SUPPORTING INFORMATION
Supporting information is available as submitted.
LITERATURE
CITED
Alström, P., U. Olsson, and F. Lei (2013). A review of the recent
advances in the systematics of the avian superfamily Sylvioidea. Chinese
Birds 4:99–131.
Alström, P., F. E. Rheindt, R. Zhang, M. Zhao, J. Wang, X. Zhu, C. Y.
Gwee, Y. Hao, J. Ohlson, C. Jia, D. M. Prawiradilaga, et al. (2018).
Complete species-level phylogeny of the leaf warbler (Aves:
Phylloscopidae) radiation. Molecular Phylogenetics and Evolution
126:141–152.
Baker, A. M., P. B. Mather, and J. M. Hughes (2001). Evidence for
long-distance dispersal in a sedentary passerine, Gymnorhina
tibicen (Artamidae). Biological Journal of the Linnean Society
72:333–343.
Ballard, J. W. O., and M. C. Whitlock (2004). The incomplete natural
history of mitochondria. Molecular Ecology 13:729–744.
Burney, CW, Brumfield, RT (2009) Ecology predicts levels of genetic
differentiation in Neotropical birds. American Naturalist 174:358-368.
Cai, T, Cibois, A, Alström, P, Moyle, RG, Kennedy, JD, Shao, S, Zhang,
R, Irestedt, M, Ericson, PG, Gelang, M (2019) Near-complete phylogeny
and taxonomic revision of the world’s babblers (Aves: Passeriformes).
Molecular Phylogenetics and Evolution 130:346-356.
Cai, T., S. Shao, J. D. Kennedy, P. Alström, R. G. Moyle, Y. Qu, F. Lei,
and J. Fjeldså (2020). The role of evolutionary time, diversification
rates and dispersal in determining the global diversity of a large
radiation of passerine birds. Journal of Biogeography 47:1612–1625.
Céspedes Arias, L. N., S. Wilson, and N. J. Bayly (2022). Community
modeling reveals the importance of elevation and land cover in shaping
migratory bird abundance in the Andes. Ecological Applications 32.
Chaves, J. A., J. T. Weir, and T. B. Smith (2011). Diversification in
Adelomyia hummingbirds follows Andean uplift. Molecular Ecology
20:4564–4576.
Chen, J.-M., W.-W. Zhou, N. A. Poyarkov, B. L. Stuart, R. M. Brown, A.
Lathrop, Y.-Y. Wang, Z.-Y. Yuan, K. Jiang, M. Hou, H.-M. Chen, et al.
(2017). A novel multilocus phylogenetic estimation reveals unrecognized
diversity in Asian horned toads, genus Megophrys sensu lato
(Anura: Megophryidae). Molecular Phylogenetics and Evolution 106:28–43.
Chen, P., R. Hua, B. Zhang, J. Lu, and C. Fan (2002). Early Yanshanian
post-orogenic granitoids in the Nanling region - Petrological
constraints and geodynamic settings. Science in China, Series D: Earth
Sciences 45:755–768.
Cheng, T., and Y. Chang (1956). On tentative scheme for dividing
zoogeographical regions of China. Acta Geologica Sinica 22:93.
Collar, N. and C. Robson (2021a). Greater Necklaced Laughingthrush
(Pterorhinus pectoralis ), version 1.1. In Birds of the World (J.
del Hoyo, A. Elliott, J. Sargatal, D. A. Christie, and E. de Juana,
Editors). Cornell Lab of Ornithology, Ithaca, NY, USA.
https://doi.org/10.2173/bow.gnlthr.01.1
Collar, N. and C. Robson (2021b). Indochinese Yuhina (Staphida
torqueola ), version 1.1. In Birds of the World (J. del Hoyo, A.
Elliott, J. Sargatal, D. A. Christie, and E. de Juana, Editors). Cornell
Lab of Ornithology, Ithaca, NY, USA.
https://doi.org/10.2173/bow.indyuh1.01.1
Cruickshank, T. E., and M. W. Hahn (2014). Reanalysis suggests that
genomic islands of speciation are due to reduced diversity, not reduced
gene flow. Molecular Ecology 23:3133–3157.
Danielson, J. J., and D. B. Gesch (2011). Global multi-resolution
terrain elevation data 2010 (GMTED2010). OFR 2011–1073.
Develey, P. F., and P. C. Stouffer (2008). Effects of roads on movements
by understory birds in mixed-species flocks in central Amazonian Brazil.
Conservation Biology 15:1416–1422.
