Gojobori Laboratory

Laboratory for DNA Data Analysis Gojobori Laboratory
Study for molecular evolution and information biology
using genome sequence and gene expression profile.

Professor	Takashi Gojobori	tgojobor
Associate professor	Kazuho Ikeo	kikeo
Assistant professor	Yoshiyuki Suzuki	yossuzuk
Assistant professor	Satoshi Fukuchi	sfukuchi

Homepage URL : http://www.cib.nig.ac.jp/dda/home-j.html

In order to understand the evolutionary mechanisms of living organisms, we conduct both wet-lab experiments and data analyses by use of genome sequences and gene expression profiles.
Currently ongoing research projects are as follows:
Gene expression profiling of planarian brains and hydra neural cells to understand the evolution of brain and neural systems.

Comparative genomics of higher organisms to trace the evolutionary process of genomes.

Identification of horizontal gene transfer by complete genome comparisons of bacteria by grid computing.

Molecular evolution of pathogenic viruses.

Evolution of eye structures and their gene expression.

Development of statistical methods for detecting positive selection.

3D visualized and integrated database of biosystems.

Construction of bio-platform for the genome network project.

A Hydra cDNA chip is constructed to analyze the gene expression of various cell types in Hydra. We have collected more than 100 cell types specific genes including those express in nerve and sensory cells. In addition, we also develop cDNA chips for planarian, turnicate and cave fish to study the gene expression of nervous system and visual system.

Komiyama T, Kobayashi H, Tateno Y, Inoko H, Gojobori T, Ikeo K. (2009) An evolutionary origin and selection process of goldfish. Gene 430 , 5-11.

Akihito, Fumihito A, Ikeda Y, Aizawa M, Makino T, Umehara Y, Kai Y, Nishimoto Y, Hasegawa M, Nakabo T, Gojobori T. (2008) Evolution of Pacific Ocean and the Sea of Japan populations of the gobiid species, Pterogobius elapoides and Pterogobius zonoleucus, based on molecular and morphological analyses. Gene 427 , 7-18.

Howe D, Costanzo M, Fey P, Gojobori T, Hannick L, Hide W, Hill DP, Kania R, Schaeffer M, St Pierre S, Twigger S, White O, Yon Rhee S. (2008) Big data: The future of biocuration. Nature 455 , 47-50.

Hwang JS, Takaku Y, Chapman J, Ikeo K, David CN, Gojobori T. (2008) Cilium evolution: identification of a novel protein, nematocilin, in the mechanosensory cilium of Hydra nematocytes. Mol. Biol. Evol. 25 , 2009-2017.

Hwang, J.S., Ohyanagi, H., Hayakawa, S., Osato, N., Nishimiya-Fujisawa, C., Ikeo, K., David, C.N., Fujisawa, T. and Gojobori, T. (2007). The evolutionary emergence of cell type-specific genes inferred from the gene expression analysis of Hydra. Proc. Natl. Acad. Sci. USA. 104, 14735-14740.

Wang, H.Y., Chien, H.C., Osada, N., Hashimoto, K., Sugano, S., Gojobori, T., Chou, C.K., Tsai, S.F., Wu, C.I. and Shen, C.K. (2007). Rate of Evolution in Brain-Expressed Genes in Humans and Other Primates. PLoS Biology 5(2), e13.

Makino, T. and Gojobori, T. (2006). The evolutionary rate of a protein is influenced by features of the interacting partners. Mol. Biol. Evol. 23(4) , 784-789.

Nakamura, Y., Itoh, T., Matsuda, H. and Gojobori, T. (2004). Biased biological functions of horizontally transferred genes on 324,653 open reading frames of 116 prokaryotic complete genomes. Nat. Genet. 36, 760-766.


Professor Takashi Gojobori tgojobor		Associate professor Kazuho Ikeo kikeo


Assistant professor Yoshiyuki Suzuki yossuzuk		Assistant professor Satoshi Fukuchi sfukuchi