ZFIN Lab: Kobayashi Lab

ZFIN ID: ZDB-LAB-980622-1

Kobayashi Lab

PI/Director:	Kobayashi, Makoto
Contact Person:	Kobayashi, Makoto
Email:	makobayash@md.tsukuba.ac.jp
URL:	http://www.md.tsukuba.ac.jp/MDBiology/zebra%20group/mdbiol.index.e.html
Address:	Molecular and Developmental Biology Faculty of Medicine University of Tsukuba 1-1-1 Tennodai Tsukuba, Ibaraki 305-8575 JAPAN
Country:	Japan
Phone:	81-29-853-8457
Fax:	81-29-853-5977
Line Designation:	it

GENOMIC FEATURES ORIGINATING FROM THIS LAB

Show all 20 genomic features

STATEMENT OF RESEARCH INTERESTS

LAB MEMBERS

Bian, Lixuan Graduate Student	Dong, Guilin Graduate Student	Maeda, Hiroki Graduate Student
Nishiya, Ayana Graduate Student	Sato, Ayaka Graduate Student	Tamaoki, Junya Graduate Student
Watanabe, Asami Graduate Student

ZEBRAFISH PUBLICATIONS OF LAB MEMBERS

Zhu, L., Makita, S., Tamaoki, J., Lichtenegger, A., Lim, Y., Zhu, Y., Kobayashi, M., Yasuno, Y. (2023) Multi-focus averaging for multiple scattering suppression in optical coherence tomography. Biomedical Optics Express. 14:482848444828-4844

Tamaoki, J., Maeda, H., Kobayashi, I., Takeuchi, M., Ohashi, K., Gore, A., Bonkhofer, F., Patient, R., Weinstein, B.M., Kobayashi, M. (2023) LSD1 promotes the egress of hematopoietic stem and progenitor cells into the bloodstream during the endothelial-to-hematopoietic transition. Developmental Biology. 501:92-103

Bian, L., Nguyen, V.T., Tamaoki, J., Endo, Y., Dong, G., Sato, A., Kobayashi, M. (2023) Genetic hyperactivation of Nrf2 causes larval lethality in Keap1a and Keap1b-double-knockout zebrafish. Redox Biology. 62:102673102673

Dong, W., Akasaka, I., Komiyama, A., Nakamura, T., Mizoguchi, N., Nawaji, T., Ikushiro, S., Kobayashi, M., Teraoka, H. (2023) Augmentation of Pectoral Fin Teratogenicity by Thalidomide in Human Cytochrome P450 3A-Expressing Zebrafish. Pharmaceuticals (Basel, Switzerland). 16(3):

Sato, Y., Dong, W., Nakamura, T., Mizoguchi, N., Nawaji, T., Nishikawa, M., Onaga, T., Ikushiro, S., Kobayashi, M., Teraoka, H. (2023) Transgenic Zebrafish Expressing Rat Cytochrome P450 2E1 (CYP2E1): Augmentation of Acetaminophen-Induced Toxicity in the Liver and Retina. International Journal of Molecular Sciences. 24(4):

Shashni, B., Tamaoki, J., Kobayashi, M., Nagasaki, Y. (2023) Design of a New Self-assembling Antioxidant Nanomedicine to Ameliorate Oxidative Stress in Zebrafish Embryos. Acta biomaterialia. 159:367-381

Lichtenegger, A., Tamaoki, J., Licandro, R., Mori, T., Mukherjee, P., Bian, L., Greutter, L., Makita, S., Wöhrer, A., Matsusaka, S., Kobayashi, M., Baumann, B., Yasuno, Y. (2022) Longitudinal investigation of a xenograft tumor zebrafish model using polarization-sensitive optical coherence tomography. Scientific Reports. 12:15381

Watanabe, A., Muraki, K., Tamaoki, J., Kobayashi, M. (2022) Soy-Derived Equol Induces Antioxidant Activity in Zebrafish in an Nrf2-Independent Manner. International Journal of Molecular Sciences. 23(9)

Lichtenegger, A., Mukherjee, P., Tamaoki, J., Bian, L., Zhu, L., El-Sadek, I.A., Makita, S., Leskovar, K., Kobayashi, M., Baumann, B., Yasuno, Y. (2022) Multicontrast investigation of in vivo wildtype zebrafish in three development stages using polarization-sensitive optical coherence tomography. Journal of Biomedical Optics. 27(1):

