlife in China. Sci. Adv. 7, eabd5725. doi: 10.1126/sciadv.abd5725 |
Johansson, U.S., Alström, P., Olsson, U., Ericson, P.G.P., Sundberg, P., Price, T.D., 2007. Build-up of the Himalayan avifauna through immigration: a biogeographical analysis of the Phylloscopus and Seicercus warblers. Evolution 61, 324-333. doi: 10.1111/j.1558-5646.2007.00024.x |
Johansson, U.S., Nylinder, S., Ohlson, J.I., Tietze, D.T., 2018. Reconstruction of the late Miocene biogeographical history of tits and chickadees (Aves: Passeriformes: Paridae): a comparison between discrete area analyses and probabilistic diffusion approach. J. Biogeogr. 45, 14-25. doi: 10.1111/jbi.13095 |
Lawrence, E.R., Fraser, D.J., 2020. Latitudinal biodiversity gradients at three levels: linking species richness, population richness and genetic diversity. Global Ecol. Biogeogr. 29, 770-788. doi: 10.1111/geb.13075 |
Lei, F.M., 2012. Global endemism needs spatial integration. Science 335, 284-285. |
Lei, F.M., Qu, Y.H., Tang, Q.Q., An, S.C., 2003. Priorities for the conservation of avian biodiversity in China based on the distribution patterns of endemic bird genera. Biodivers. Conserv. 12, 2487-2501. doi: 10.1023/A:1025886718222 |
Lei, F.M., Qu, Y.H., Song, G., Alström, P., Fjeldså, J., 2015. The potential drivers in forming avian biodiversity hotspots in the East Himalaya Mountains of Southwest China. Integr. Zool. 10, 171-181. doi: 10.1111/1749-4877.12121 |
Leigh, D.M., van Rees, C.B., Millette, K.L., Breed, M.F., Schmidt, C., Bertola, L.D., et al., 2021. Opportunities and challenges of macrogenetic studies. Nat. Rev. Genet. 22, 791-807. doi: 10.1038/s41576-021-00394-0 |
Leitwein, M., Duranton, M., Rougemont, Q., Gagnaire, P.A., Bernatchez, L., 2020. Using haplotype information for conservation genomics. Trends Ecol. Evol. 35, 245-258. doi: 10.1016/j.tree.2019.10.012 |
Li, Y.M., Wang, S.Q., Cheng, C.Y., Zhang, J.Q., Wang, S.P., Hou, X.L., et al., 2021. Latitudinal gradients in genetic diversity and natural selection at a highly adaptive gene in terrestrial mammals. Ecography 44, 206-218. doi: 10.1111/ecog.05082 |
Librado, P., Rozas, J., 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25, 1451-1452. doi: 10.1093/bioinformatics/btp187 |
Liu, H.T., Wang, W.J., Song, G., Qu, Y.H., Li, S.H., Fjeldså, J., et al., 2012. Interpreting the process behind endemism in China by integrating the phylogeography and ecological niche models of the Stachyridopsis ruficeps. PLoS One 7, e46761. doi: 10.1371/journal.pone.0046761 |
Manel, S., Guerin, P.E., Mouillot, D., Blanchet, S., Velez, L., Albouy, C., et al., 2020. Global determinants of freshwater and marine fish genetic diversity. Nat. Commun. 11, 692. doi: 10.1038/s41467-020-14409-7 |
Martínez-Freiria, F., Velo-Anton, G., Brito, J.C., 2015. Trapped by climate: interglacial refuge and recent population expansion in the endemic Iberian adder Vipera seoanei. Divers. Distrib. 21, 331-344. doi: 10.1111/ddi.12265 |
Millette, K.L., Fugere, V., Debyser, C., Greiner, A., Chain, F.J.J., González, A., 2019. No consistent effects of humans on animal genetic diversity worldwide. Ecol. Lett. 23, 55-67. |
Miraldo, A., Li, S., Borregaard, M.K., Florez-Rodriguez, A., Gopalakrishnan, S., Rizvanovic, M., et al., 2016. An Anthropocene map of genetic diversity. Science 353, 1532-1535. doi: 10.1126/science.aaf4381 |
