Biology Letters, in press (2010)
Development of the pseudothumb in frogs
Masayoshi Tokita, Noriko Iwai

Zoological Science, 27, 119-123 (2010)
Origin and Genetic Evolution of the Vertebrate Skeleton
Hiroshi Wada

BMC Evolutionary Biology, in press (2010)
The mitochondrial phylogeny of an ancient lineage of ray-finned fishes (Polypteridae) with implications for the evolution of body elongation, pelvic fin loss, and craniofacial morphology in Osteichthyes
Dai Suzuki, Matthew C. Brandley, Masayoshi Tokita

Developmental Biology, 335, 454-463 (2009)
Epidermal expression of Hox1 is directly activated by retinoic acid in the Ciona intestinalis embryo
Miyuki Kanda, Hiroshi Wada, Shigeki Fujiwara

Zoological Science, 26, 814-820 (2009)
Early development and cleavage pattern of the Japanese purple mussel Septifer virgatus.
Yoshihisa Kurita, Ryusaku Deguchi, Hiroshi Wada

Evolution & Development, 11, 582-589 (2009)
Molecular markers comparing the extremely simple body plan of dicyemids to that of lophotrochozoans: insight from the expression patterns of Hox, Otx, and brachyury
Mari Kobayashi, Hidetaka Furuya, Hiroshi Wada

Development Genes and Evolution, 219, 383-389 (2009)
Ambulacrarian prototypical Hox and ParaHox gene complements of the indirect-developing hemichordate Balanoglossus simodensis
Tetsuro Ikuta, Norio Miyamoto, Yasunori Saito, Hiroshi Wada, Nori Satoh, Hidetoshi Saiga

Bioscience Reports, in press (2009)
Identification and functional characterization of legumain in amphioxus Branchiostoma belcheri.
Lei Teng, Hiroshi Wada, Shicui Zhang

Genome Research, 19, 1393-403 (2009)
Domain shuffling and the evolution of vertebrates
Takeshi Kawashima, Shuichi Kawashima, Chisaki Tanaka, Miho Murai, Masahiko Yoneda, Nicholas H Putnum, Daniel S Rokhsar, Minoru Kanehisa, Nori Satoh, Hiroshi Wada

Developmental Biology 329, 152-66 (2009)
A novel role for dpp in the shaping of bivalve shells revealed in a conserved molluscan developmental progaram
Koryu Kin, Shota Kakoi, Hiroshi Wada

Zoological Science 25, 976-81 (2008)
Whole-Mount Observation of Pharyngeal and TrabecularCartilage Development in Lampreys
Tuoya Yao, Kaoru Ohtani, Hiroshi Wada

Evolution & development 10, 632-41 (2008)
Evolutionary history of larval skeletal morphology in sea urchin Echinometridae (Echinoidea: Echinodermata) as deduced from mitochondrial DNA molecular phylogeny.
Sonoko Kinjo, Yoshihisa Shirayama, Hiroshi Wada.

Journal of Experimental Zoology Part B, 310B, 596-607(2008)
Expression of Sox and fibrillar collagen genes in lamprey larval chondrogenesis with implications for the evolution of vertebrate cartilage.
Kaoru Ohtani, Tuoya Yao, Mari Kobayashi, Rie Kusakabe, Shigeru Kuratani, Hiroshi Wada.

Zoological Science 25, 455-64 (2008)
Early development of the Japanese spiny oyster (Saccostrea kegaki): Characterization of some genetic markers.
Shota Kakoi, Koryu Kin, Katsumi Miyazaki, Hiroshi Wada

Genesis 46, 185-92 (2008)
Function of Pax1 and Pax9 in the sclerotome of medaka fish
Takeshi Mise, Minoru Iijima, Keiji Inohaya, Akira Kudo, Hiroshi Wada

Biological Bulletin 214, 176-83 (2008)
A phylogenetic analysis of caprellid and corophioid amphipods (Crustacea) based on the 18S rRNA gene, with special emphasis on the phylogenetic position of Phtisicidae.
Atsushi Ito, Hiroshi Wada, Masakazu N. Aoki

Genome Informatics 19, 50-60 (2007)
comparative pair-wise domain-combinations for screening the clade specific domain-architectures.
Shuichi Kawashima, Takeshi Kawashima, Nicholas H. Putnum, Daniel. S Rokhser, Hiroshi Wada, Minoru Kanehisa

Development, Growth and Differentiation, 48, 477-486 (2006).
Sox genes regulate type 2 collagen expression in avian neural crest cells.
Takashi Suzuki, Daisuke Sakai, Noriko Osumi, Hiroshi Wada and Yoshio Wakamatsu

International Journal of Biological Sciences, 2, 133-141 (2006).
Genome duplications of early vertebrates as a possible chronicle of the evolutionary history of the neural crest.
Hiroshi Wada and Kaz Makabe

Evolution and Development, 8, 370-377 (2006)
Molecular evolution of fibrillar collagen in chordates, with implications for the evolution of vertebrate skeletons and chordate phylogeny.
Hiroshi Wada, Makiko Okuyama, Nori Satoh and Shicui Zhang

Journal of Marine Biological Association of the United Kingdom, 86, 799-816 (2006)
Morphological diversity of larval skeletons in the sea urchin family Echinometridae (Echinoidea: Echinodermata).
Sonoko Kinjo, Tetsuya Uehara, Ikuko Yazaki, Yoshihisa Shirayama and Hiroshi Wada