Dong, F., C. M. Hung, X. L. Li, J. Y. Gao, Q. Zhang, F. Wu, F. M. Lei,
S. H. Li, and X. J. Yang (2017). Ice age unfrozen: severe effect of the
last interglacial, not glacial, climate change on East Asian avifauna.
BMC evolutionary biology 17:244.
Van Etten, J. (2017). R Package gdistance : Distances and Routes on
Geographical Grids. Journal of Statistical Software 76.
Ezard,
T., T Fujisawa,T. Barraclough (2021). splits: SPecies’ LImits by
Threshold Statistics. R package version 1.0-20/r56,
<https://R-Forge.R-project.org/projects/splits/>.
Fishpool, L. and J. Tobias (2020). Mountain Bulbul (Ixos
mcclellandii ), version 1.0. In Birds of the World (J. del Hoyo, A.
Elliott, J. Sargatal, D. A. Christie, and E. de Juana, Editors). Cornell
Lab of Ornithology, Ithaca, NY, USA.
https://doi.org/10.2173/bow.moubul2.01.
Gill, F, D Donsker, and P Rasmussen (Eds). 2021. IOC World Bird List (v
11.1). Doi 10.14344/IOC.ML.11.1. http://www.worldbirdnames.org/
Guo, Z. T., B. Sun, Z. S. Zhang, S. Z. Peng, G. Q. Xiao, J. Y. Ge, Q. Z.
Hao, Y. S. Qiao, M. Y. Liang, J. F. Liu, Q. Z. Yin, and J. J. Wei
(2008). A major reorganization of Asian climate by the early Miocene.
Climate of the Past 4:153–174.
Hazzi, N. A., J. S. Moreno, C. Ortiz-Movliav, and R. D. Palacio (2018).
Biogeographic regions and events of isolation and diversification of the
endemic biota of the tropical Andes. Proceedings of the National Academy
of Sciences of the United States of America 115:7985–7990.
Hijmans, Robert J. (2019). raster: Geographic Data Analysis and
Modeling. R package version 2.9-23.
Hoorn, C., A. Perrigo, and A. Antonelli (2018). Mountains, climate and
biodiversity. Wiley-Blackwell.
Van Houtan, K. S., S. L. Pimm, J. M. Halley, R. O. Bierregaard, and T.
E. Lovejoy (2007). Dispersal of Amazonian birds in continuous and
fragmented forest. Ecology Letters 10:219–229.
Hu, Y., H. Fan, Y. Chen, J. Chang, X. Zhan, H. Wu, B. Zhang, M. Wang, W.
Zhang, L. Yang, X. Hou, X. Shen, T. Pan, W. Wu, J. Li, H. Hu, F. Wei,.
(2021). Spatial patterns and conservation of genetic and phylogenetic
diversity of wildlife in China. Science Advances 7:1–10.
Hubble, S. P. (2001). The unified neutral theory of biodiversity and
biogeography. Princeton University Press.
Jacques, F. M. B., G. Shi, and W. Wang (2011). Reconstruction of Neogene
zonal vegetation in South China using the Integrated Plant Record (IPR)
analysis. Palaeogeography, Palaeoclimatology, Palaeoecology
307:272–284.
Janzen, D. H. (1967). Why mountain passes are higher in the tropics. The
American Naturalist 101:233–249.
Jukes, T. H., and C. R. Cantor (1969). Evolution of Protein Molecules.
In Mammalian Protein Metabolism. Elsevier, pp. 21–132.
Karger, D. N., O. Conrad, J. Böhner, T. Kawohl, H. Kreft, R. W.
Soria-Auza, N. E. Zimmermann, H. P. Linder, and M. Kessler (2017).
Climatologies at high resolution for the earth’s land surface areas.
Scientific Data 4:170122.
Karger, D. N., O. Conrad, J.
Böhner, T. Kawohl, H. Kreft, R. W. Soria-Auza, N. E. Zimmermann, H. P.
Linder, and M. Kessler (2018). Data from: Climatologies at high
resolution for the earth’s land surface areas. Dryad Digital Repository.
http://dx.doi.org/doi:10.5061/dryad.kd1d4
Karney, C. F. F. (2011). Geodesics on an ellipsoid of revolution.
https://arxiv.org/abs/1102.1215.
Kirwan, G. M., N. Collar, C. Robson, and D. A. Christie (2021). Huet’s
Fulvetta (Alcippe hueti ), version 2.0. In Birds of the World (B.
