Researcher biography


2020    Kučka, M., Dréau, A., Chan, Y.F., Haplotagging — Single tube combinatorial barcoding of nucleic acid molecules. European Patent Office, PCT/EP2020/053948, filed 13.Feb.2020. Pending.


2020    Montejo-Kovacevich, G., P. A. Salazar, S. H. Smith, K. Gavilanes, C. N. Bacquet, Y. F. Chan, C. D., Jiggins, J. I. Meier, N. J. Nadeau, Genomics of altitude-associated wing shape in two tropical butterflies. In revision at Molecular Ecology, also bioRxiv, doi: 10.1101/2020.12.05.412882

2020    Davies, R.W, M. Kučka, D. Su, S. Shi, M. Flanagan, C. M. Cunniff, C.M., Y. F. Chan*, S. Myers *, Rapid genotype imputation from sequence with reference panels. (* co-last authors). In revision at Nature Genetics

2020    Meier, J.I.*, P. A. Salazar*, M. Kučka*, R. W. Davies, A. Dréau, I. Aldás, O. Box-Power, N. J. Nadeau, J. R. Bridle, C. P. Rolian, N. H. Barton, W. O. McMillan, C. D. Jiggins, Y. F. Chan Haplotype tagging reveals parallel formation of hybrid races in two butterfly species. (* co-first authors; † co-last authors). In revision at PNAS, also bioRxiv, doi: 10.1101/2020.05.25.113688.

2020    Wilches, R., W. H. Beluch, E. McConnell, D. Tautz, Y. F. Chan. Independent evolution towards large body size in the distinctive Faroe Island mice. G3: Genes, Genomes, Genetics, doi: 10.1093/g3journal/jkaa051

2020    Hillis, D., L. Yadgary, G. M. Weinstock, F. P.-M. de Villena, D. Pomp, Y. F. Chan, S. Xu, A. Fowler, T. Garland Jr. Genetic basis of aerobically supported voluntary exercise: results from a selection experiment with house mice. Genetics, doi: 10.1534/genetics.120.303668

2020    Martin Cerezo, M.L., M. Kučka, K. Zub., Y. F. Chan, J. Bryk, Population structure of Apodemus flavicollis and comparison to Apodemus sylvaticus in Poland using ddRAD-seq. BMC Genomics 21, 241.

2020    Byers, K.J.R.P., K. Darragh, J. Musgrove, D. Abondano Almeida, S. F. Garza, M. Kučka, Y. F. Chan, P. Rastas, R. M. Merrill, S. Schulz, W. O. McMillan, C. D. Jiggins. A major genetic locus controls a biologically active pheromone component in Heliconius melpomene. Evolution 74-2: 349–364, doi: 10.1111/evo.13922

2019    Lustyk, D., S. Kinský, K. Ullrich, M. N. Yancoskie, L. Kašíková, V. Gergelits, R. Sedláček, Y. F. Chan, L. Odenthal-Hesse, J. Forejt, P. Jansa. Fine mapping and positional cloning of the Hstx1/2 locus modulating the Prdm9-dependent hybrid male sterility in mice. Genetics. doi: 10.1534/genetics.119.302554.

2019    Zhou, S., X. Fu, P. Pei, M. Kučka, J. Liu, L. Tang, T. Zhan, S. He, Z. Lu, Y. F. Chan, C. Rödelsperger, D. Liu, A. Streit. Identification of a non-sexual population of Strongyloides stercoralis with hybrid 18S rDNA haplotypes in Guangxi, Southern China. PLoS Neglected Tropical Disease. 13(5): e0007396.

2019    Castro, J.P.L.*, M. N. Yancoskie*, M. Marchini, S. Belohlavy, L. Hiramatsu, M. Kučka, , W. H. Beluch, R. Naumann, I. Skuplik, J. Cobb, N. H. Barton, C. Rolian, Y. F. Chan. An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. eLife, (8):e42014. (* co-first authors; † co-last authors)

2018    Thompson, A.C., T. D. Capellini, C. A. Guenther, Y. F. Chan, C. R. Infante, D. B> Menke, D. M. Kingsley. A novel enhancer near the Pitx1 gene influences development and evolution of pelvic appendages in vertebrates. eLife, (7):e38555.

2018    Lazzarano, S., M. Kučka, J. P. L. Castro, R. Naumann, P. Medina, M. N-C. Fletcher, R. Wombacher, J. Gribnau, T. Hochepied, M. Van Montagu, C. Libert, Y. F. Chan. Genetic mapping of species differences via “in vitro crosses” in mouse embryonic stem cells. PNAS 115 (14) 3680-3685; doi: 10.1073/pnas.1717474115.

2017    Ullate-Agote A., Y. F. Chan, A. C. Tzika. A step-by-step guide to assemble a reptilian genome. Chapter in Methods in Molecular Biology - Avian and Reptilian Developmental Biology. Guojun Sheng (ed.). Springer, New York.