Mittermeier, R.A., Turner, W.R., Larsen, F.W., Brook, T.M., Gascon, C., 2011. Global Biodiversity Conservation: the Critical Role of Hotspots. Springer, Heidelberg. |
Moran, P.A., 1950. Notes on continuous stochastic phenomena. Biometrika 37, 17-23. doi: 10.1093/biomet/37.1-2.17 |
Myers, N., Mittermeier, R.A., Mittermeier, C.G., da Fonseca, G.A.B., Kent, J., 2000. Biodiversity hotspots for conservation priorities. Nature 403, 853-858. doi: 10.1038/35002501 |
Nei, M., 1987. Molecular Evolutionary Genetics. Colombia University Press, New York. |
Nei, M., Li, W.H., 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Nat. Acad. Sci. 76, 5269-5273. doi: 10.1073/pnas.76.10.5269 |
Oliver, M.A., Webster, R., 1990. Kriging: a method of interpolation for geographical information systems. Int. J. Geogr. Inform. Syst. 4, 313-332. doi: 10.1080/02693799008941549 |
Pauls, S.U., Nowak, C., Balint, M., Pfenninger, M., 2013. The impact of global climate change on genetic diversity within populations and species. Mol. Ecol. 22, 925-946. doi: 10.1111/mec.12152 |
Qu, Y.H., Ericson, P.G.P., Quan, Q., Song, G., Zhang, R.Y., Gao, B., et al., 2014. Long-term isolation and stability explain high genetic diversity in the Eastern Himalaya. Mol. Ecol. 23, 705-720. doi: 10.1111/mec.12619 |
Quintero, I., Jetz, W., 2018. Global elevational diversity and diversification of birds. Nature 555, 246-250. doi: 10.1038/nature25794 |
Rahbek, C., Borregaard, M.K., Colwell, R.K., Dalsgaard, B., Holt, B.G., Morueta-Holme, N., et al., 2019a. Humboldt's enigma: what causes global patterns of mountain biodiversity? Science 365: 1108-1113. doi: 10.1126/science.aax0149 |
R Core Team, 2020. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna. www.R-project.org. |
Rahbek, C., Borregaard, M.K., Antonelli, A., Colwell, R.K., Holt, B.G., Nogues-Bravo, D., et al., 2019b. Building mountain biodiversity: geological and evolutionary processes. Science 365: 1114-1119. doi: 10.1126/science.aax0151 |
Rangel, T.F., Diniz, J.A.F., Bini, L.M., 2010. SAM: a comprehensive application for Spatial Analysis in Macroecology. Ecography 33, 46-50. doi: 10.1111/j.1600-0587.2009.06299.x |
Reddy, S., Moyle, R.G., 2011. Systematics of the scimitar babblers (Pomatorhinus: Timaliidae): phylogeny, biogeography, and species-limits of four species complexes. Biol. J. Linn. Soc. 102, 846-869. doi: 10.1111/j.1095-8312.2010.01611.x |
Schmidt, C., Garroway, C.J., 2021. The population genetics of urban and rural amphibians in North America. Mol. Ecol. 30, 3918-3929. doi: 10.1111/mec.16005 |
Smith, B.T., Seeholzer, G.F., Harvey, M.G., Cuervo, A.M., Brumfield, R.T., 2017. A latitudinal phylogeographic diversity gradient in birds. PLoS Biol. 15, e2001073. doi: 10.1371/journal.pbio.2001073 |
Song, G., Qu, Y.H., Yin, Z.H., Li, S.S., Liu, N.F., Lei, F.M., 2009. Phylogeography of the Alcippe morrisonia (Aves: Timaliidae): long population history beyond late Pleistocene glaciations. BMC Evol. Biol. 9, 143. doi: 10.1186/1471-2148-9-143 |
Song, G., Zhang, R.Y., Alström, P., Irestedt, M., Cai, T.L., Qu, Y.H., et al., 2018. Complete taxon sampling of the avian genus Pica (magpies) reveals ancient relictual populations and synchronous Late-Pleistocene demographic expansion across the Northern Hemisphere. J. Avian Biol. 49, jav-01612. doi: 10.1111/jav.01612 |
