Naoaki Sakamoto - Publications

Publications (37)

ECB-PERS-4268

Publications By Naoaki Sakamoto

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CRISPR-Cas9-Mediated Gene Knockout in a Non-Model Sea Urchin, Heliocidaris crassispina., Sakamoto N, Watanabe K, Awazu A, Yamamoto T., Zoolog Sci. April 1, 2024; 41 (2): 159-166.
The crucial role of CTCF in mitotic progression during early development of sea urchin., Watanabe K, Fujita M, Okamoto K, Yoshioka H, Moriwaki M, Tagashira H, Awazu A, Yamamoto T, Sakamoto N., Dev Growth Differ. September 1, 2023; 65 (7): 395-407.
Identification of the genes encoding candidate septate junction components expressed during early development of the sea urchin, Strongylocentrotus purpuratus, and evidence of a role for Mesh in the formation of the gut barrier., Jonusaite S, Oulhen N, Izumi Y, Furuse M, Yamamoto T, Sakamoto N, Wessel G, Heyland A., Dev Biol. March 1, 2023; 495 21-34.
Partial exogastrulation due to apical-basal polarity of F-actin distribution disruption in sea urchin embryo by omeprazole., Watanabe K, Yasui Y, Kurose Y, Fujii M, Yamamoto T, Sakamoto N, Awazu A., Genes Cells. June 1, 2022; 27 (6): 392-408.
CRISPR-Cas9 editing of non-coding genomic loci as a means of controlling gene expression in the sea urchin., Pieplow A, Dastaw M, Sakuma T, Sakamoto N, Yamamoto T, Yajima M, Oulhen N, Wessel GM., Dev Biol. April 1, 2021; 472 85-97.
Recycling endosomes associate with Golgi stacks in sea urchin embryos., Fujii S, Tago T, Sakamoto N, Yamamoto T, Satoh T, Satoh AK., Commun Integr Biol. April 30, 2020; 13 (1): 59-62.
Establishment of knockout adult sea urchins by using a CRISPR-Cas9 system., Liu D, Awazu A, Sakuma T, Yamamoto T, Sakamoto N., Dev Growth Differ. August 1, 2019; 61 (6): 378-388.
Insulator Activities of Nucleosome-Excluding DNA Sequences without Bound Chromatin Looping Proteins., Matsushima Y, Sakamoto N, Awazu A., J Phys Chem B. February 7, 2019; 123 (5): 1035-1043.
Dynamic changes in the interchromosomal interaction of early histone gene loci during development of sea urchin., Matsushita M, Ochiai H, Suzuki KT, Hayashi S, Yamamoto T, Awazu A, Sakamoto N., J Cell Sci. December 15, 2017; 130 (24): 4097-4107.
Cilia play a role in breaking left-right symmetry of the sea urchin embryo., Takemoto A, Miyamoto T, Simono F, Kurogi N, Shirae-Kurabayashi M, Awazu A, Suzuki KT, Yamamoto T, Sakamoto N., Genes Cells. June 1, 2016; 21 (6): 568-78.
Targeted mutagenesis in sea urchin embryos using TALENs., Hosoi S, Sakuma T, Sakamoto N, Yamamoto T., Dev Growth Differ. January 1, 2014; 56 (1): 92-7.
The 3''UTR of nanos2 directs enrichment in the germ cell lineage of the sea urchin., Oulhen N, Yoshida T, Yajima M, Song JL, Sakuma T, Sakamoto N, Yamamoto T, Wessel GM., Dev Biol. May 1, 2013; 377 (1): 275-83.
Zinc-finger nuclease-mediated targeted insertion of reporter genes for quantitative imaging of gene expression in sea urchin embryos., Ochiai H, Sakamoto N, Fujita K, Nishikawa M, Suzuki K, Matsuura S, Miyamoto T, Sakuma T, Shibata T, Yamamoto T., Proc Natl Acad Sci U S A. July 3, 2012; 109 (27): 10915-20.
Inhibition of hepatitis C virus replication and viral helicase by ethyl acetate extract of the marine feather star Alloeocomatella polycladia., Yamashita A, Salam KA, Furuta A, Matsuda Y, Fujita O, Tani H, Fujita Y, Fujimoto Y, Ikeda M, Kato N, Sakamoto N, Maekawa S, Enomoto N, Nakakoshi M, Tsubuki M, Sekiguchi Y, Tsuneda S, Akimitsu N, Noda N, Tanaka J, Moriishi K., Mar Drugs. April 1, 2012; 10 (4): 744-761.
Nucleosome exclusion from the interspecies-conserved central AT-rich region of the Ars insulator., Takagi H, Inai Y, Watanabe S, Tatemoto S, Yajima M, Akasaka K, Yamamoto T, Sakamoto N., J Biochem. January 1, 2012; 151 (1): 75-87.
HpSumf1 is involved in the activation of sulfatases responsible for regulation of skeletogenesis during sea urchin development., Sakuma T, Ohnishi K, Fujita K, Ochiai H, Sakamoto N, Yamamoto T., Dev Genes Evol. August 1, 2011; 221 (3): 157-66.
Targeted mutagenesis in the sea urchin embryo using zinc-finger nucleases., Ochiai H, Fujita K, Suzuki K, Nishikawa M, Shibata T, Sakamoto N, Yamamoto T., Genes Cells. August 1, 2010; 15 (8): 875-85.
Implication of HpEts in gene regulatory networks responsible for specification of sea urchin skeletogenic primary mesenchyme cells., Yajima M, Umeda R, Fuchikami T, Kataoka M, Sakamoto N, Yamamoto T, Akasaka K., Zoolog Sci. August 1, 2010; 27 (8): 638-46.
Dicer is required for the normal development of sea urchin, Hemicentrotus pulcherrimus., Okamitsu Y, Yamamoto T, Fujii T, Ochiai H, Sakamoto N., Zoolog Sci. June 1, 2010; 27 (6): 477-86.