2017    Bay, R.A., M. E. Arnegard, G. L. Conte, J. Best, N. L. Bedford, S. R. McCann, M. E. Dubin, Y. F. Chan, F. C. Jones, D. M. Kingsley, D. Schluter, C. L. Peichel, Genetic coupling of female mate choice with polygenic ecological divergence facilitates stickleback speciation. Current Biology, 27(21):3344-3349.

2015    Conte, G.L., M. E. Arnegard, J. Best, Y. F. Chan, F. C. Jones, D. M. Kingsley, D. Schluter, C. L. Peichel. Extent of parallel genetic evolution underlying parallel phenotypic evolution in threespine stickleback species pairs. Genetics. 201: 1189-1200.

2014    Arnegard, M.E., M. D. McGee, B. W. Matthews, K. B. Marchinko, G. L. Conte, S. Kabir, N. Bedford, S. Bergek, F. C. Jones, Y. F. Chan, Kingsley, D.M., Peichel, C.L., Schluter, D. Genetics of ecological divergence during speciation. Nature (Article) 511: 307-311.

2012   Wark, A.R., M. G. Mills, L-H. Dang, Y. F. Chan, F. C. Jones, S. D. Brady, D. M. Absher, J. Grimwood, J. Schmutz, R. M. Myers, D. M. Kingsley, C. L. Peichel. Genetic architecture of variation in the lateral line sensory system of threespine sticklebacks. G3: Genes, Genomes, Genetics. 2 (9): 1047-1056.

2012   Jones, F.C.*, M. G. Grabherr*, Y. F. Chan*, P. Russell*, E. Mauceli, J. Johnson, M. Pirun, M. C. Zody, S. White, E. Birney, S. Searle, J. Schmutz, J. Grimwood, M. C. Dickson, R. M. Myers, C. T. Miller, B. R. Summers, A. K. Knecht, S. D. Brady, H. Zhang, A. A. Pollen, T. Howes, C. Amemiya, Broad Institute Genome Sequencing Platform and Whole Genome Assembly Team, E. S. Lander, F. Di Palma, K. Lindblad-Toh, D. M. Kingsley. The genomic basis of adaptive evolution in threespine sticklebacks. Nature (Article). 484 (7392): 55-61. (* co-first authorship)

2012   Chan, Y.F., F. C. Jones, E. McConnell, J. Bryk, L. Bünger, D. Tautz. 2012. Parallel selection mapping using artificially selected mice reveals bodyweight control loci. Current Biology. 22 (9): 794-800.

2011   Jones, F.C., Y. F. Chan, J. Schmutz, J. Grimwood, S. D. Brady, A. M. Southwick, D. M. Absher, R. M. Myers, T. E. Reimchen, B. E. Deagle, D. Schluter, D. M. Kingsley. A genome-wide genotyping array reveals patterns of global and repeated species pair divergence in sticklebacks. Current Biology. 22 (1): 83-90.

2011   Deagle, B., F. C. Jones, Y. F. Chan, D. M. Absher, D. M. Kingsley, T. E. Reimchen. Population genomics of parallel phenotypic evolution in stream–lake stickleback. Proceedings of the Royal Society B. 279 (1732): 1277-1286.

2011   Greenwood, A.K., F. C. Jones, Y. F. Chan, S. D. Brady, D. M. Absher, J. Grimwood, J. Schmutz, R. M. Myers, D. M. Kingsley, C. L. Peichel. The genetic basis of cryptic pigment patterns in juvenile threespine sticklebacks. Heredity. 107: 155-166.

2010   Chan, Y.F., M. E. Marks, F. C. Jones, G. Villarreal Jr., M. D. Shapiro, S. D. Brady, , A. M. Southwick, D. M. Absher, J. Grimwood, J. Schmutz, R. M. Myers, D. Petrov, B. Jónsson, D. Schluter, M. A. Bell, D. M. Kingsley. Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer. Science (Article) 327 (5963): 302-305.

2009   Kitano, J., J. A. Ross, S. Mori, M. Kume, F. C. Jones, Y. F. Chan, D. M. Absher, J. Grimwood, J. Schmutz, R. M. Myers, D. M. Kingsley, C. L. Peichel. A role for neo-sex chromosomes in stickleback speciation. Nature (Article) 461 (7267): 1079-1083.

Commentary or Book reviews

2015    Chan, Y.F. Evolution: two (very long) legs to stand on. (News and Commentary). Current Biology 2015 Nov 2;25(21):R1037-40.

2012   Chan, Y.F. A personal primer for modern biology. (Book review). Trends in Ecology and Evolution. DOI: 10.1016/j.tree.2012.07.012.

2012   Chan, Y.F. Parallel evolution: hearing echoes. (News & Commentary) Heredity 108: 471-47

Featured projects Duration
Genome-Phaser: protocol for fully phasing whole genome variants using haplotagging
Genome Innovation Hub Collaborative Project (UQ infrastructure)