Publications

(* corresponding authors; bold: our lab members)

2023

  1. Lu, C.-W., Huang, S.-T., Cheng, S.-J., Lin, C.-T., Hsu, Y.-C., Yao, C.-T., Dong, F, Hung, C.-M.*, Kuo, H.-C.* (in press) Genomic architecture underlying morphological and physiological adaptation to high elevation in a songbird. Molecular Ecology, 32, 2234-2251.
  2. Kuo H.-C., Yao C.-T., Liao B.-Y., Weng M.-P., Dong F., Hsu Y.-C., Hung C.-M.* (2023) Weak gene-gene interaction facilitates the evolution of gene expression plasticity. BMC Biology, 21, 57.
  3. Ku, Y.-C., Chen, Y.-C., Hung, C.-M., & Ng, C.- S.* (2023) The genetic variation of a mitochondrial and two behaviour-related genes in invasive African Sacred Ibis (Threskiornis aethiopicus) populations in Taiwan. IBIS, 165, 647-662.

2022

  1. Guo, J.-C., Tsai, J.-S., Wang, J.-S., Lin, Y.-W., Shaner, P.-J.* & Hung, C.-M.* (2022) The role of a synanthropic bird in the nest niche expansion of a secondary cavity nester to man-made structures. Ecology & Evolution, 12, e9188.
  2. Hung, C.-M. †, Tsao, S.-H. †, Chiang, P.-L., Wu, S.-P., Tuanmu M.-N.* & Juang, J.-Y.* (2022) Functional connections between bird eggshell stiffness and nest characteristics through risk of egg collision in nests. Ecology Letters, 25, 1421-1431. († equal contributors)
  3. Lu, C.-W., Yao, C.-T., & Hung, C.-M.* (2022). Domestication obscures genomic estimates of population history. Molecular Ecology, 31, 752-766.
  4. Fang, Y.-T., Yao, C.-T., Hsu, Y.-C. & Hung, C.-M.* (2022) Elevational plumage divergence in the Rufous-capped Babbler on a mountainous island. IBIS, 164, 151-167.

2021

  1. Wang, J.-S.†, Tuanmu, M.-N.†, Hung, C.-M.* (2021) Effects of artificial light at night on the nest-site selection, reproductive success and behavior of a synanthropic bird. Environmental Pollution, 288, 117805. († equal contributors)
  2. Dong, F., Kuo, H.-C., Chen, G.-L., Wu, F., Shan, P.-F., Wang, J., Chen, D., Lei, F.-M., Hung, C.-M.*, Liu, Y.*, Yang, X.-J.* (2021) Population genomic, climatic and anthropogenic evidence suggest the role of human forces in endangerment of green peafowl (Pavo muticus). Proceedings of the Royal Society B, 288, 20210073.
  3. Dong, F.*, Hung, C.-M., Li, S.H.*, Yang X.-J.* (2021) Potential Himalayan community turnover through the Late Pleistocene. Climatic Change, 164, 6.

2020

  1. Chen, Y.-C., Kuo, H.-C., Lo, W.-S. & Hung, C.-M.* (2020) Avian phenotypic convergence is subject to low genetic constraints based on genomic evidence. BMC Evolutionary Biology, 20, 147.
  2. Chen, C.-Y., Chen, C.-K., Chen, Y.-Y., Fang, A., Shaw G.T.-W., Hung, C.-M.* & Wang, D.* (2020) Maternal gut microbes shape the early-life assembly of gut microbiota in passerine chicks via nests. Microbiome, 8, 129.
  3. Dong, F., Hung, C.-M.* & Yang, X.-J.* (2020) Secondary contact after allopatric divergence explains avian speciation and high species diversity in the Himalayan-Hengduan Mountains. Molecular Phylogenetics and Evolution, 143, 106671.
  4. Nguyen, H. N., Hung, C.-M., Yang, M.-Y. & Lin, S.-M. (2020). Sympatric competitors have driven the evolution of temporal activity patterns in Cnemaspis geckos in Southeast Asia. Scientific Reports, 10:27.

2019

  1. Yang, S.-F., Lu, C.-W., Yao, C.-T. and Hung, C.-M.* (2019) To trim, or not to trim: effects of read-trimming on the de novo genome assembly of a widespread East Asian passerine, the rufous-capped babbler (Cyanoderma ruficeps Blyth). Genes, 10, 737
  2. Huang, C.-C., Chen, Y.-Y., Fang, Y.-T., Chen Y.-C. and Hung, C.-M.* (2019) Generating brain matrices for zebra finch brain sectioning using three-dimensional printing technology. Journal of Neuroscience Methods, 327, 108399
  3. Lai, Y.T., Yeung, C.K., Omland, K.E., Pang, E.L., Hao, Y., Liao, B.Y., Cao, H.F., Zhang B.W. Yeh, C.F., Hung, C.M., Hung H.Y., Yang, M.Y., Liang W., Hsu, Y.C. Yao, C.T., Dong, L., Lin, K. & Li, S.H.* (2019). Standing genetic variation as the predominant source for adaptation of a songbird. Proceedings of the National Academy of Sciences, 116(6), 2152-2157.
  4. Chen, Y.-C., Nazarizadeh, M., Lei, F.-M., Yang, X.-J., Yao, C.-T., Dong, F., Dong, L., Zou, F.-S., Drovetski, S.V., Liu, Y., Huang, C.-C. and Hung, C.-M.* (2019) The niches of nuthatches affect their lineage evolution differently across latitude. Molecular Ecology, 28, 803-817.
  5. Nguyen, H.N., Lu, C.-W., Chu, J.-H., Grismer, L.L., Hung, C.-M.* and Lin, S.-M.* (2019) Historical demography of four gecko species specializing in boulder cave habitat –its implications in the evolutionary dead end hypothesis and conservation. Molecular Ecology, 28, 772-784.
  6. Wang, J.-S. and Hung, C.-M.* (2019) Barn swallow nest predation by a recent urban invader, the Taiwan whistling thrush – implications for the evolution of urban avian communities. Zoological Studies, 58. 1.

