Publications


2018

Nicolas StraubeEmail authorView ORCID ID profile, Chenhong Li, Matthias Mertzen, Hao Yuan and Timo Moritz, 2018. A phylogenomic approach to reconstruct interrelationships of main clupeocephalan lineages with a critical discussion of morphological apomorphies.

Kuang T, L Tornabene, J Li, J Jiang, P Chakrabartye, J S Spark, G J.P. Naylor, C Li, 2018. Phylogenomic analysis on the exceptionally diverse fish clade Gobioidei (Actinopterygii: Gobiiformes) and data-filtering based on molecular clocklikeness. Molecular Phylogenetics and Evolution, in press.

Liu S, Wang C, Li C, 2018. Progress in Aquaculture Genetics and Breeding in China. Journal of World Aquaculture Society, 49 (2): 272-276.

Xia J, Wu H, Li C, Wu Y, Liu S, 2018. A new species of Rhinogobius (Pisces: Gobiidae), with analyses of its DNA barcode. Zootaxa 4407 (4): 553-562.

L C. Hughes, G Ortí, Y Huang, Y Sun, C C. Baldwin, A W. Thompson, D Arcila, R Betancur-R, C Li, L Becker, N Bellora, X Zhao, X Li, M W, C Fang, B Xie, Z Zhou, H Huang, S Chen, B Venkatesh, and Q Shi, 2018. Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data. Proceedings of the National Academy of Sciences of the United States of America, 115(24): 6249-6254. doi:10.1073/pnas.1719358115

H Li, Y. He, J. Jiang, Z. Liu, C. Li, 2018. Molecular systematics and phylogenetic analysis of the Asian endemic freshwater sleepers (Gobiiformes: Odontobutidae). Mol. Phylogenet. Evol., 121, 1–11.
2017

Liu J, Jiang J, Song S, Tornabene, L., Chabarria, R., Naylor, G. J. P., Li, C., 2017. Multilocus DNA barcoding - Species Identification with Multilocus Data. Sci. Rep. 7, 16601.

Song, S., Zhao, J., Li, C., 2017. Species delimitation and phylogenetic reconstruction of the sinipercids (Perciformes: Sinipercidae) based on target enrichment of thousands of nuclear coding sequences. Mol. Phylogenet. Evol. 111, 44-55.

Corrigan, S., Maisano Delser, P., Eddy, C., Duffy, C., Yang, L., Li, C., Bazinet, A.L., Mona, S., Naylor, G.J., 2017. Historical introgression drives pervasive mitochondrial admixture between two species of pelagic sharks. Mol. Phylogenet. Evol. 110, 122-126.
2016

Wang, Q., Zhang, J., Matsumoto, H., Kim, J., Li, C. 2016. Population structure of elongate ilisha Ilisha elongata along the Northwestern Pacific Coast revealed by mitochondrial control region sequences. Fish Sci, 82 (5): 771 - 785.

PM Delser, Corrigan S., Hale M., Li C., Veuille M., Planes S., Naylor G., Mona S. 2016. Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives. Sci Rep. (6): 33753. doi: 10.1038/srep33753.

Yuan H, Jiang J, Jimenez FA, Hoberg EP,Cook JA, Galbreath KE, Li C. 2016. Target gene enrichment in the cyclophyllidean cestodes, the most diverse group of tapeworms. Mol Ecol Resour, 16(5):1095-1106. doi: 10.1111/1755-0998.12532.
2015

Chenhong Li, Shannon Corrigan , Lei Yang , Nicolas Straube , Mark Harris , Michael Hofreiter , William T. White , Gavin Naylor, 2015. DNA Capture Reveals Trans Oceanic Gene Flow in Endangered River Sharks. Proceedings of the National Academy of Sciences of the United States of Americawww.pnas.org/cgi/doi/10.1073/pnas.1508735112.

Nicolas Straube, Chenhong Li, Julien M. Claes, Shannon Corrigan and Gavin J. P. Naylor, 2015. Molecular phylogeny of Squaliformes and first occurrence of bioluminescence in sharks. BMC: Evolutionary Biology, 15:162. DOI 10.1186/s12862-015-0446-6.
2014

Nicolas Straube, William T. White, Hsuan-Ching Ho, Elisabeth Rochel, Shannon Corrigan, Chenhong Li, Gavin J.P. Naylor, 2014. A DNA sequence-based identification checklist for Taiwanese chondrichthyans. Zootaxa, 12/2013; 3752(1): 256-278.

H Ma, C Ma, C Li, J Lu, X Zou, Y Gong, W Wang, W Chen, L Ma, L Xia. 2015. First mitochondrial genome for the red crab (Charybdis feriata) with implication of phylogenomics and population genetics. Scientific Reports, (5), 11524.

Nicolas Straube, Robin W. Leslie, Paul J. Clerkin, David A. Ebert, Elisabeth Rochel, Shannon Corrigan, Chenhong Li, Gavin J.P. Naylor, 2014. On the occurrence of the southern Lanternshark, Etmopterus granulosus, off south Africa, with comments on the validity of E. compagnoi. Deep Sea Research Part II Topical Studies in Oceanography. DOI: 10.1016/j.dsr2.2014.04.004
2013

X. Yao, C. Li, C. W. Dick, 2013. Exon-primed intron-crossing (EPIC) markers for evolutionary studies of Ficus and other taxa in the fig family (Moraceae).Applications in Plant Sciences 1 ( 10 ): 1300037.

P. R. Ströher, C. Li and M. R. Pie, 2013. Exon-primed intron-crossing (EPIC) makers as a tool for ant Phylogeography, Revista Brasileira de Entomologia, AHEAD.