Saida, K., Tamaoki, J., Sasaki, M., Haniffa, M., Koshimizu, E., Sengoku, T., Maeda, H., Kikuchi, M., Yokoyama, H., Sakamoto, M., Iwama, K., Sekiguchi, F., Hamanaka, K., Fujita, A., Mizuguchi, T., Ogata, K., Miyake, N., Miyatake, S., Kobayashi, M., Matsumoto, N. (2021) Pathogenic variants in the SMN complex gene GEMIN5 cause cerebellar atrophy. Clinical genetics. 100(6):722-730

Tanaka, K., Adachi, H., Akasaka, H., Tamaoki, J., Fuse, Y., Kobayashi, M., Kitazawa, T., Teraoka, H. (2021) Oxidative stress inducers potentiate 2,3,7,8-tetrachlorodibenzo-p-dioxin-mediated pre-cardiac edema in larval zebrafish. The Journal of veterinary medical science. 83(7):1050-1058

Nguyen, V.T., Bian, L., Tamaoki, J., Otsubo, S., Muratani, M., Kawahara, A., Kobayashi, M. (2020) Generation and characterization of keap1a- and keap1b-knockout zebrafish. Redox Biology. 36:101667

Tamaoki, J., Takeuchi, M., Abe, R., Kaneko, H., Wada, T., Hino, S., Nakao, M., Furukawa, Y., Kobayashi, M. (2020) Splicing- and demethylase-independent functions of LSD1 in zebrafish primitive hematopoiesis. Scientific Reports. 10:8521

Endo, Y., Muraki, K., Fuse, Y., Kobayashi, M. (2020) Evaluation of Antioxidant Activity of Spice-Derived Phytochemicals Using Zebrafish. International Journal of Molecular Sciences. 21(3):

Ko, S., Russell, J.O., Tian, J., Gao, C., Kobayashi, M., Feng, R., Yuan, X., Shao, C., Ding, H., Poddar, M., Singh, S., Locker, J., Weng, H.L., Monga, S.P., Shin, D. (2018) Hdac1 Regulates Differentiation of Bipotent Liver Progenitor Cells During Regeneration via Sox9b and Cdk8. Gastroenterology. 156(1):187-202.e14

Mukaigasa, K., Tsujita, T., Nguyen, V.T., Li, L., Yagi, H., Fuse, Y., Nakajima-Takagi, Y., Kato, K., Yamamoto, M., Kobayashi, M. (2018) Nrf2 activation attenuates genetic endoplasmic reticulum stress induced by a mutation in the phosphomannomutase 2 gene in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 115(11):2758-2763

Fuse, Y., Endo, Y., Araoi, S., Daitoku, H., Suzuki, H., Kato, M., Kobayashi, M. (2017) The possible repositioning of an oral anti-arthritic drug, auranofin, for Nrf2-activating therapy: the demonstration of Nrf2-dependent anti-oxidative action using a zebrafish model. Free radical biology & medicine. 115:405-411

Tran, M.T.N., Hamada, M., Jeon, H., Shiraishi, R., Asano, K., Hattori, M., Nakamura, M., Imamura, Y., Tsunakawa, Y., Fujii, R., Usui, T., Kulathunga, K., Andrea, C.S., Koshida, R., Kamei, R., Matsunaga, Y., Kobayashi, M., Oishi, H., Kudo, T., Takahashi, S. (2017) MafB is a critical regulator of complement component C1q. Nature communications. 8:1700

Fuse, Y., Kobayashi, M. (2017) Conservation of the Keap1-Nrf2 System: An Evolutionary Journey through Stressful Space and Time. Molecules. 22(3)

Osborne, O.J., Mukaigasa, K., Nakajima, H., Stolpe, B., Romer, I., Philips, U., Lynch, I., Mourabit, S., Hirose, S., Lead, J.R., Kobayashi, M., Kudoh, T., Tyler, C.R. (2016) Sensory systems and ionocytes are targets for silver nanoparticle effects in fish. Nanotoxicology. 10(9):1276-86