2018

  1. Hung, C.-M.*, Zink, R.M. and Li, S.-H. (2018) Can genomic variation explain the extinction of the passenger pigeon? Journal of Avian Biology, e01858.
  2. Fang, Y.-T., Tuanmu, M.-N.* and Hung, C.-M.* (2018) Asynchronous evolution of interdependent nest characters across the avian phylogeny. Nature Communications, 9, 1863.
  3. Mays Jr, H.L.*, Hung, C.-M., Shaner, P.-J.L., Denvir, J., Justice, M., Yang, S.-F., Roth, T.L., Oehler, D.A., Fan, J., Rekulapally, D. and Primerano, D.A. (2018) Genomic analysis of demographic history and ecological niche modeling in the endangered Sumatran Rhinoceros Dicerorhinus sumatrensis. Current Biology 28, 70-76.

2017

  1. Dong, F.†, Hung, C.-M.†, Li, X.-L., Gao, J.-Y., Zhang, Q., Wu, F., Lei, F.-M.*, Li, S.-H.* and Yang, X.-J.* (2017) Ice age unfrozen: severe effect of the last interglacial, not glacial, climate change on East Asian avifauna. BMC Evolutionary Biology, 17:244. († equal contributors)
  2. Hung, C.-M.*, Drovetski, S.V. and Zink, R.M. (2017) The roles of ecology, behavior and effective population size in the evolution of a community, Molecular Ecology, 26: 3775-3784.

2016

  1. Hung, C.-M., Yu, -Y., Lai, Y.-T. and Shaner, P.-J.L.* (2016) Developing informative microsatellite makers for non-model species using reference mapping against a model species’ genome. Scientific Reports, 6, 23087.
  2. Hung, C.-M.*, Drovetski, S.V. and Zink, R.M. (2016) Matching loci surveyed to questions asked in phylogeography. Proceedings of the Royal Society B, 283: 20152340.

2014

  1. Hung, C.-M., Hung, H.-Y., Yeh, C.-F., Fu, Y.-Q., Chen, D., Lei, F.-M., Yao, C.-T., Yao, C.-J., Yang, X.-J., Lai, Y.-T. and Li, S.-H.* (2014) Species delimitation in the Chinese bamboo partridge (Bambusicola thoracicus) species complex. Zoologica Scripta, 43, 562-575.
  2. Hung, C.-M. †, Shaner, P.-J.L. †, Zink, R.M., Liu, W.-C., Chu, T.-C., Huang, W.-S.* and Li, S.-H. * (2014) Drastic population fluctuations explain the rapid extinction of the passenger pigeon. Natl. Acad. Sci. U.S.A., 111, 10636-10641. († equal contributors)
  3. Hung, C.-M*. and Zink, R.M. (2014) Distinguishing the effects of selection from demographic history in the genetic variation of two sister passerines based on mitochondrial-nuclear comparison. Heredity, 113, 42-51.

2013

  1. Hung, C.-M.*, Drovetski, S.V. and Zink, R.M. (2013) Multilocus test of the absence of mtDNA phylogeographic structure in a widespread wader, the common sandpiper (Actitis hypoleucos). Journal of Ornithology, 154, 1105-1113.
  2. Hung, C.-M., Lin, R.-C., Chu, J.-H., Yeh, C.-F. and Li, S.-H.* (2013) The de novo assembly of mitochondrial genomes of the extinct passenger pigeon (Ectopistes migratorius) with shotgun sequencing. PloS One, e56301.
  3. Hung, C.-M.*, Drovetski, S.V. and Zink, R.M. (2013) Recent allopatric divergence and niche evolution in a widespread Palearctic bird, common rosefinch (Carpodacus erythrinus). Molecular Phylogenetics and Evolution, 66, 103-111.

2012

  1. Hung, C.-M.*, Drovetski, S.V. and Zink, R.M. (2012) Multilocus coalescence analyses support a mtDNA-based phylogeographic history for a widespread Palearctic passerine bird, Sitta europaea. Evolution, 9, 2850-2864.

2004-2011

  1. Hung, C.-M., Li, S.-H. and Lee, L.-L.* (2004) Fecal DNA typing to determine the abundance and spatial organization of otters (Lutra lutra) along two stream systems in Kinmen. Animal Conservation, 7, 301-311.