Avise, J. C. (1986). Mitochondrial DNA and the evolutionary genetics of higher animals. Phil.Trans. Roy. Soc. London. B. 312: 325-342.
Avise, J. C. (2000). Phylogeography: the History and Formation of Species. Harvard University Press, Cambridge, MA.
Avise, J. C., Arnold, J., Ball, R. M., Bermingham, E., Lamb, T., Neigl, J. E., Reeb, C. A. and Saunders, N. C.(1987). The mitochondrial DNA bridge between populations genetics and systematics. Annual Review of Ecology and Systematics 3, 457-498.
Bânârescu, P. and Nalbant, T. T. (1966). Revision of the Genus Microhysogobio (Pisces,Cyprinidae). ACTA Soc. Zool. Boh. Sva. 3: 194-209.
Bânârescu, P. and Nalbant, T. T. (1968). Some new Chinese minnows (Pisces, Cypriniformes).Proc. Biol. Soc. Wash. 81: 335-346.
Bânârescu, P. and Nalbant, T. T. (1973). Pisces,Teleostei. Cyprinidae (Gobioninae). Das Tierreich. 93: 244-282.
Blin, N. and Stafford, D. W. (1976). A general method for isolation of high molecular weight DNA from eukaryotes. Nucleic Acids Research 3, 2303-2308.
Briolay, J., Galtier, N., Brito, M. R., and Bouvet, Y. (1998). Molecular phylogeny of Cyprinidae inferred from cytochrome b DNA Sequence. Mol. Phylogenet. Evol. 9:
100-108.
Chang, Y. S., Huang, F. L., and Lo, T. B. (1994). The complete nucleotide sequence of carp (Cyprinus carpio) mitochondrial genome. J. Mol. Evol. 38: 138-155.
Chen, X. L., Chiang, T. Y., Lin, H. D., Zheng, H. S., Shao, K. T., Zhang, Q. and Hsu, K. C.(2007). Mitochondrial DNA phylogeography of Glyptothorax fokiensis and
Glyptothorax hainanensis in Asia. Journal of Fish Biology 70 (sa), 75–93.
Cheng, H. L., Huang, S. and Lee, S. C. (2005b). Phylogeography of the endemic goby, Rhinogobius maculafasciatus (Pisces: Gobiidae), in Taiwan. Zoological Studies 44(3),329-336.
Culling, M. A., Janko, K., Boron, A., Vasil''ev, V. P., Côté, I. M. and Hewitt, G. M. European colonization by the spined loach (Cobitis taenia) from Ponto- Caspian refugia based on mitochondrial DNA variation. Molecular Ecology 15(1), 173-190.
Drummond, A.J., Rambaut, A., Shapiro, B. and Pybus, O.G.(2005). Bayesian Coalescent Inference of Past Population Dynamics from Molecular Sequences. Molecular Biology
and Evolution 22:1185-1192
Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum parsimony likelihood approach. J. Mol. Evol. 17: 368-376.
Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
Felsenstein, J. (1988). Phylogenies from molecular sequences: inference and reliability. Annu.Rev. Genet. 22: 521-565.
Fitch, W. M. (1977). On the problem of discovering the most parsimonious tree. Am. Mat. 111:223-257.
Fitch, W. M., and Margoliash, E. (1967). Construction of phylogenetic trees. A method based on mutation distances as estimated from cytochrome c sequences is of general
applicability. Science 155: 279-284.
Forey, P. L., Littlewood, D. T. J., Ritchie, P. and Meyer, A. (1996). Interrelationships of elopomorph fishes. In “Interrelationships of Fishes” (M. L. J. Stiassny, L. R. Parenti, and G. D. Johnson, Eds), pp. 175-191. Academic Press, San Diego.
Gifford, M. E., Powell, R., Larson, A. and Gutberlet, R. L. Jr.(2004). Population structure and history of a phenotypically variable teiid lizard (Ameiva chrysolaema) from Hispaniola:the influence of a geologically complex island. Molecular Phylogenetics and Evolution 32, 735-748.
Günther, A. (1868). Cat. Fish. Br. Mus.7: 174.
Hatefi, Y. (1985). The mitochondrial electron transport and oxidative phosphorylation system.Annual Review of Biochemistry 54, 1015- 1069.