HpSulf, a heparan sulfate 6-O-endosulfatase, is involved in the regulation of VEGF signaling during sea urchin development., Fujita K, Takechi E, Sakamoto N, Sumiyoshi N, Izumi S, Miyamoto T, Matsuura S, Tsurugaya T, Akasaka K, Yamamoto T., Mech Dev. April 1, 2010; 127 (3-4): 235-45.
Role of the nanos homolog during sea urchin development., Fujii T, Sakamoto N, Ochiai H, Fujita K, Okamitsu Y, Sumiyoshi N, Minokawa T, Yamamoto T., Dev Dyn. October 1, 2009; 238 (10): 2511-21.
Suppressor of Hairless (Su(H)) is required for foregut development in the sea urchin embryo., Karasawa K, Sakamoto N, Fujita K, Ochiai H, Fujii T, Akasaka K, Yamamoto T., Zoolog Sci. October 1, 2009; 26 (10): 686-90.
The Ars insulator facilitates I-SceI meganuclease-mediated transgenesis in the sea urchin embryo., Ochiai H, Sakamoto N, Suzuki K, Akasaka K, Yamamoto T., Dev Dyn. September 1, 2008; 237 (9): 2475-82.
Analysis of cis-regulatory elements controlling spatio-temporal expression of T-brain gene in sea urchin, Hemicentrotus pulcherrimus., Ochiai H, Sakamoto N, Momiyama A, Akasaka K, Yamamoto T., Mech Dev. January 1, 2008; 125 (1-2): 2-17.
DNA variations within the sea urchin Otx gene enhancer., Yamamoto T, Kawamoto R, Fujii T, Sakamoto N, Shibata T., FEBS Lett. November 13, 2007; 581 (27): 5234-40.
Functional analysis of the sea urchin-derived arylsulfatase (Ars)-element in mammalian cells., Watanabe S, Watanabe S, Sakamoto N, Sato M, Akasaka K., Genes Cells. September 1, 2006; 11 (9): 1009-21.
Developmental expression of HpNanos, the Hemicentrotus pulcherrimus homologue of nanos., Fujii T, Mitsunaga-Nakatsubo K, Saito I, Iida H, Sakamoto N, Akasaka K, Yamamoto T., Gene Expr Patterns. June 1, 2006; 6 (5): 572-7.
Unichrom, a novel nuclear matrix protein, binds to the Ars insulator and canonical MARs., Tagashira H, Shimotori T, Sakamoto N, Katahira M, Miyanoiri Y, Yamamoto T, Mitsunaga-Nakatsubo K, Shimada H, Kusunoki S, Akasaka K., Zoolog Sci. January 1, 2006; 23 (1): 9-21.
A new G-stretch-DNA-binding protein, Unichrom, displays cell-cycle-dependent expression in sea urchin embryos., Moritani K, Tagashira H, Shimotori T, Sakamoto N, Tanaka S, Takata K, Mitsunaga-Nakatsubo K, Bojiiwa Y, Yamamoto T, Shimada H, Akasaka K., Dev Growth Differ. August 1, 2004; 46 (4): 335-41.
The Otx binding site is required for the activation of HpOtxL mRNA expression in the sea urchin, Hemicentrotus pulcherrimus., Hayashibara Y, Mitsunaga-Nakatsubo K, Sakamoto N, Shimotori T, Akasaka K, Yamamoto T., Dev Growth Differ. February 1, 2004; 46 (1): 61-7.
Utilization of a particle gun DNA introduction system for the analysis of cis-regulatory elements controlling the spatial expression pattern of the arylsulfatase gene (HpArs) in sea urchin embryos., Kurita M, Kondoh H, Mitsunaga-Nakatsubo K, Shimotori T, Sakamoto N, Yamamoto T, Shimada H, Takata K, Akasaka K., Dev Genes Evol. February 1, 2003; 213 (1): 44-9.
T-brain homologue (HpTb) is involved in the archenteron induction signals of micromere descendant cells in the sea urchin embryo., Fuchikami T, Mitsunaga-Nakatsubo K, Amemiya S, Hosomi T, Watanabe T, Kurokawa D, Kataoka M, Harada Y, Satoh N, Kusunoki S, Takata K, Shimotori T, Yamamoto T, Sakamoto N, Shimada H, Akasaka K., Development. November 1, 2002; 129 (22): 5205-16.
Differential expression of sea urchin Otx isoform (hpOtxE and HpOtxL) mRNAs during early development., Mitsunaga-Nakatsubo K, Akasaka K, Sakamoto N, Takata K, Matsumura Y, Kitajima T, Kusunoki S, Shimada H., Int J Dev Biol. July 1, 1998; 42 (5): 645-51.
Structure and function of a sea urchin orthodenticle-related gene (HpOtx)., Kiyama T, Akasaka K, Takata K, Mitsunaga-Nakatsubo K, Sakamoto N, Shimada H., Dev Biol. January 15, 1998; 193 (2): 139-45.
Two isoforms of orthodenticle-related proteins (HpOtx) bind to the enhancer element of sea urchin arylsulfatase gene., Sakamoto N, Akasaka K, Mitsunaga-Nakatsubo K, Takata K, Nishitani T, Shimada H., Dev Biol. January 15, 1997; 181 (2): 284-95.
A triplex DNA structure of the polypyrimidine: polypurine stretch in the 5'' flanking region of the sea urchin arylsulfatase gene., Sakamoto N, Akasaka K, Yamamoto T, Shimada H., Zoolog Sci. February 1, 1996; 13 (1): 105-9.
Corrected Structure of the 5' Flanking Region of Arylsulfatase Gene of the Sea Urchin, Hemicentrotus pulcherrimus: (5' flanking sequence/sea urchin/arylsulfatase gene/G-string)., Akasaka K, Sakamoto N, Yamamoto T, Morokuma J, Fujikawa N, Takata K, Eguchi S, Shimada H., Dev Growth Differ. December 1, 1994; 36 (6): 633-636.