Taberlet, P., Zimmermann, N.E., Englisch, T., Tribsch, A., Holderegger, R., Alvarez, N., et al., 2012. Genetic diversity in widespread species is not congruent with species richness in alpine plant communities. Ecol. Lett. 15, 1439-1448. doi: 10.1111/ele.12004 |
Tamura, K., Stecher, G., Peterson, D., Filipski, A., Kumar, S., 2013. MEGA6: molecular evolutionary genetics analysis Version 6.0. Mol. Biol. Evol. 30, 2725-2729. doi: 10.1093/molbev/mst197 |
Tritsch, C., Martens, J., Sun, Y.H., Heim, W., Strutzenberger, P., Päckert, M., 2017. Improved sampling at the subspecies level solves a taxonomic dilemma - a case study of two enigmatic Chinese tit species (Aves, Passeriformes, Paridae, Poecile). Mol. Phylogenet. Evol. 107, 538-550. doi: 10.1016/j.ympev.2016.12.014 |
van Els, P., Herrera-Alsina, L., Pigot, A.L., Etienne, R.S., 2021. Evolutionary dynamics of the elevational diversity gradient in passerine birds. Nat. Ecol. Evol. 5, 1259-1265. doi: 10.1038/s41559-021-01515-y |
Wan, T., Oaks, J.R., Jiang, X.L., Huang, H.T., Knowles, L.L., 2021. Differences in Quaternary co-divergence reveals community-wide diversification in the mountains of Southwest China varied among species. Proc. R. Soc. B. 288, 20202567. doi: 10.1098/rspb.2020.2567 |
Wang, W.J., Dai, C.Y., Mckay, B.D., Zhao, N., Li, S.H., Lei, F.M., 2013. Microsatellites underestimate genetic divergence in the Green-backed Tit (Parus monticolus). Avian Res. 4, 144-154. |
Wei, X.Z., Bao, D.C., Meng, H.J., Jang, M.X., 2017. Pattern and drivers of species-genetic diversity correlation in natural forest tree communities across a biodiversity hotspot. J. Plant Ecol. 11, 761-770. https://academic.oup.com/jpe/article/11/5/761/4093093 |
Wickham, H., 2016. ggplot2: Elegant Graphics for Data Analysis. Springer-Verlag, New York. |
Wu, Y.J., Colwell, R.K., Rahbek, C., Zhang, C.L., Quan, Q., Wang, C.K., et al., 2013. Explaining the species richness of birds along a subtropical elevational gradient in the Hengduan Mountains. J. Biogeogr. 40, 2310-2323. doi: 10.1111/jbi.12177 |
Wu, Y.J., DuBay, S.G., Colwell, R.K., Ran, J.H., Lei, F.M., 2017. Mobile hotspots and refugia of avian diversity in the mountains of south-west China under past and contemporary global climate change. J. Biogeogr. 44, 615-626. doi: 10.1111/jbi.12862 |
Xu, H.G., Cao, M.C., Wang, Z., Wu, Y., Cao, Y., Wu, J., et al., 2018. Low ecological representation in the protected area network of China. Ecol. Evol. 8, 6290-6298. doi: 10.1002/ece3.4175 |
Yu, H.B., Favre, A., Sui, X.H., Chen, Z., Qi, W., Xie, G.W., 2019. Mapping the genetic patterns of plants in the region of the Qinghai-Tibet Plateau: implications for conservation strategies. Divers. Distrib. 25, 310-324. doi: 10.1111/ddi.12847 |
Zhang, R.Z., 1999. China Animal Geography. Science Press, Beijing. |
Zhao, M., Chang, Y.B., Kimball, R.T., Zhao, J., Lei, F.M., Qu, Y.H., 2019. Pleistocene glaciation explains the disjunct distribution of the Chestnut-vented Nuthatch (Aves, Sittidae). Zool. Scr. 48, 33-45. doi: 10.1111/zsc.12327 |
Zhu, X.J., Guan, Y.Y., Qu, Y.H., David, G., Song, G., Lei, F.M., 2018a. Elevational divergence in the great tit complex revealed by major hemoglobin genes. Curr. Zool. 64, 455-464. doi: 10.1093/cz/zox042 |
Zhu, X.J., Guan, Y.Y., Signore, A.V., Natarajan, C., Dubay, S.G., Cheng, Y.L., et al., 2018b. Divergent and parallel routes of biochemical adaptation in high-altitude passerine birds from the Qinghai-Tibet Plateau. Proc. Nat. Acad. Sci. U.S.A. 115, 1865-1870. doi: 10.1073/pnas.1720487115 |