Li, C., M., Hofreiter, N., Straube, S., Corrigan, G. J. P. Naylor, 2013. Capturing protein-coding genes across highly divergent species. BioTechniques 54:321-326.

Betancur-R. R, Broughton RE, Wiley EO, Carpenter K, López JA, Li C, Holcroft NI, Arcila D, Sanciangco M, Cureton II JC, Zhang F, Buser T, Campbell MA, Ballesteros JA, Roa-Varon A, Willis S, Borden WC, Rowley T, Reneau PC, Hough DJ, Lu G, Grande T, Arratia G, Ortí G., 2013. The Tree of Life and a New Classification of Bony Fishes. PLOS Currents Tree of Life. 2013 Apr 18.

Broughton RE, Betancur-R. R, Li C, Arratia G, Ortí G. Multi-locus phylogenetic analysis reveals the pattern and tempo of bony fish evolution. PLOS Currents Tree of Life. 2013 Apr 16.

Betancur-R., R., C. Li, T. A Munroe, J. A. Ballesteros, G. Ortí. 2013. Addressing gene tree discordance and non-stationarity to resolve a multi-locus phylogeny of the flatfishes (Teleostei: Pleuronectiformes). Systematic Biology 62 (5): 763-785.
2012

Li, C., Riethoven, J.-J. M., Naylor, G. 2012. EvolMarkers: a database for mining exon and intron markers for evolution, ecology and conservation studies. Molecular Ecology Resources, 12(5):967-71.

Li, C., Matthes, K., Garcia, M., Naylor, G. J. P. 2012. Nuclear markers for phylogenetics of chondrichthyes and the problem in rooting phylogeny with distant outgroup. Molecular Phylogenetics and Evolution, 63:365-373.
2011

Sommer, J. A., Li, C., Brozek, J., Bessert, M. L., Ortí, G., Berra, T. M., 2011. Low genetic diversity in Nurseryfish, Kurtus gulliveri (Perciformes: Kurtidae), and an appraisal of its breeding system using microsatellite loci. The Beagle, Records of the Museums and Art Galleries of the Northern Territory, 2011 27: 179-188.

Li, C., Betancur-R, R., Smith, Wm. L., Ortí, G. 2011. Monophyly and interrelationships of Snook and Barramundi (Centropomidae sensu Greenwood) and five new markers for fish phylogenetics. Molecular Phylogenetics and Evolution, 60: 463-471.
2010

Li, C., Ortí, G., Zhao, J., 2010. The phylogenetic placement of sinipercid fishes (“Perciformes”) revealed by 11 nuclear loci. Molecular Phylogenetics and Evolution, 56: 1096-1104.

Li, C., Riethoven, J.-J. M., Ma, L., 2010. Exon-primed intron-crossing (EPIC) markers for non-model teleost fishes. BMC: Evolutionary Biology, 10: 90.
2009

Li, C., Bessert, M. L., Macrander, J., Ortí, G., 2009. Low variation but strong population structure in mitochondrial control region of the plains topminnow, Fundulus sciadicus. Journal of Fish Biology, 74: 1037-1048.
2008

Li, C., Lu, G., Ortí, G., 2008. Optimal data partitioning and a test case for ray-finned fishes (Actinopterygii) based on ten nuclear loci. Systematic Biology, 57(4): 519-539.

Wang, C., Li, C., Li, S., 2008. Mitochondrial DNA-inferred population structure and demographic history of the mitten crab (Eriocheir, sensu stricto) along the coast of mainland China inferred from mitochondrial loci. Molecular Ecology, 17: 3515-3527.

Zhao, J., Li, C., Zhao, L., Wang, W., Cao, Y., 2008. Mitochondrial diversity and phylogeography of the Chinese perch, Siniperca chuatsi (Perciformes: Sinipercidae). Molecular Phylogenetics and Evolution, 49(1): 399-404.
2007

Li, C., Ortí, G., Zhang, G., Lu, G., 2007. A practical approach to phylogenomics: the phylogeny of ray-finned fish (Actinopterygii) as a case study. BMC: Evolutionary Biology, 7: 44.

Li, C., Ortí, G., 2007. Molecular phylogeny of Clupeiformes (Actinopterygii) inferred from nuclear and mitochondrial DNA sequences, Molecular Phylogenetics and Evolution 44: 386-398.

Li, C., Bessert, M. L., Macrander, J., Ortí, G., 2007. Microsatellite loci for the plains topminnow (Fundulus sciadicus, Fundulidae). Molecular Ecology Notes 7: 691-693.
2003

 Li, C., Li, S., 2003. Genetically improved farmed nile tilapia and its new selected generation in China. In: Proceedings of the Third World Fisheries Congress: Feeding the World with Fish in the Next Millennium--The Balance between Production and Environment. American Fisheries Society Symposium 38.
2002

Li, S., Li, C., Dey, M., Gagalacb, F., Dunham, R., 2002. Cold tolerance of three strains of Nile tilapia, Oreochromis niloticus, in China. Aquaculture 213: 123-129.
2001

Li, C., Li, S., Xing, Y., Hu, B., Zhao, S., Wu, Z., 2001. Evaluation of culture performances of two crab Eriocheir sinensis populations in China. World Aquaculture Magazine, 32(3): 15-16, 68-69.
1999

Li, S., Li, C., Dey, M., Dunham, R., 1999. Seinability of four strains of Nile tilapia, Oreochromis niloticus, in Chinese ponds. Aquaculture, 174: 223-227.