EvoDevo, 9: 8 (2018)
The role of retinoic acid signaling in starfish metamorphosis
Shumpei Yamakawa, Yoshiaki Morino, Masanao Honda, Hiroshi Wada

Gene, 659: 37-43 (2017)
Hidden genetic history of the Japanese sand dollar Peronella (Echinoidea: Laganidae) revealed by nuclear intron sequences
Megumi Endo, Mamiko Hirose, Masanao Honda, Hiroyuki Koga, Yoshiaki Morino, Masato Kiyomoto, Hiroshi Wada

Nature ecology & evolution, 1: 1942-1949 (2017)
Expansion of TALE homeobox genes and the evolution of spiralian development
Yoshiaki Morino, Naoki Hashimoto, Hiroshi Wada.

Plos One 12(4): e0176492 (2017)
Estimating Optimal Sparseness of Developmental Gene Networks Using a Semi-quantitative Model
Natsuhiro Ichinose, Tsetushi Yada, Hiroshi Wada.

Biological Journal of the Linnean Society, 119: 240-249 (2016)
Evolution of the molluscan body plan: the case of the anterior adductor muscle of bivalves
Yoshihisa Kurita, Naoki Hashimoto, Hiroshi Wada.

Development, 143: 1800-1810 (2016)
Reiterative expression of pax1 directs pharyngeal pouch segmentation in medaka (Oryzias latipes)
Kazunori Okada, Keiji Inohaya, Takeshi Mise, Akira Kudo, Shinji Takada, Hiroshi Wada.

Zoological Letters, 2:10 (2016)
Comparative morphology and development of extra-ocular muscles in the lamprey and gnathostomes reveal the ancestral state and developmental patterns of the vertebrate head
Daichi G. Suzuki, Yuma Fukumoto, Miho Yoshimura, Yuji Yamazaki, Jun Kosaka, Shigeru Kuratani, Hiroshi Wada.

Evolution & Development, 18:2 89-95 (2016)
The conserved genetic background for pluteus arm development in brittle stars and sea urchin.
Yoshiaki Morino, Hiroyuki Koga, Hiroshi Wada.

Biology Letters, 12(3), 20151055 (2016)
Lineage tracing of the bivalve shell field with special interest in the descendants of the 2d blastomere
Masakuni Mohri, Naoki Hashimoto, Hiroshi Wada.

Zoological letters, 2:3 (2016)
Bivalve-specific gene expansion in the pearl oyster genome: Implications of adaptation to a sessile lifestyle
Takeshi Takeuchi, Ryo Koyanagi, Fuki Gyoja, Miyuki Kanda, Kanako Hisata, Manabu Fujie, Hiroki Goto, Shinichi Yamasaki, Kiyohito Nagai, Yoshiaki Morino, Hiroshi Miyamoto, Kazuyoshi Endo, Hirotoshi Endo, Hiromichi Nagasawa, Shigeharu Kinoshita, Shuichi Asakawa, Shugo Watabe, Noriyuki Satoh, Takeshi Kawashima.

PloS one, 11(2), e0149067 (2016)
Experimental Approach Reveals the Role of alx1 in the Evolution of the Echinoderm Larval Skeleton
Hiroyuki Koga, Haruka Fujitani, Yoshiaki Morino, Norio Miyamoto, Jun Tsuchimoto, Tomoko F. Shibata, Masafumi Nozawa, Shuji Shigenobu, Atsushi Ogura, Kazunori Tachibana, Masato Kiyomoto, Shonan Amemiya, Hiroshi Wada.

Tsukuba Classical Studies 8:19-29 (2015) (in Japanese)
On the etiology of the 'difference in secondary characteristics' in Aristotle De Generatione Animalium book 5
Daichi G. Suzuki,

Evolution & Development 17(2):139-147 (2015)
Expression patterns of Eph genes in the “dual visual development” of the lamprey and their significance in the evolution of vision in vertebrates
Daichi G. Suzuki, Yasunori Murakami, Yuji Yamazaki, Hiroshi Wada.

Journal of Comparative Neurology, 523:251-261(2015)
A comparative examination of neural circuit and brain patterning between the lamprey and amphioxus reveals the evolutionary origin of the vertebrate visual center
Daichi G. Suzuki, Yasunori Murakami, Hector Escriva, Hiroshi Wada.

Journal of Experimental Zoology PartB, 324B(1):13-21 (2015)
Cleavage pattern and development of isolated D blastomeres in bivalves
Naoki Hashimoto, Yoshihisa Kurita, Kana Murakami, Hiroshi Wada.