Vong, L.B., Kobayashi, M., Nagasaki, Y. (2016) Evaluation of the Toxicity and Antioxidant Activity of Redox Nanoparticles in Zebrafish (Danio rerio) Embryos. Molecular pharmaceutics. 13(9):3091-7

Fuse, Y., Nguyen, V.T., Kobayashi, M. (2016) Nrf2-dependent protection against acute sodium arsenite toxicity in zebrafish. Toxicology and applied pharmacology. 305:136-42

Nguyen, V.T., Fuse, Y., Tamaoki, J., Akiyama, S.I., Muratani, M., Tamaru, Y., Kobayashi, M. (2016) Conservation of the Nrf2-Mediated Gene Regulation of Proteasome Subunits and Glucose Metabolism in Zebrafish. Oxidative medicine and cellular longevity. 2016:5720574

Kim, J.D., Park, K.E., Ishida, J., Kako, K., Hamada, J., Kani, S., Takeuchi, M., Namiki, K., Fukui, H., Fukuhara, S., Hibi, M., Kobayashi, M., Kanaho, Y., Kasuya, Y., Mochizuki, N., Fukamizu, A. (2015) PRMT8 as a phospholipase regulates Purkinje cell dendritic arborization and motor coordination. Science advances. 1:e1500615

Takeuchi, M., Fuse, Y., Watanabe, M., Andrea, C.S., Takeuchi, M., Nakajima, H., Ohashi, K., Kaneko, H., Kobayashi-Osaki, M., Yamamoto, M., Kobayashi, M. (2015) LSD1/KDM1A promotes hematopoietic commitment of hemangioblasts through downregulation of Etv2. Proceedings of the National Academy of Sciences of the United States of America. 112(45):13922-7

Fuse, Y., Nakajima, H., Nakajima-Takagi, Y., Nakajima, O., Kobayashi, M. (2015) Heme-mediated inhibition of Bach1 regulates the liver specificity and transience of the Nrf2-dependent induction of zebrafish heme oxygenase 1. Genes to cells : devoted to molecular & cellular mechanisms. 20(7):590-600

Mukaigasa, K., Nguyen, L.T., Li, L., Nakajima, H., Yamamoto, M., and Kobayashi, M. (2012) Genetic Evidence of an Evolutionarily Conserved Role for Nrf2 in the Protection against Oxidative Stress. Molecular and cellular biology. 32(21):4455-4461

Nakajima, H., Nakajima-Takagi, Y., Tsujita, T., Akiyama, S., Wakasa, T., Mukaigasa, K., Kaneko, H., Tamaru, Y., Yamamoto, M., and Kobayashi, M. (2011) Tissue-restricted expression of nrf2 and its target genes in zebrafish with gene-specific variations in the induction profiles. PLoS One. 6(10):e26884

Tsujita, T., Li, L., Nakajima, H., Iwamoto, N., Nakajima-Takagi, Y., Ohashi, K., Kawakami, K., Kumagai, Y., Freeman, B.A., Yamamoto, M., and Kobayashi, M. (2011) Nitro-fatty acids and cyclopentenone prostaglandins share strategies to activate the Keap1-Nrf2 system: a study using green fluorescent protein transgenic zebrafish. Genes to cells : devoted to molecular & cellular mechanisms. 16(1):46-57

Iida, A., Sakaguchi, K., Sato, K., Sakurai, H., Nishimura, D., Iwaki, A., Takeuchi, M., Kobayashi, M., Misaki, K., Yonemura, S., Kawahara, A., and Sehara-Fujisawa, A. (2010) Metalloprotease-dependent onset of blood circulation in zebrafish. Current biology : CB. 20(12):1110-1116

Takeuchi, M., Kaneko, H., Nishikawa, K., Kawakami, K., Yamamoto, M., and Kobayashi, M. (2010) Efficient transient rescue of hematopoietic mutant phenotypes in zebrafish using Tol2-mediated transgenesis. Development, growth & differentiation. 52(2):245-250

Kobayashi, M., Li, L., Iwamoto, N., Nakajima-Takagi, Y., Kaneko, H., Nakayama, Y., Eguchi, M., Wada, Y., Kumagai, Y., and Yamamoto, M. (2009) The Antioxidant Defense System Keap1-Nrf2 Comprises a Multiple Sensing Mechanism for Responding to a Wide Range of Chemical Compounds. Molecular and cellular biology. 29(2):493-502

