Publications By Masanori Taira

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Uncovering the mesendoderm gene regulatory network through multi-omic data integration., Jansen C, Paraiso KD, Zhou JJ, Blitz IL, Fish MB, Charney RM, Cho JS, Yasuoka Y, Sudou N, Bright AR, Wlizla M, Veenstra GJC, Taira M, Zorn AM, Mortazavi A, Cho KWY., Cell Rep. February 15, 2022; 38 (7): 110364.

Evolution of hes gene family in vertebrates: the hes5 cluster genes have specifically increased in frogs., Kuretani A, Yamamoto T, Taira M, Michiue T., BMC Ecol Evol. July 29, 2021; 21 (1): 147.

Quantitative analyses reveal extracellular dynamics of Wnt ligands in Xenopus embryos., Mii Y, Nakazato K, Pack CG, Ikeda T, Sako Y, Mochizuki A, Taira M, Takada S., Elife. April 27, 2021; 10

LIM homeodomain proteins and associated partners: Then and now., Yasuoka Y, Taira M., Curr Top Dev Biol. January 1, 2021; 145 113-166.

Evolution of cis-regulatory modules for the head organizer gene goosecoid in chordates: comparisons between Branchiostoma and Xenopus., Yasuoka Y, Tando Y, Kubokawa K, Taira M., Zoological Lett. August 2, 2019; 5 27.

Endodermal Maternal Transcription Factors Establish Super-Enhancers during Zygotic Genome Activation., Paraiso KD, Blitz IL, Coley M, Cheung J, Sudou N, Taira M, Cho KWY., Cell Rep. June 4, 2019; 27 (10): 2962-2977.e5.

De novo transcription of multiple Hox cluster genes takes place simultaneously in early Xenopus tropicalis embryos., Kondo M, Matsuo M, Igarashi K, Haramoto Y, Yamamoto T, Yasuoka Y, Taira M., Biol Open. March 4, 2019; 8 (3):

Microinjection of DNA Constructs into Xenopus Embryos for Gene Misexpression and cis-Regulatory Module Analysis., Yasuoka Y, Taira M., Cold Spring Harb Protoc. January 2, 2019; 2019 (1):

Phosphorylation states change Otx2 activity for cell proliferation and patterning in the Xenopus embryo., Satou Y, Minami K, Hosono E, Okada H, Yasuoka Y, Shibano T, Tanaka T, Taira M., Development. March 12, 2018; 145 (5):

Tissue-Specific Gene Inactivation in Xenopus laevis: Knockout of lhx1 in the Kidney with CRISPR/Cas9., DeLay BD, Corkins ME, Hanania HL, Salanga M, Deng JM, Sudou N, Taira M, Horb ME, Miller RK., Genetics. February 1, 2018; 208 (2): 673-686.

Roles of two types of heparan sulfate clusters in Wnt distribution and signaling in Xenopus., Mii Y, Yamamoto T, Takada R, Mizumoto S, Matsuyama M, Yamada S, Takada S, Taira M., Nat Commun. December 7, 2017; 8 (1): 1973.

Comprehensive analyses of hox gene expression in Xenopus laevis embryos and adult tissues., Kondo M, Yamamoto T, Takahashi S, Taira M., Dev Growth Differ. August 1, 2017; 59 (6): 526-539.

Sex chromosome differentiation and the W- and Z-specific loci in Xenopus laevis., Mawaribuchi S, Takahashi S, Wada M, Uno Y, Matsuda Y, Kondo M, Fukui A, Takamatsu N, Taira M, Ito M., Dev Biol. June 15, 2017; 426 (2): 393-400.

Genes coding for cyclin-dependent kinase inhibitors are fragile in Xenopus., Tanaka T, Ochi H, Takahashi S, Ueno N, Taira M., Dev Biol. June 15, 2017; 426 (2): 291-300.