Tsukuba Classical Studies, 7:1-22 (2014)
Biological, philosophical commentary on Aristotle De Generatione Animalium I: book 1, chapter 17-book 2, chapter 3. [in Japanese]
Daichi G. Suzuki.

Zoological Science, 31(5):309-320 (2014)
Phylogenetic Relationships, Genetic Divergence, Historical Biogeography and Conservation of an Endangered Gecko, Goniurosaurus kuroiwae (Squamata: Eublepharidae), from the Central Ryukyus, Japan.
Honda, M., Kurita, T., Toda, M., and Ota, H.

genesis, 52(3):186-192 (2014)
The echinoderm larval skeleton as a possible model system for experimental evolutionary biology
Hiroyuki Koga, Yoshiaki Morino, Hiroshi Wada

Developmental Biology, 385(2):396-404 (2014)
A novel N-terminal motif is responsible for the evolution of neural crest-specific gene-regulatory activity in vertebrate FoxD3
Hiroki Ono, Zbynek Kozmik, Jr-Kai Yu, Hiroshi Wada

Journal of morphology 275(2):191-205 (2014)
Development of the trigeminal motor neurons in parrots: Implications for the role of nervous tissue in the evolution of jaw muscle morphology
Masayoshi Tokita, Tomoki Nakayama

Tsukuba Classical Studies, 6:1-23 (2013) (in Japanese)
Biological, Philosophical Commentary on Aristotle De Generatione Animalium I: Book1, chapter 1-16
Daichi G. Suzuki

Nature Communications, 4, 2713 (2013)
Hemichordate neurulation and the origin of the neural tube
Norio Miyamoto, Hiroshi Wada

Zoological Science 30(10):801-816 (2013)
The Diversity of Shell Matrix Proteins: Genome-Wide Investigation of the Pearl Oyster, Pinctada fucata
Hiroshi Miyamoto, Hirotoshi Endo, Naoki Hashimoto, Kurin limura, Yukinobu Isowa, Shigeharu Kinoshita, Tomohiro Kotaki, Tetsuji Masaoka, Takumi Miki, Seiji Nakayama, Chihiro Nogawa, Atsuto Notazawa, Fumito Ohmori, Isao Sarashina, Michio Suzuki, Ryousuke Takagi, Jun Takahashi, Takeshi Takeuchi, Naoki Yokoo, Nori Satoh, Haruhiko Toyohara, Tomoyuki Miyashita, Hiroshi Wada, Tetsuro Samata, Kazuyoshi Endo, Hiromichi Nagasawa, Shuichi Asakawa, Shugo Watabe

Zoological Science 30(10):851-857 (2013)
A Genome-Wide Survey of Genes Encoding Transcription Factors in the Japanese Pearl Oyster, Pinctada fucata: I. Homeobox Genes
Yoshiaki Morino, Kazunori Okada, Miyuki Niikura, Masanao Honda, Nori Satoh, Hiroshi Wada

Zoological Science 30(10):858-867 (2013)
A Genome-Wide Survey of Genes Encoding Transcription Factors in Japanese Pearl Oyster Pinctada fucata: II. Tbx, Fox, Ets, HMG, NFκB, bZIP, and C2H2 Zinc Fingers
Hiroyuki Koga, Naoki Hashimoto, Daichi G. Suzuki, Hiroki Ono, Miho Yoshimura, Tatsumi Suguro, Yoshinari Yonehara, Takaaki Abe, Nori Satoh, Hiroshi Wada

EVOLUTION, 67(1) 260-273 (2013)
Developmental Basis of Toothlessness in Turtles: Insight into Convergent Evolution of Vertebrate Morphology
Masayoshi Tokita, Win Chaeychomsri, Jindawan Siruntawineti

Conservation Genetics Resources (2013)
Development and characterization of 24 microsatellite markers in a eublepharid gecko, Goniurosaurus kuroiwae.
Kurita, T., Aoyama, H. Saitoh, S. Shinzato, N. Honda, M., Toda, M

Nature Communications, 3, 1302 (2012)
The developmental basis of bat wing muscle
Masayoshi Tokita, Takaaki Abe, Kazuo Suzuki

Proceedings of the Royal Society B, Epub (2012)
Molecular and cellular changes associated with the evolution of novel jaw muscles in parrots
Masayoshi Tokita, Tomoki Nakayama, Richard A. Schneider, Kiyokazu Agata

Molecular Phylogenetics and Evolution 65, 2, 642-653 (2012)
Phylogeny and biogeography of the Anderson’s crocodile newt, Echinotriton andersoni (Amphibia: Caudata), as revealed by mitochondrial DNA sequences
Masanao Honda, Masafumi Matsui, Atsushi Tominaga, Hidetoshi Ota, Satoshi Tanaka