Zoologica Scripta, 35, 243-249 (2006)
Phylogenetic relationships of freshwater bryozoans (Ectoprocta: Phylactolaemata) inferred from mitochondrial ribosomal DNA sequences. Makiko Okuyama, Hiroshi Wada, Teruhisa Ishii

Developmental Dynamics, 235, 1522-1531 (2006)
Conserved RARE localization in amphioxus Hox clusters and implications for Hox code evolution in the vertebrate neural crest.
Hiroshi Wada, Hector Escriva, Shicui Zhang and Vincent Laudet

Developmental Biology, 285, 524-532 (2005)
Ets identified as a trans-regulatory factor of amphioxus Hox2 by transgenic analysis using ascidian embryos.
Hiroshi Wada, Mari Kobayashi and Shicui Zhang

Molecular Phylogenetics and Evolution. 36, 598-605 (2005)
The phylogenetic status of Paxillosida (Asteroidea) based on complete mitochondrial DNA sequences.
Mioko Matsubara, Mieko Komatsu, Takeshi Araki, Shuichi Asakawa, Shin-ichi Yokobori, Kimitsuna Watanabe, Hiroshi Wada

Molecular Phylogenetics and Evolution, 34, 273-283 (2005)
Complete nucleotide sequence of the mitochondrial genome of Doliolum nationalis with implications for evolution of urochordates.
Shin-ichi Yokobori, Tairo Oshima and Hiroshi Wada

Developmental Biology, 285, 524-532 (2005)
Ets identified as a trans-regulatory factor of amphioxus Hox2 by transgenic analysis using ascidian embryos.
Hiroshi Wada, Mari Kobayashi1 and Shicui Zhang

Zoological Science 21, 785-793 (2004)
Close relationship between Asterina and Solasteridae (Asteroidea) supported by both nuclear and mitochondrial　gene molecular phylogenies.
Mioko Matsubara, Mieko Komatsu and Hiroshi Wada

Gene 312, 111-116 (2003)
An ascidian RING finger gene is specifically expressed in a single cell of larval ocellus.
Xutong Sun, Makiko Okuyama, Katsumi Miyazaki, Shicui Zhang, Hiroshi Wada.

Journal of Molecular Evolution 54, 118-128 (2002)
Dynamic insertion-deletion of introns in deuterostome EF-1a genes.
Hiroshi Wada, Mari Kobayashi, Riki Sato, Noriyuki Satoh, Hitoshi Miyasaka, Yoshihisa Shirayama

Development, Growth and Differentiation 43, 509-520 (2001)
Origin and evolution of the neural crest: a hypothetical reconstruction of its evolutionary history
Hiroshi Wada

Current Opinion in Neurobiology 11, 16-21 (2001)
Patterning the protochordate neural tube
Hiroshi Wada and Noriyuki Satoh

Nature 408, 854-857 (2000)
Conservation and elaboration of Hox gene regulation during evolution of the vertebrate Head
Miguel Manzanares*, Hiroshi Wada*, Nobue Itasaki* (*equally contributed authors), Paul Trainor, Robb Krumlauf, Peter W. H. Holland.

Developmental Biology, 213: 131-141 (1999)
Colinear and segmental expression of amphioxus Hox genes.
Hiroshi Wada, Jordi Garcia-Fernandez and Peter W. H. Holland

Development, 125: 1113-1122 (1998)
Tripartite organization of the ancestral chordate brain and the antiquity of placodes: insights from ascidianPax2/5/8,Hox and Otx genes
Hiroshi Wada, Hidetoshi Saiga, Noriyuki Satoh and Peter W. H. Holland

Molecular Biology and Evolution, 15: 1189-1194 (1998)
Evolutionary history of free swimming and sessile lifestyles in urochordates as deduced from 18S rDNA molecular phylogeny
Hiroshi Wada

Developmental Biology, 187: 240-252 (1997)
Neural tube is partially dorsalized by overexpression of HrPax-37: the ascidian homologue of Pax-3 and Pax-7
Hiroshi Wada, Peter W. H. Holland, Shigeru Sato, Hiroaki Yamamoto and Noriyuki Satoh

Molecular Phylogenetics and Evolution, 6: 97-106 (1996)
Mitochondrial rDNA phylogeny of the Asteroidea suggests the primitiveness of Paxillosida
Hiroshi Wada, Mieko Komatsu and Noriyuki Satoh

Nature, 384: 123 (1996)
Origin of patterning in neural tubes
Hiroshi Wada, Peter W. H. Holland and Noriyuki Satoh

Journal of Molecular Evolution, 38: 41-49 (1994)
Phylogenetic relationships among extant classes of echinoderms, as inferred from sequences of 18S rDNA, coincide with relationships deduced from the fossil record
Hiroshi Wada and Noriyuki Satoh

Proc. Natl. Acad. Sci. USA, 91: 1801-1804 (1994)
Details of the evolutionary history from invertebrates to vertebrates, as deduced from the sequences of 18SrDNA
Hiroshi Wada and Noriyuki Satoh

Biological Bulletin, 183: 448-455 (1992)
Phylogenetic relationships between solitary and colonial ascidians, as inferred from the sequence of the central regions of their respective 18S rDNAs
Hiroshi Wada, Kazuhiro Makabe, Mitsuaki Nakauchi and Noriyuki Satoh