Identification and comparative analyses of Siamois cluster genes in Xenopus laevis and tropicalis., Haramoto Y, Saijyo T, Tanaka T, Furuno N, Suzuki A, Ito Y, Kondo M, Taira M, Takahashi S., Dev Biol. June 15, 2017; 426 (2): 374-383.

Genomic organization and modulation of gene expression of the TGF-β and FGF pathways in the allotetraploid frog Xenopus laevis., Suzuki A, Yoshida H, van Heeringen SJ, Takebayashi-Suzuki K, Veenstra GJC, Taira M., Dev Biol. June 15, 2017; 426 (2): 336-359.

Genome organization of the vg1 and nodal3 gene clusters in the allotetraploid frog Xenopus laevis., Suzuki A, Uno Y, Takahashi S, Grimwood J, Schmutz J, Mawaribuchi S, Yoshida H, Takebayashi-Suzuki K, Ito M, Matsuda Y, Rokhsar D, Taira M., Dev Biol. June 15, 2017; 426 (2): 236-244.

Conservatism and variability of gene expression profiles among homeologous transcription factors in Xenopus laevis., Watanabe M, Yasuoka Y, Mawaribuchi S, Kuretani A, Ito M, Kondo M, Ochi H, Ogino H, Fukui A, Taira M, Kinoshita T., Dev Biol. June 15, 2017; 426 (2): 301-324.

Clustered Xenopus keratin genes: A genomic, transcriptomic, and proteomic analysis., Suzuki KT, Suzuki M, Shigeta M, Fortriede JD, Takahashi S, Mawaribuchi S, Yamamoto T, Taira M, Fukui A., Dev Biol. June 15, 2017; 426 (2): 384-392.

High variability of expression profiles of homeologous genes for Wnt, Hh, Notch, and Hippo signaling pathways in Xenopus laevis., Michiue T, Yamamoto T, Yasuoka Y, Goto T, Ikeda T, Nagura K, Nakayama T, Taira M, Kinoshita T., Dev Biol. June 15, 2017; 426 (2): 270-290.

Foxh1 Occupies cis-Regulatory Modules Prior to Dynamic Transcription Factor Interactions Controlling the Mesendoderm Gene Program., Charney RM, Forouzmand E, Cho JS, Cheung J, Paraiso KD, Yasuoka Y, Takahashi S, Taira M, Blitz IL, Xie X, Cho KW., Dev Cell. March 27, 2017; 40 (6): 595-607.e4.

Genome evolution in the allotetraploid frog Xenopus laevis., Session AM, Uno Y, Kwon T, Chapman JA, Toyoda A, Takahashi S, Fukui A, Hikosaka A, Suzuki A, Kondo M, van Heeringen SJ, Quigley I, Heinz S, Ogino H, Ochi H, Hellsten U, Lyons JB, Simakov O, Putnam N, Stites J, Kuroki Y, Tanaka T, Michiue T, Watanabe M, Bogdanovic O, Lister R, Georgiou G, Paranjpe SS, van Kruijsbergen I, Shu S, Carlson J, Kinoshita T, Ohta Y, Mawaribuchi S, Jenkins J, Grimwood J, Schmutz J, Mitros T, Mozaffari SV, Suzuki Y, Haramoto Y, Yamamoto TS, Takagi C, Heald R, Miller K, Haudenschild C, Kitzman J, Nakayama T, Izutsu Y, Robert J, Fortriede J, Burns K, Lotay V, Karimi K, Yasuoka Y, Dichmann DS, Flajnik MF, Houston DW, Shendure J, DuPasquier L, Vize PD, Zorn AM, Ito M, Marcotte EM, Wallingford JB, Ito Y, Asashima M, Ueno N, Matsuda Y, Veenstra GJ, Fujiyama A, Harland RM, Taira M, Rokhsar DS., Nature. October 20, 2016; 538 (7625): 336-343.

Transcription factors Mix1 and VegT, relocalization of vegt mRNA, and conserved endoderm and dorsal specification in frogs., Sudou N, Garcés-Vásconez A, López-Latorre MA, Taira M, Del Pino EM., Proc Natl Acad Sci U S A. May 17, 2016; 113 (20): 5628-33.