Li, L., Kobayashi, M., Kaneko, H., Nakajima-Takagi, Y., Nakayama, Y., and Yamamoto, M. (2008) Molecular evolution of Keap1: Two Keap1 molecules with distinctive IVR structures are conserved among fish. The Journal of biological chemistry. 283(6):3248-3255

Ando, H., Kobayashi, M., Tsubokawa, T., Uyemura, K., Furuta, T., and Okamoto, H. (2005) Lhx2 mediates the activity of Six3 in zebrafish forebrain growth. Developmental Biology. 287(2):456-468

Suzuki, T., Takagi, Y., Osanai, H., Li, L., Takeuchi, M., Katoh, Y., Kobayashi, M., and Yamamoto, M. (2005) Pi class glutathione S-transferase genes are regulated by Nrf 2 through an evolutionarily conserved regulatory element in zebrafish. The Biochemical journal. 388(Pt 1):65-73

Takagi, Y., Kobayashi, M., Li, L., Suzuki, T., Nishikawa, K, and Yamamoto, M. (2004) MafT, a new member of the small Maf protein family in zebrafish. Biochemical and Biophysical Research Communications. 320(1):62-69

Kawakami, K., Takeda, H., Kawakami, N., Kobayashi, M., Matsuda, N., and Mishina, M. (2004) A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Developmental Cell. 7(1):133-144

Kimura-Yoshida, C., Kitajima, K., Oda-Ishii, I., Tian, E., Suzuki, M.,Yamamoto, M., Suzuki, T., Kobayashi, M., Aizawa, S., and Matsuo, I. (2004) Characterization of the pufferfish Otx2 cis-regulators reveals evolutionarily conserved genetic mechanisms for vertebrate head specification. Development (Cambridge, England). 131(1):57-71

Nishikawa, K., Kobayashi, M., Masumi, A., Lyons, S.E., Weinstein, B.M.,Liu, P.P., and Yamamoto, M. (2003) Self-association of Gata1 enhances transcriptional activity in vivo in zebra fish embryos. Molecular and cellular biology. 23(22):8295-8305

Kobayashi, M., Itoh, K., Suzuki, T., Osanai, H., Nishikawa, K., Katoh, Y., Takagi, Y., and Yamamoto, M. (2002) Identification of the interactive interface and phylogenic conservation of the Nrf2-Keap1 system. Genes to cells : devoted to molecular & cellular mechanisms. 7(8):807-820

Kobayashi, M., Nishikawa, K., and Yamamoto, M. (2001) Hematopoietic regulatory domain of gata1 gene is positively regulated by GATA1 protein in zebrafish embryos. Development (Cambridge, England). 128(12):2341-2350

Kobayashi, M., Nishikawa, K., Suzuki, T., and Yamamoto, M. (2001) The homeobox protein Six3 interacts with the Groucho corepressor and acts as a transcriptional repressor in eye and forebrain formation. Developmental Biology. 232(2):315-326

Kajihara, M., Kawauchi, S., Kobayashi, M., Ogino, H., Takahashi, S., and Yasuda, K. (2001) Isolation, characterization, and expression analysis of zebrafish large Mafs. J. Biochem. (Tokyo). 129(1):139-146

Kobayashi, M., Osanai, H., Kawakami, K., and Yamamoto, M. (2000) Expression of three zebrafish Six4 genes in the cranial sensory placodes and the developing somites. Mechanisms of Development. 98(1-2):151-155

Kobayashi, M. (2000) Study for the molecular mechanism of transcription using the zebrafish system. Seikagaku. The Journal of Japanese Biochemical Society. 72(9):1168-1172

Kobayashi, M., Toyama, R., Takeda, H., Dawid, I.B., and Kawakami, K. (1998) Overexpression of the forebrain-specific homeobox gene six3 induces rostral forebrain enlargement in zebrafish. Development (Cambridge, England). 125:2973-2982

Toyama, R., Kobayashi, M., Tomita, T., and Dawid, I.B. (1998) Expression of LIM-domain binding protein (ldb) genes during zebrafish embryogenesis. Mechanisms of Development. 71:197-200