K. Keeney, Editor). Cornell Lab of Ornithology, Ithaca, NY, USA.
https://doi.org/10.2173/bow.gycful5.02
Körner, C., W. Jetz, J. Paulsen, D. Payne, K. Rudmann-Maurer, and E. M.
Spehn (2017). A global inventory of mountains for bio-geographical
applications. Alpine Botany 127:1–15.
Kumar, S., G. Stecher, M. Li, C. Knyaz, and K. Tamura (2018). MEGA X:
Molecular Evolutionary Genetics Analysis across Computing Platforms.
Molecular Biology and Evolution 35:1547–1549.
Kumar, S., G. Stecher, M. Suleski, and S. B. Hedges (2017). TimeTree: A
Resource for Timelines, Timetrees, and Divergence Times. Molecular
Biology and Evolution 34:1812–1819.
Lambeck, K., H. Rouby, A. Purcell, Y. Sun, and M. Sambridge (2014). Sea
level and global ice volumes from the Last Glacial Maximum to the
Holocene. Proceedings of the National Academy of Sciences of the United
States of America 111:15296–15303.
Laurance, S. G. W. (2004). Responses of understory rain forest birds to
road edges in central Amazonia. Ecological Applications 14:1344–1357.
Li, J., Y. Zhang, S. Dong, and S. T. Johnston (2014). Cretaceous
tectonic evolution of South China: A preliminary synthesis.
Earth-Science Reviews 134:98–136.
López-Pujol, J., F.-M. Zhang, H.-Q. Sun, T.-S. Ying, and S. Ge (2011a).
Mountains of southern China as “Plant Museums” and “Plant Cradles”:
Evolutionary and conservation insights. Mountain Research and
Development 31:261–269.
López-Pujol, J., F. M. Zhang, H. Q. Sun, T. S. Ying, and S. Ge (2011b).
Centres of plant endemism in China: Places for survival or for
speciation? Journal of Biogeography 38:1267–1280.
Lynch, M., B. Koskella, and S. Schaack (2006). Mutation Pressure and the
Evolution of Organelle Genomic Architecture. Science 311:1727–1730.
Male, T. D., S. G. Fancy, and C.
J. Ralph (2020). Red-billed Leiothrix (Leiothrix lutea), version 1.0. In
Birds of the World (S. M. Billerman, Editor). Cornell Lab of
Ornithology, Ithaca, NY, USA. https://doi.org/10.2173/bow.reblei.01
Manni, F., E. Guerard, and E. Heyer (2004). Geographic patterns of
(genetic, morphologic, linguistic) variation: How barriers can be
detected by using Monmonier’s algorithm. Human Biology 76:173–190.
Mayr, G. (2013). The age of the crown group of passerine birds and its
evolutionary significance - Molecular calibrations versus the fossil
record. Systematics and Biodiversity 11:7–13.
Mi, X., G. Feng, Y. Hu, J. Zhang, L. Chen, R. T. Corlett, A. C. Hughes,
S. Pimm, B. Schmid, S. Shi, J.-C. Svenning, and K. Ma (2021). The global
significance of biodiversity science in China: an overview. National
Science Review. https://doi.org/10.1093/nsr/nwab032
Moore, R. P., W. D. Robinson, I.
J. Lovette, and T. R. Robinson (2008). Experimental evidence for extreme
dispersal limitation in tropical forest birds. Ecology Letters
11:960–968.
Nei, M., and J. C. Miller (1990). A simple method for estimating average
number of nucleotide substitutions within and between populations from
restriction data. Genetics 125:873–879.
Nguyen, J. M. T., and S. Y. W. Ho (2016). Mitochondrial rate variation
among lineages of passerine birds. Journal of Avian Biology 47:690–696.
Nieto Feliner, G. (2014). Patterns and processes in plant phylogeography
in the Mediterranean Basin. A review. Perspectives in Plant Ecology,
Evolution and Systematics 16:265–278.
Nosil, P., T. H. Vines, and D. J. Funk (2005). Perspective: Reproductive
isolation caused by natural selection against immigration from divergent
habitats. Evolution 59:705–719.
Oksanen, A. J., F. G. Blanchet, M. Friendly, R. Kindt, P. Legendre, D.
Mcglinn, P. R. Minchin, R. B. O. Hara, G. L. Simpson, P. Solymos, M. H.
H. Stevens, and E. Szoecs (2019). Vegan. Encyclopedia of Food and
Agricultural Ethics:2395–2396.