The Inner Nuclear Membrane Protein Nemp1 Is a New Type of RanGTP-Binding Protein in Eukaryotes., Shibano T, Mamada H, Hakuno F, Takahashi S, Taira M., PLoS One. May 6, 2015; 10 (5): e0127271.

The medaka dhc2 mutant reveals conserved and distinct mechanisms of Hedgehog signaling in teleosts., Yamamoto T, Tsukahara T, Ishiguro T, Hagiwara H, Taira M, Takeda H., BMC Dev Biol. February 3, 2015; 15 9.

A New Nomenclature of Xenopus laevis Chromosomes Based on the Phylogenetic Relationship to Silurana/Xenopus tropicalis., Matsuda Y, Uno Y, Kondo M, Gilchrist MJ, Zorn AM, Rokhsar DS, Schmid M, Taira M., Cytogenet Genome Res. January 1, 2015; 145 (3-4): 187-91.

Occupancy of tissue-specific cis-regulatory modules by Otx2 and TLE/Groucho for embryonic head specification., Yasuoka Y, Suzuki Y, Takahashi S, Someya H, Sudou N, Haramoto Y, Cho KW, Asashima M, Sugano S, Taira M., Nat Commun. July 9, 2014; 5 4322.

Dynamic in vivo binding of transcription factors to cis-regulatory modules of cer and gsc in the stepwise formation of the Spemann-Mangold organizer., Sudou N, Yamamoto S, Ogino H, Taira M., Development. May 1, 2012; 139 (9): 1651-61.

Comparison of Lim1 expression in embryos of frogs with different modes of reproduction., Venegas-Ferrin M, Sudou N, Taira M, del Pino EM., Int J Dev Biol. January 1, 2010; 54 (1): 195-202.

Secreted Frizzled-related proteins enhance the diffusion of Wnt ligands and expand their signalling range., Mii Y, Taira M., Development. December 1, 2009; 136 (24): 4083-8.

The keratin-related Ouroboros proteins function as immune antigens mediating tail regression in Xenopus metamorphosis., Mukaigasa K, Hanasaki A, Maéno M, Fujii H, Hayashida S, Itoh M, Kobayashi M, Tochinai S, Hatta M, Iwabuchi K, Taira M, Onoé K, Izutsu Y., Proc Natl Acad Sci U S A. October 27, 2009; 106 (43): 18309-14.

The RNA-binding protein Mex3b has a fine-tuning system for mRNA regulation in early Xenopus development., Takada H, Kawana T, Ito Y, Kikuno RF, Mamada H, Araki T, Koga H, Asashima M, Taira M., Development. July 1, 2009; 136 (14): 2413-22.

Evolutionary origins of blastoporal expression and organizer activity of the vertebrate gastrula organizer gene lhx1 and its ancient metazoan paralog lhx3., Yasuoka Y, Kobayashi M, Kurokawa D, Akasaka K, Saiga H, Taira M., Development. June 1, 2009; 136 (12): 2005-14.

Involvement of an inner nuclear membrane protein, Nemp1, in Xenopus neural development through an interaction with the chromatin protein BAF., Mamada H, Takahashi N, Taira M., Dev Biol. March 15, 2009; 327 (2): 497-507.

Recombinant Tol2 transposase with activity in Xenopus embryos., Shibano T, Takeda M, Suetake I, Kawakami K, Asashima M, Tajima S, Taira M., FEBS Lett. September 4, 2007; 581 (22): 4333-6.

A comparative analysis of frog early development., del Pino EM, Venegas-Ferrín M, Romero-Carvajal A, Montenegro-Larrea P, Sáenz-Ponce N, Moya IM, Alarcón I, Sudou N, Yamamoto S, Taira M., Proc Natl Acad Sci U S A. July 17, 2007; 104 (29): 11882-8.