Hewitt, G. M. (2004). The structure of biodiversity – insights from molecular phylogeography.Frontiers in Zoology 1, 4. 10.1186/1742–10.1186/9994–1−4
Hills, D. M., Moritz, C. and Mable, B. K. (1996).Molecular Systematics. Second edition.Sinauer Associates,Sunderland, MA.
Hudson, R. R. (1990). Gene genealogies and the coalescent process. In D. J. Futuyama and J.Antonovics (eds.), Oxford Surv. Oxford University Press, New York. Evolution Biology
7, 1-44.
Innis, M. A., Gelfand, D. H., Sninsky, J. J. and White, T. J. (1989). PCR Protocols: A Guide to Methods and Applications. Academic press Inc.
Jukes, T. H. and Cantor, C. R. (1969). Evolution of protein molecules. In H. N. Munro, ed.Mammalians protein metabolism. New York: Academic Press. 21-132.
Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16: 111-120.
Kumar, S., Tamura, K., Jakobsen, I. B.and Nei, M. (2001). MEGA2: Molecular evolutionary genetics analysis software, Bioinformatics (submitted).
Kocher, T. D., Conroy, J. A., Mckaye, K. R., Stauffer, J. R. and Lockwood, S. F. (1993).Similar morphologies of Cichlid fish in lakes Tanganyika and Malawi are due to
convergence. Mol. Phylo. 2: 158-165.
Lee, W. J., Conroy, J., Howell, W. H. and Kocher, T. D. (1995). Structure and evolution of Teleost mitochondrial control regions. J. Mol. Evol. 41: 54-66.
Lin, Y. S., Poh, Y. P. and Tzeng, C. S. (2001). A phylogeny of freshwater eels inferred from mitochondrial genes. Mol. Phylogenet. Evol. In press.
Margoliash, E. (1963). Primary structure and evolution of cytochrome c. Proc. Natl. Acad. Sci.USA 50: 672-679.
Ma, G. C., Watanabe, K., Tsao, H. S. and Yu, H. T.(2006b). Mitochondrial phylogeny reveals the artificial introduction of the pale chub Zacco platypus (Cyprinidae) in Taiwan.Ichthyological Research 53, 323–329.
Meffe, G. K. and Vrijenhoek, R. C. (1988). Conservation Genetics in the Management of Desert Fishes. Conservation Biology 2(2), 157-169.
Nichols, J. T. (1926). Some Chinese fresh-water fishes. Am. mus. novit. 224: 5.
Oshima, M. (1919). Contribution to the study of the fresh water fishes of the Island of Formosa. Ann. Carneg. Mus. 12: 221.
Perdices, A., Cunha, C. and Coelho, M. M. (2004). Phylogenetic structure of Zacco platypus (Teleostei, Cyprinidae) populations on the upper and middle Chang Jiang (= Yangtze) drainage inferred from cytochrome b sequences. Molecular Phylogenetics and Evolution 31, 192-203.
Rogers, A. R. and Harpending, H. C. (1992). Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution 9,552-569.
Rogers, A. R. (1995). Genetic evidence for a Pleistocene population explosion. Evolution 49, 608-615.
Saitou, N. and Nei, M. (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
Sanger, F., Nicklen, S. and Coulson, A. R. (1977). DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74: 5463-5467.
Sarich, V. M. and Wilson, A. C. (1967). Immunological time scale for hominid evolution.Science 158: 1200-1203.
Tamura, K. (1992). The rate and pattern of nucleotide substitution in Drosophila mitochondrial DNA . Mol. Biol. Evol. 9: 814-825.
Tamura, K. and Nei, M. (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.
Tzeng, C. S. (1986). Distribution of the freshwater fishes of Taiwan. J. Taiwan Mus. 39:127-146.
Tzeng, C. S., Hui, C. F., Shen, S. C. and Huang, P. C. (1992). The complete nucleotide sequence of the Crossostoma lacustre mitochondrial genome: Conservation and
variations among vertebrates. Nucleic Acids Res. 20: 4853-4858.
Wang, J.P., Lin, H.D., Huang, S., Pan, C.H., Chen, X.L. and Chiang, T.Y. (2004).Phylogeography of Varicorhinus barbatulus (Cyprinidae) in Taiwan based on nucleotide
variation of mtDNA and allozymes. Molecular Phylogenetics and Evolution 31,1143-1156.