Oliveros, C. H., D. J. Field, D. T. Ksepka, F. Keith Barker, A. Aleixo,
M. J. Andersen, P. Alström, B. W. Benz, E. L. Braun, M. J. Braun, G. A.
Bravo, et al. (2019). Earth history and the passerine superradiation.
Proceedings of the National Academy of Sciences of the United States of
America 116:7916–7925.
Päckert, M., J. Martens, Y.-H. Sun, L. L. Severinghaus, A. A. Nazarenko,
J. Ting, T. Töpfer, and D. T. Tietze (2012). Horizontal and elevational
phylogeographic patterns of Himalayan and Southeast Asian forest
passerines (Aves: Passeriformes). Journal of Biogeography 39:556–573.
Phillips, S. J., R. P. Anderson, and R. E. Schapire (2006). Maximum
entropy modeling of species geographic distributions. Ecological
Modelling 190:231–259.
Polzin, T., and S. V. Daneshmand (2003). On Steiner trees and minimum
spanning trees in hypergraphs. Operations Research Letters 31:12–20.
Qu, Y., G. Song, B. Gao, Q. Quan, P. G. P. Ericson, and F. Lei (2015).
The influence of geological events on the endemism of East Asian birds
studied through comparative phylogeography. Journal of Biogeography
42:179–192.
R Core Team (2020). R: A language and environment for statistical
computing.
Ramos, R., G. Song, J. Navarro,
R. Zhang, C. T. Symes, M. G. Forero, and F. Lei (2016). Population
genetic structure and long-distance dispersal of a recently expanding
migratory bird. Molecular Phylogenetics and Evolution 99:194–203.
Rahbek, C., M. K. Borregaard, A. Antonelli, R. K. Colwell, B. G. Holt,
D. Nogues-Bravo, C. M. Ø. Rasmussen, K. Richardson, M. T. Rosing, R. J.
Whittaker, and J. Fjeldså (2019a). Building mountain biodiversity:
Geological and evolutionary processes. Science 365:1114–1119.
Rahbek, C., M. K. Borregaard, R. K. Colwell, B. Dalsgaard, B. G. Holt,
N. Morueta-Holme, D. Nogues-Bravo, R. J. Whittaker, and J. Fjeldså
(2019b). Humboldt’s enigma: What causes global patterns of mountain
biodiversity? Science 365:1108–1113.
Rozas, J., A. Ferrer-Mata, J. C. Sánchez-DelBarrio, S. Guirao-Rico, P.
Librado, S. E. Ramos-Onsins, and A. Sánchez-Gracia (2017). DnaSP 6: DNA
Sequence Polymorphism Analysis of Large Data Sets. Molecular Biology and
Evolution 34:3299–3302.
Sangster, G., P. Alström, E. Forsmark, and U. Olsson (2010). Multi-locus
phylogenetic analysis of Old World chats and flycatchers reveals
extensive paraphyly at family, subfamily and genus level (Aves:
Muscicapidae). Molecular Phylogenetics and Evolution 57:380–392.
Sheldon, FH, Lim, HC, Moyle, RG (2015) Return to the Malay Archipelago:
the biogeography of Sundaic rainforest birds. Journal of Ornithology 156
(Supplement 1):S91–S113.
Siddall, M., E. J. Rohling, A. Almogi-Labin, C. Hemleben, D. Meischner,
I. Schmelzer, and D. A. Smeed (2003). Sea-level fluctuations during the
last glacial cycle. Nature 423:853–858.
Soininen, J., R. McDonald, and H. Hillebrand (2007). The distance decay
of similarity in ecological communities. Ecography 30:3–12.
Song, G., Y. Qu, Z. Yin, S. Li, N. Liu, and F. Lei (2009).
Phylogeography of the Alcippe morrisonia (Aves: Timaliidae): Long
population history beyond late Pleistocene glaciations. BMC Evolutionary
Biology 9:1–11.
Spehn, E., K. Rudmann-Maurer, C. Körner, and D. Maselli (2010). Mountain
biodiversity and global change. Global Mountain Biodiversity Assessment
(GMBA) of DIVERSITAS, Basel.
Spellman, G. M., and J. Klicka (2006). Testing hypotheses of Pleistocene
population history using coalescent simulations: Phylogeography of the
pygmy nuthatch (Sitta pygmaea). Proceedings of the Royal Society B:
Biological Sciences 273:3057–3063.
Stratford, J. A., and W. D. Robinson (2005). Distribution of neotropical
migratory bird species across an urbanizing landscape. Urban Ecosystems
8:59–77.
