Data from: Phylogeography of Silver Pheasant (Lophura nycthemera L.) across China: aggregate effects of refugia, introgression and riverine barriers
Dong, Lu, Beijing Normal University
Heckel, Gerald, Swiss Institute of Bioinformatics, University of Bern
Liang, Wei, Hainan Normal University
Zhang, Yanyun, Beijing Normal University
Published Mar 21, 2013 on Dryad.
Cite this dataset
Dong, Lu; Heckel, Gerald; Liang, Wei; Zhang, Yanyun (2013). Data from: Phylogeography of Silver Pheasant (Lophura nycthemera L.) across China: aggregate effects of refugia, introgression and riverine barriers [Dataset]. Dryad. https://doi.org/10.5061/dryad.7kd74
The role of Pleistocene glacial cycles in forming the contemporary genetic structure of organisms has been well studied in China with a particular focus on the Tibetan Plateau. However, China has a complex topography and diversity of local climates, and how glacial cycles may have shaped the subtropical and tropical biota of the region remains mostly unaddressed. To investigate the factors that affected the phylogeography and population history of a widely distributed and nondeciduous forest species, we analysed morphological characters, mitochondrial DNA sequences and nuclear microsatellite loci in the Silver Pheasant (Lophura nycthemera). In a pattern generally consistent with phenotypic clusters, but not nominal subspecies, deeply divergent mitochondrial lineages restricted to different geographic regions were detected. Coalescent simulations indicated that the time of main divergence events corresponded to major glacial periods in the Pleistocene and gene flow was only partially lowered by drainage barriers between some populations. Intraspecific cytonuclear discordance was revealed in mitochondrial lineages from Hainan Island and the Sichuan Basin with evidence of nuclear gene flow from neighbouring populations into the latter. Unexpectedly, hybridization was revealed in Yingjiang between the Silver Pheasant and Kalij Pheasant (Lophura leucomelanos) with wide genetic introgression at both the mtDNA and nuclear levels. Our results highlight a novel phylogeographic pattern in a subtropical area generated from the combined effects of climate oscillation, partial drainage barriers and interspecific hybridization. Cytonuclear discordance combined with morphological differentiation implies that complex historical factors shaped the divergence process in this biodiversity hot spot area of southern China.
Morphological data of Silver pheasant
Specimen information for morphological analysis. Museum code: BNU: Beijing Normal University; GFIPI: Guangxi Forest Inventory and Planning Institute; GXAS: Guangxi Academic of Sciences; GXNU: Guangxi Normal University; GZM: Guizhou Museum; HNU: Hunan Normal University; KIZ: Kunming Institute of Zoology, CAS; MNHN: Muséum national d’Histoire Naturelle, Paris, France; NHM: Natural History Museum, London, UK; IOZ: Institute of Zoology, CAS; SCU: Sichuan University. WL: Wing chord length, TL: tail length, BL: bill length, TaL: tarsus length. Number of black stripes on feathers of the hind neck (Nhn), mantle (Nm), rump (Nr), and lesser coverts (Nc). The ratio of PWL (pure white length on tail) /TL was calculated as the pure white tail length proportion (WP)
Samples collected are listed as subspecies, sampling localities, geographic coordinates, sample type, and total sample size with corresponding Map references and population labels.
1 Numbers corresponding to localities shown in Fig. 1.
2 Two types of sample were collected in the present study: b: blood; f: feather.
Microsatellites genotypes of 180 individuals (170 samples of silver pheasants and 10 kalij pheasants) for 11 STR loci. Pop code corresponding to "population label" in table "Smapling Locations".
Genbank Accession Numbers of cyt b and CR for SIlver pheasant and Kalij pheasant in China