CRISPR-Cas9-Mediated Gene Knockout in a Non-Model Sea Urchin, Heliocidaris crassispina., Sakamoto N, Watanabe K, Awazu A, Yamamoto T., Zoolog Sci. April 1, 2024; 41 (2): 159-166.

The crucial role of CTCF in mitotic progression during early development of sea urchin., Watanabe K, Fujita M, Okamoto K, Yoshioka H, Moriwaki M, Tagashira H, Awazu A, Yamamoto T, Sakamoto N., Dev Growth Differ. September 1, 2023; 65 (7): 395-407.

Identification of the genes encoding candidate septate junction components expressed during early development of the sea urchin, Strongylocentrotus purpuratus, and evidence of a role for Mesh in the formation of the gut barrier., Jonusaite S, Oulhen N, Izumi Y, Furuse M, Yamamoto T, Sakamoto N, Wessel G, Heyland A., Dev Biol. March 1, 2023; 495 21-34.

Partial exogastrulation due to apical-basal polarity of F-actin distribution disruption in sea urchin embryo by omeprazole., Watanabe K, Yasui Y, Kurose Y, Fujii M, Yamamoto T, Sakamoto N, Awazu A., Genes Cells. June 1, 2022; 27 (6): 392-408.

CRISPR-Cas9 editing of non-coding genomic loci as a means of controlling gene expression in the sea urchin., Pieplow A, Dastaw M, Sakuma T, Sakamoto N, Yamamoto T, Yajima M, Oulhen N, Wessel GM., Dev Biol. April 1, 2021; 472 85-97.

Recycling endosomes associate with Golgi stacks in sea urchin embryos., Fujii S, Tago T, Sakamoto N, Yamamoto T, Satoh T, Satoh AK., Commun Integr Biol. April 30, 2020; 13 (1): 59-62.