Strimas-Mackey, M., W.M. Hochachka, V. Ruiz-Gutierrez, O.J. Robinson,
E.T. Miller, T. Auer, S. Kelling, D. Fink, A. Johnston. 2020. Best
Practices for Using eBird Data. Version 1.0.
https://cornelllabofornithology.github.io/ebird-best-practices/. Cornell
Lab of Ornithology, Ithaca, New York.
https://doi.org/10.5281/zenodo.3620739
Sullivan, B. L., C. L. Wood, M. J. Iliff, R. E. Bonney, D. Fink, and S.
Kelling (2009). eBird: A citizen-based bird observation network in the
biological sciences. Biological Conservation 142:2282–2292.
Tang, Z., Z. Wang, C. Zheng, and J. Fang (2006). Biodiversity in China’s
mountains. Frontiers in Ecology and the Environment 4:347–352.
Tajima, F. (1989). The effect of change in population size on DNA
polymorphism. Genetics 123:597 LP – 601.
Tian, S., Y. Kou, Z. Zhang, L. Yuan, D. Li, J. López-Pujol, D. Fan, and
Z. Zhang (2018). Phylogeography of Eomecon chionantha in subtropical
China: The dual roles of the Nanling Mountains as a glacial refugium and
a dispersal corridor. BMC Evolutionary Biology 18:1–12.
Tian, S., J. López-Pujol, H. W. Wang, S. Ge, and Z. Y. Zhang (2010).
Molecular evidence for glacial expansion and interglacial retreat during
Quaternary climatic changes in a montane temperate pine (Pinus
kwangtungensis Chun ex Tsiang) in southern China. Plant Systematics and
Evolution 284:219–229.
Tobias, J. A., J. Ottenburghs, and A. L. Pigot (2020). Avian Diversity:
Speciation, Macroevolution, and Ecological Function. Annual Review of
Ecology, Evolution, and Systematics 51:533–560.
Tobias, J. A., C. Sheard, A. L. Pigot, A. J. M. Devenish, J. Yang, F.
Sayol, N. Alioravainen, T. L. Weeks, R. A. Barber, P. A. Walkden, H. E.
A. Macgregor, et al. (2022). AVONET : morphological , ecological and
geographical data for all birds. 581–597.
Turcotte, Y., and A. Desrochers (2003). Landscape-dependent response to
predation risk by forest birds. Oikos 100:614–618.
Wang, J., C. Feng, T. Jiao, E. B. Von Wettberg, and M. Kang (2017).
Genomic signature of adaptive divergence despite strong nonadaptive
forces on edaphic islands: A case study of Primulina juliae .
Genome Biology and Evolution 9:3495–3508.
Wang, J., P. Gao, M. Kang, A. J. Lowe, and H. Huang (2009). Refugia
within refugia: the case study of a canopy tree ( Eurycorymbus
cavaleriei ) in subtropical China. Journal of Biogeography
36:2156–2164.
White, A. E. (2016). Geographical Barriers and Dispersal Propensity
Interact to Limit Range Expansions of Himalayan Birds. The American
Naturalist 188:99–112.
Williamson, J. L., and C. C. Witt (2021). Elevational niche-shift
migration: Why the degree of elevational change matters for the ecology,
evolution, and physiology of migratory birds. Ornithology 138.
Wright, S. (1943). Isolation by distance. Genetics 28:114–138.
Wu, Y., J. Huang, M. Zhang, S. Luo, Y. Zhang, F. Lei, F. H. Sheldon, and
F. Zou (2012). Genetic divergence and population demography of the
Hainan endemic Black-throated Laughingthrush (Aves: Timaliidae, Garrulax
chinensis monachus) and adjacent mainland subspecies. Molecular
Phylogenetics and Evolution 65:482–489.
Xu, H., Y. Wu, Y. Cao, M. Cao, W. Tong, Z. Le, X. Lu, J. Li, F. Ma, L.
Liu, F. Hu, et al. (2018). Low overlaps between hotspots and
complementary sets of vertebrate and plant species in China.
Biodiversity and Conservation 27:2713–2727.
Zhao, Z. (2001). The handbook of the birds of China. 2nd edition. Jilin
Science and Technology Press, Jilin.
Zou, F., H. Chuan Lim, B. D. Marks, R. G. Moyle, and F. H. Sheldon
(2007). Molecular phylogenetic analysis of the Grey-cheeked Fulvetta
(Alcippe morrisonia) of China and Indochina: A case of remarkable
genetic divergence in a “species”. Molecular Phylogenetics and
Evolution 44:165–174.