Zoological Science 29(8):527-537 (2012)
Taxonomic Study of the Burmoniscus ocellatus Complex (Crustacea, Isopoda, Oniscidea) in Japan Shows Genetic Diversification in the Southern Ryukyus, Southwestern Japan
Shigenori Karasawa, Masanao Honda

Evolution and Development, 14:5 428-436 (2012)
Heterochronic activation of VEGF signaling and the evolution of the skeleton in echinoderm pluteus larvae
Yoshiaki Morino, Hiroyuki Koga, Kazunori Tachibana, Eiichi Shoguchi, Masato Kiyomoto, Hiroshi Wada

Developmental Biology, 336, 2, 367-373 (2012)
Developmental role of dpp in the gastropod shell plate and co-option of the dpp signaling pathway in the evolution of the operculum
Naoki Hashimoto, Yoshihisa Kurita, Hiroshi Wada

The Biological Bulletin, 221, 2, 206-214 (2011)
Embryonic Development and Expression Analysis of Distal-less in Caprella scaura (Crustacea, Amphipoda, Caprellidea)
Atsushi Ito, Masakazu N. Aoki, Kensuke Yahata, Hiroshi Wada

Developmental Biology, 356, 1, 28-39 (2011)
Mesenchymal and mechanical mechanisms of secondary cartilage induction
R. Christian Solema, Frank Eamesb, Masayoshi Tokita and Richard A. Schneidera,

Developmental Genes and Evolution, 221, 3, 133-40 (2011)
Complicated evolution of the caprellid (Crustacea: Malacostraca: Peracarida: Amphipoda) body plan, reacquisition or multiple losses of the thoracic limbs and pleons
Atsushi Ito,Masakazu N Aoki, Kensuke Yahata, Hiroshi Wada

Biology Letters, 7, 5, 759-762 (2011)
Evidence that gastropod torsion is driven by asymmetric cell proliferation activated by TGF-β signalling
Yoshihisa Kurita, Hiroshi Wada

Journal of Experimental Zoology Part B, 316B, 6, 409-417 (2011)
Regeneration of amphioxus oral cirri and its skeletal rods: implication for the origin of the vertebrate skeleton
Satoshi Kaneto, Hiroshi Wada

Journal of Experimental Zoology Part B, 316B, 5, 339-346 (2011)
Development of lamprey mucocartilage and its dorsal-ventral patterning by endothelin signaling, with insight into vertebrate jaw evolution
Tuoya Yao, Kaoru Ohtani, Shigeru Kuratani, Hiroshi Wada

Journal of Biogeography 38(2):259?271 (2011)
A time-calibrated phylogenetic approach to assessing the phylogeography, colonization history and phenotypic evolution of snakes in the Japanese Izu Islands.
Kuriyama, T., Brandley. M.C., Katayama. A., Mori, A., Honda, M., Hasegawa, M.

Herpetological Review 42(2):235 (2011)
Anderson's crocodile newt, Echinotriton andersoni.
Honda, M., Tominaga, A., Maeda, Y., Ota, H.

Mitochondrial DNA, 21, 183-190 (2010)
The complete mitochondrial genome of Caprella scaura (Crustacea, Amphipoda, Caprellidea), with emphasis on the unique gene order pattern and duplicated control region.
Atsushi Ito, Masakazu N Aoki, Shinichi Yokobori, Hiroshi Wada

Development Genes and Evolution , 220, 107-115 (2010)
Functional evolution of Ets in echinoderms with focus on the evolution of echinoderm larval skeletons
Hiroyuki Koga, Mioko Matsubara, Haruka Fujitani, Norio Miyamoto, Mieko Komatsu, Masato Kiyomoto, Koji Akasaka, Hiroshi Wada

Gene, 465, 45-52 (2010)
Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron
Kazunori Okada, Yuji Yamazaki, Shinichi Yokobori, Hiroshi Wada

Journal of Molecular Evolution, 71, 51-59 (2010)
Evidence for the Heparin-Binding Ability of the Ascidian Xlink Domain and Insight into the Evolution of the Xlink Domain in Chordates
Masahiko Yoneda, Toshiya Nakamura, Miho Murai, Hiroshi Wada

Evolution & Development, 12, 416-424 (2010)
Development of the nervous system in the acorn worm Balanoglossus simodensis: insights into nervous system evolution
Norio Miyamoto, Yoko Nakajima, Hiroshi Wada, Yasunori Saito

Biology Letters, 6, 517-520 (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, 10; 21 (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, 30(3), 177-186 (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