Wang, H.Y., Tsai, M. P., Yu, M. J. and Lee, S. C. (1999). Influence of glaciation on divergence patterns of the endemic minnow, Zacco pachycaphalus, in Taiwan. Molecular
Ecology 8, 1879-1888.
Wang, J. P., Hsu, K. C. and Chiang, T.Y. (2000). Mitochondrial DNA phylogeography of Acrossocheilus paradoxus (Cyprinidae) in Taiwan. Moleular Ecology 9, 1483-1494.
Wang, T. Y., Liao, T. Y. and Tzeng, C. S. (2007). Phylogeography of the Taiwanese endemic hillstream loaches, Hemimyzon formosanus and H. taitungensis (Cypriniformes:Balitoridae). Zoological Studies 46(5), 547-560.
Ward, R. D., Woodwark, M. and Skibinski, D. O. F. (1994). A comparison of genetic diversity levels in marine, freshwater, and anadromous fishes. Journal of Fish Biology 44,213–232.
Watanabe, K., Jang-Liaw, N. H., Zhang, C. G., Jeon, S.R. and Nishid, M.(2007). Comparative phylogeography of bagrid catfishes in Taiwan. Ichthyological Research 54, 253–261.
Wright, S. (1965). The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 19, 395-420.
Wright, S. (1951). The genetical structure of population structure. Annals of Eugenics 15,323-354.
Zardoya, R. and Meyer, A. (1996). Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates. Molecular Biology and Evolution 13(7), 933-942.
王子元,1997,台灣與鄰近地區腹吸鰍族魚類之親緣關係研究。國立清華大學生命科學系,碩士論文。沈世傑和曾晴賢,1993,鯉目Cypriniformes(在沈世傑主編),台灣魚類誌。國立台灣大學動物學系,132-147。
沈世傑,1993,魚類主要測定法(在沈世傑主編),台灣魚類誌。國立台灣大學動物學系,9。
肖武漢、吳春花、宿兵、張亞平和崔桂華,1997,福爾馬林固定雲南鯝的DNA提取及其細胞色素b基因序列分析。動物學研究,18(3):242、252、258、284。
林思民,1995,青魚將 魚粒線體去氧核糖核酸控制區(D-loop)之研究。國立清華大學生命科學系,碩士論文。林朝棨,1957,台灣地形。台灣省文獻委員會,61-67、269-270。
林朝棨,1963,台灣之第四紀。台灣文獻,14:1-92。
林朝棨,1966,從地質學論台灣與大陸。台灣史蹟研究會。
周廷儒,1984,第四紀古地理(在竺可楨主編),中國自然地理-古地理(上冊)。科學出版社,64-92。
周明鎮、張彌曼、陳宜瑜和朱敏,1996,隔離分化生物地理學譯文集。中國大百科全書出版社,11-27。
俞利榮、樂佩琦,1996a,東亞擬鮈族魚類的起源和演化。動物分類學報,20(1):1-7。
俞利榮、樂佩琦,1996b,擬鮈族魚類的系統發育研究。動物分類學報,21(2):244-254。
馬克平和中國科學院生物多樣性委員會,1997,分子鐘,生物多樣性譯叢(三)。科學出版社,48-59。
曾晴賢,1981,台灣產平鰭鰍科魚類之研究。文化大學海洋所,碩士論文。曾晴賢,1992,台灣纓口鰍之粒線體基因組和台灣產平鰭鰍科魚類之分子演化的研究。國立台灣大學動物學研究所,博士論文。
張亞平,1996,從DNA序列到物種樹。動物學研究,17(3):247-252。
陳宜瑜、曹文宣和鄭慈英,1986,珠江的魚類區系及其動物地理區劃的討論。水生生物學報,10(3):228-236。
陳聖宗,2001,台灣與鄰近地區小鰾鮈分子親緣關係之研究。國立清華大學生命科學系,碩士論文。詹見平,1992,台中縣大甲溪魚類誌。台中縣立文化中心出版組。
樂佩琦,1998,鮈亞科Gobioninae(在陳宜瑜主編),中國動物誌硬骨魚綱鯉形目(中卷)。科學出版社,232-389。
廖德裕,2000,台灣產埔里華吸鰍族群間分子親緣關係之研究。國立清華大學生命科學系,碩士論文。羅云林、樂佩琦和陳宜瑜,1977,鮈亞科Gobioninae(在伍獻文主編)中國鯉科魚類誌(下)。上海科學技術出版社,516-537。