Molecular Phylogeny

Nakatani M, Miya M, Mabuchi K, Saitoh K, Nishida M. 2011. Evolutionary history of Otophysi (Teleostei), a major clade of the modern freshwater fishes: Pangaean origin and Mesozoic radiation. BMC Evol Biol 11:177.

Tang KL, Agnew MK, Chen W-J, Hirt MV, Raley ME, Sado T, Schneider LM, Yang L, Bart HL, He SP, Liu H, Miya M, Saitoh K, Simons AM, Wood RM, Mayden RL. 2011. Phylogeny of the gudgeons (Teleostei: Cyprinidae: Gobioninae). Mol Phylogenet Evol 61:103-124.

Saitoh K, Sado T, Doosey MH, Bart HLJr, Inoue JG, Nishida M, Mayden RL, Miya M. 2011. Evidence from mitochondrial genomics supports the lower Mesozoic of South Asia as the time and place of basal divergence of cypriniform fishes (Actinopterygii: Ostariophysi). Zool J Linn Soc 161:633-662.

Tang KL, Agnew MK, Chen W-J, Hirt MV, Sado T, Schneider LM, Freyhof J, Sulaiman Z, Swartz E, Vidthayanon C, Miya M, Saitoh K, Simons AM, Wood RM, Mayden RL. 2010. Systematics of the subfamily Danioninae (Teleostei: Cypriniformes: Cyprinidae). Mol Phylogenet Evol 57:189-214.

Saitoh K, Chen W-J, Mayden RL. 2010. Extensive hybridization and tetrapolyploidy in spined loach fish. Mol Phylogenet Evol 56:1001-1010.

Doosey MH, Bart HLJr, Saitoh K, Miya M. 2010. Phylogenetic relationships of catostomid fishes (Actinopterygii: Cypriniformes) based on mitochondrial ND4/ND5 gene sequences. Mol Phylogenet Evol 54:1028-1034.

Mayden RL, Chen W-J, Bart HL, Doosey MH, Simons AM, Tang KL, Wood RM, Agnew MK, Yang L, Hirt MV, Clements MD, Saitoh K, Sado T, Miya M, Nishida M. 2009. Reconstructing the phylogenetic relationships of the earth's most diverse clade of freshwater fishes - order Cypriniformes (Actinopterygii: Ostariophysi): A case study using multiple nuclear loci and the mitochondrial genome. Mol Phylogenet Evol 51:500-514.

Chen W-J, Miya M, Saitoh K, Mayden RL. 2008. Phylogenetic utility of two existing and four novel nuclear loci in reconstructing tree of life of ray-finned fishes: the order Cypriniformes (Ostariophysi) as a case study. Gene 423:125-134.

Mayden RL, Tang KL, Wood RM, Chen W-J, Agnew M, Conway KW, Yang L, Simons AM, Bart HL, Harris PM, Li J, Wang Z, Saitoh K, He S, Liu H, Chen Y, Nishida M, Miya M. 2008. Inferring the tree of life of the order Cypriniformes, the earth's most diverse clade of freshwater fishes: Implications of varied taxon and character sampling. J Syst Evol 46:424-438.

Mayden RL, Tang KL, Conway KW, Freyhof J, Chamberlain J, Haskins M, Schneider L, Sudkamp M, Wood RM, Agnew M, Bufalino A, Sulaiman Z, Miya M, Saitoh K, He S. 2007. Phylogenetic relationships of Danio within the order Cypriniformes: A framework for comparative and evolutionary studies of a model species. J Exp Zool 308B:642-654.

Lavoue S, Miya M, Saitoh K, Ishiguro NB, Nishida M. 2007. Phylogenetic relationships among anchovies, sardines, herrings and their relatives (Clupeiformes), inferred from whole mitogenome sequences. Mol Phylogenet Evol 43:1096-1105.

Saitoh K, Sado T, Mayden RL, Hanzawa N, Nakamura K, Nishida M, Miya M. 2006. Mitogenomic evolution and interrelationships of the Cypriniformes (Actinopterygii: Ostariophysi): The first evidence toward resolution of higher-level relationships of the world's largest freshwater fish clade based on 59 whole mitogenome sequences. J Mol Evol 63:826-841.

Lavoue S, Miya M, Inoue JG, Saitoh K, Ishiguro NB, Nishida M. 2005. Molecular systematics of the gonorynchiform fishes (Teleostei) based on whole mitogenome sequences: Implications for higher-level relationships within the Otocephala. Mol Phylogenet Evol 37:165-177.

Saitoh K, Miya M, Inoue JG, Ishiguro NB, Nishida M. 2003. Mitochondrial genomics of ostariophysan fishes: Perspectives on phylogeny and biogeography. J Mol Evol 56:464-472.

Saitoh K, Kobayashi T, Asahida T, Hayashizaki K, Yokoyama Y, Toyohara H, Yamashita Y. 2001. Sequence and structure of Japanese flounder (Paralichthys olivaceus) mitochondrial genome. Bull Tohoku Natl Fish Res Inst 64:1-36.

Saitoh K, Kobayashi T, Ueshima R, Numachi K. 2000. Analyses of mitochondrial and satellite DNAs on spined loaches of the genus Cobitis from Japan have revealed relationships among populations of three diploid-tetraploid complexes. Folia Zool 49(S1):9-16.

Saitoh K, Hayashizaki K, Yokoyama Y, Asahida T, Toyohara H, Yamashita Y. 2000. Complete nucleotide sequence of Japanese flounder (Paralichthys olivaceus) mitochondrial genome: structural properties and cue for resolving teleostean relationships. J Hered 91:271-278.