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541 results on '"Kikuchi, Yutaka"'

7. Nipbl and mediator cooperatively regulate gene expression to control limb development.

Author

Muto, Akihiko, Ikeda, Shingo, Lopez-Burks, Martha E, Kikuchi, Yutaka, Calof, Anne L, Lander, Arthur D, and Schilling, Thomas F

Subjects
Extremities, Chromatin, Animals, Animals, Genetically Modified, Mice, Knockout, Zebrafish, Mice, Zebrafish Proteins, Transcription Factors, Gene Expression Regulation, Developmental, Protein Binding, Organogenesis, Phenotype, Genes, Homeobox, Haploinsufficiency, Genetics, Rare Diseases, Biotechnology, 2.1 Biological and endogenous factors, Genetically Modified, Knockout, Gene Expression Regulation, Developmental, Genes, Homeobox, Developmental Biology
Abstract

Haploinsufficiency for Nipbl, a cohesin loading protein, causes Cornelia de Lange Syndrome (CdLS), the most common "cohesinopathy". It has been proposed that the effects of Nipbl-haploinsufficiency result from disruption of long-range communication between DNA elements. Here we use zebrafish and mouse models of CdLS to examine how transcriptional changes caused by Nipbl deficiency give rise to limb defects, a common condition in individuals with CdLS. In the zebrafish pectoral fin (forelimb), knockdown of Nipbl expression led to size reductions and patterning defects that were preceded by dysregulated expression of key early limb development genes, including fgfs, shha, hand2 and multiple hox genes. In limb buds of Nipbl-haploinsufficient mice, transcriptome analysis revealed many similar gene expression changes, as well as altered expression of additional classes of genes that play roles in limb development. In both species, the pattern of dysregulation of hox-gene expression depended on genomic location within the Hox clusters. In view of studies suggesting that Nipbl colocalizes with the mediator complex, which facilitates enhancer-promoter communication, we also examined zebrafish deficient for the Med12 Mediator subunit, and found they resembled Nipbl-deficient fish in both morphology and gene expression. Moreover, combined partial reduction of both Nipbl and Med12 had a strongly synergistic effect, consistent with both molecules acting in a common pathway. In addition, three-dimensional fluorescent in situ hybridization revealed that Nipbl and Med12 are required to bring regions containing long-range enhancers into close proximity with the zebrafish hoxda cluster. These data demonstrate a crucial role for Nipbl in limb development, and support the view that its actions on multiple gene pathways result from its influence, together with Mediator, on regulation of long-range chromosomal interactions.

Published
2014

17. Optimization of Eddy Current Distribution Using Magnetic Substance in TMS

Author

Odagaki, Masato, Taura, Toshiyuki, Kikuchi, Yutaka, Yunokuchi, Kazutomo, Hutchison, David, editor, Kanade, Takeo, editor, Kittler, Josef, editor, Kleinberg, Jon M., editor, Mattern, Friedemann, editor, Mitchell, John C., editor, Naor, Moni, editor, Nierstrasz, Oscar, editor, Pandu Rangan, C., editor, Steffen, Bernhard, editor, Sudan, Madhu, editor, Terzopoulos, Demetri, editor, Tygar, Doug, editor, Vardi, Moshe Y., editor, Weikum, Gerhard, editor, Goebel, Randy, editor, Siekmann, Jörg, editor, Wahlster, Wolfgang, editor, Imamura, Kazayuki, editor, Usui, Shiro, editor, Shirao, Tomoaki, editor, Kasamatsu, Takuji, editor, Schwabe, Lars, editor, and Zhong, Ning, editor

Published
2013
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22. Impact of Repetitive Transcranial Magnetic Stimulation to the Cerebellum on Performance of a Ballistic Targeting Movement

Author

Matsugi, Akiyoshi, primary, Nishishita, Satoru, additional, Yoshida, Naoki, additional, Tanaka, Hiroaki, additional, Douchi, Shinya, additional, Bando, Kyota, additional, Tsujimoto, Kengo, additional, Honda, Takeru, additional, Kikuchi, Yutaka, additional, Shimizu, Yuto, additional, Odagaki, Masato, additional, Nakano, Hideki, additional, Okada, Yohei, additional, Mori, Nobuhiko, additional, Hosomi, Koichi, additional, and Saitoh, Youichi, additional

Published
2022
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23. Inferring POP-Level ISP Topology through End-to-End Delay Measurement

Author

Yoshida, Kaoru, Kikuchi, Yutaka, Yamamoto, Masateru, Fujii, Yoriko, Nagami, Ken’ichi, Nakagawa, Ikuo, Esaki, Hiroshi, Hutchison, David, Series editor, Kanade, Takeo, Series editor, Kittler, Josef, Series editor, Kleinberg, Jon M., Series editor, Mattern, Friedemann, Series editor, Mitchell, John C., Series editor, Naor, Moni, Series editor, Nierstrasz, Oscar, Series editor, Pandu Rangan, C., Series editor, Steffen, Bernhard, Series editor, Sudan, Madhu, Series editor, Terzopoulos, Demetri, Series editor, Tygar, Doug, Series editor, Vardi, Moshe Y., Series editor, Weikum, Gerhard, Series editor, Moon, Sue B., editor, Teixeira, Renata, editor, and Uhlig, Steve, editor

Published
2009
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26. Identification of aberrant transcription termination at specific gene loci with DNA hypomethylated transcription termination sites caused by DNA methyltransferase deficiency

Author

Shirai, Masaki, primary, Nara, Takuya, additional, Takahashi, Haruko, additional, Takayama, Kazuya, additional, Chen, Yuan, additional, Hirose, Yudai, additional, Fujii, Masashi, additional, Awazu, Akinori, additional, Shimoda, Nobuyoshi, additional, and Kikuchi, Yutaka, additional

Published
2022
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49. casanova encodes a novel Sox-related protein necessary and sufficient for early endoderm formation in zebrafish

Author

Kikuchi, Yutaka, Agathon, Antoine, Alexander, Jonathan, Thisse, Christine, Waldron, Steven, Yelon, Deborah, Thisse, Bernard, and Stainier, Didier Y.R.

Subjects
Cytochemistry -- Research, Zebra fish -- Genetic aspects, Mesoderm -- Genetic aspects, Genetic regulation -- Research, Biological sciences
Abstract

Cas has been shown to be the main transcriptional effector of Nodal signaling during zebrafish endoderm formation. Zebrafish casanova was found to encode a novel Sox-related protein necessary/sufficient for early endoderm formation. Initial cas expression is independent of Nodal signaling. Endoderm formation is more specifically affected by faust, casanova, and bonnie and clyde.

Published
2001

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