Man1, an inner nuclear membrane protein, regulates vascular remodeling by modulating transforming growth factor beta signaling., Ishimura A, Ng JK, Taira M, Young SG, Osada S., Development. October 1, 2006; 133 (19): 3919-28.

Tol2 transposon-mediated transgenesis in Xenopus tropicalis., Hamlet MR, Yergeau DA, Kuliyev E, Takeda M, Taira M, Kawakami K, Mead PE., Genesis. September 1, 2006; 44 (9): 438-45.

Spliced isoforms of LIM-domain-binding protein (CLIM/NLI/Ldb) lacking the LIM-interaction domain., Tran YH, Xu Z, Kato A, Mistry AC, Goya Y, Taira M, Brandt SJ, Hirose S., J Biochem. July 1, 2006; 140 (1): 105-19.

Xenopus ADAMTS1 negatively modulates FGF signaling independent of its metalloprotease activity., Suga A, Hikasa H, Taira M., Dev Biol. July 1, 2006; 295 (1): 26-39.

Role of crescent in convergent extension movements by modulating Wnt signaling in early Xenopus embryogenesis., Shibata M, Itoh M, Hikasa H, Taira S, Taira M., Mech Dev. December 1, 2005; 122 (12): 1322-39.

Identification of target genes for the Xenopus Hes-related protein XHR1, a prepattern factor specifying the midbrain-hindbrain boundary., Takada H, Hattori D, Kitayama A, Ueno N, Taira M., Dev Biol. July 1, 2005; 283 (1): 253-67.

Systematic screening for genes specifically expressed in the anterior neuroectoderm during early Xenopus development., Takahashi N, Tochimoto N, Ohmori SY, Mamada H, Itoh M, Inamori M, Shinga J, Osada S, Taira M., Int J Dev Biol. January 1, 2005; 49 (8): 939-51.

Cellular FLIP inhibits beta-catenin ubiquitylation and enhances Wnt signaling., Naito M, Katayama R, Ishioka T, Suga A, Takubo K, Nanjo M, Hashimoto C, Taira M, Takada S, Takada R, Kitagawa M, Matsuzawa S, Reed JC, Tsuruo T., Mol Cell Biol. October 1, 2004; 24 (19): 8418-27.

Excision of the Tol2 transposable element of the medaka fish Oryzias latipes in Xenopus laevis and Xenopus tropicalis., Kawakami K, Imanaka K, Itoh M, Taira M., Gene. August 18, 2004; 338 (1): 93-8.

Expression patterns of Xenopus FGF receptor-like 1/nou-darake in early Xenopus development resemble those of planarian nou-darake and Xenopus FGF8., Hayashi S, Itoh M, Taira S, Agata K, Taira M., Dev Dyn. August 1, 2004; 230 (4): 700-7.

Selective degradation of excess Ldb1 by Rnf12/RLIM confers proper Ldb1 expression levels and Xlim-1/Ldb1 stoichiometry in Xenopus organizer functions., Hiratani I, Yamamoto N, Mochizuki T, Ohmori SY, Taira M., Development. September 1, 2003; 130 (17): 4161-75.

Molecular link in the sequential induction of the Spemann organizer: direct activation of the cerberus gene by Xlim-1, Xotx2, Mix.1, and Siamois, immediately downstream from Nodal and Wnt signaling., Yamamoto S, Hikasa H, Ono H, Taira M., Dev Biol. May 1, 2003; 257 (1): 190-204.

XMAN1, an inner nuclear membrane protein, antagonizes BMP signaling by interacting with Smad1 in Xenopus embryos., Osada S, Ohmori SY, Taira M., Development. May 1, 2003; 130 (9): 1783-94.

Gene expression pattern analysis of the tight junction protein, Claudin, in the early morphogenesis of Xenopus embryos., Fujita M, Itoh M, Shibata M, Taira S, Taira M., Mech Dev. December 1, 2002; 119 Suppl 1 S27-30.

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