Establishment of knockout adult sea urchins by using a CRISPR-Cas9 system., Liu D, Awazu A, Sakuma T, Yamamoto T, Sakamoto N., Dev Growth Differ. August 1, 2019; 61 (6): 378-388.

Insulator Activities of Nucleosome-Excluding DNA Sequences without Bound Chromatin Looping Proteins., Matsushima Y, Sakamoto N, Awazu A., J Phys Chem B. February 7, 2019; 123 (5): 1035-1043.

Dynamic changes in the interchromosomal interaction of early histone gene loci during development of sea urchin., Matsushita M, Ochiai H, Suzuki KT, Hayashi S, Yamamoto T, Awazu A, Sakamoto N., J Cell Sci. December 15, 2017; 130 (24): 4097-4107.

Cilia play a role in breaking left-right symmetry of the sea urchin embryo., Takemoto A, Miyamoto T, Simono F, Kurogi N, Shirae-Kurabayashi M, Awazu A, Suzuki KT, Yamamoto T, Sakamoto N., Genes Cells. June 1, 2016; 21 (6): 568-78.

Targeted mutagenesis in sea urchin embryos using TALENs., Hosoi S, Sakuma T, Sakamoto N, Yamamoto T., Dev Growth Differ. January 1, 2014; 56 (1): 92-7.

The 3''UTR of nanos2 directs enrichment in the germ cell lineage of the sea urchin., Oulhen N, Yoshida T, Yajima M, Song JL, Sakuma T, Sakamoto N, Yamamoto T, Wessel GM., Dev Biol. May 1, 2013; 377 (1): 275-83.

Zinc-finger nuclease-mediated targeted insertion of reporter genes for quantitative imaging of gene expression in sea urchin embryos., Ochiai H, Sakamoto N, Fujita K, Nishikawa M, Suzuki K, Matsuura S, Miyamoto T, Sakuma T, Shibata T, Yamamoto T., Proc Natl Acad Sci U S A. July 3, 2012; 109 (27): 10915-20.

Inhibition of hepatitis C virus replication and viral helicase by ethyl acetate extract of the marine feather star Alloeocomatella polycladia., Yamashita A, Salam KA, Furuta A, Matsuda Y, Fujita O, Tani H, Fujita Y, Fujimoto Y, Ikeda M, Kato N, Sakamoto N, Maekawa S, Enomoto N, Nakakoshi M, Tsubuki M, Sekiguchi Y, Tsuneda S, Akimitsu N, Noda N, Tanaka J, Moriishi K., Mar Drugs. April 1, 2012; 10 (4): 744-761.

Nucleosome exclusion from the interspecies-conserved central AT-rich region of the Ars insulator., Takagi H, Inai Y, Watanabe S, Tatemoto S, Yajima M, Akasaka K, Yamamoto T, Sakamoto N., J Biochem. January 1, 2012; 151 (1): 75-87.

HpSumf1 is involved in the activation of sulfatases responsible for regulation of skeletogenesis during sea urchin development., Sakuma T, Ohnishi K, Fujita K, Ochiai H, Sakamoto N, Yamamoto T., Dev Genes Evol. August 1, 2011; 221 (3): 157-66.

Targeted mutagenesis in the sea urchin embryo using zinc-finger nucleases., Ochiai H, Fujita K, Suzuki K, Nishikawa M, Shibata T, Sakamoto N, Yamamoto T., Genes Cells. August 1, 2010; 15 (8): 875-85.

Implication of HpEts in gene regulatory networks responsible for specification of sea urchin skeletogenic primary mesenchyme cells., Yajima M, Umeda R, Fuchikami T, Kataoka M, Sakamoto N, Yamamoto T, Akasaka K., Zoolog Sci. August 1, 2010; 27 (8): 638-46.

Dicer is required for the normal development of sea urchin, Hemicentrotus pulcherrimus., Okamitsu Y, Yamamoto T, Fujii T, Ochiai H, Sakamoto N., Zoolog Sci. June 1, 2010; 27 (6): 477-86.

HpSulf, a heparan sulfate 6-O-endosulfatase, is involved in the regulation of VEGF signaling during sea urchin development., Fujita K, Takechi E, Sakamoto N, Sumiyoshi N, Izumi S, Miyamoto T, Matsuura S, Tsurugaya T, Akasaka K, Yamamoto T., Mech Dev. April 1, 2010; 127 (3-4): 235-45.

Role of the nanos homolog during sea urchin development., Fujii T, Sakamoto N, Ochiai H, Fujita K, Okamitsu Y, Sumiyoshi N, Minokawa T, Yamamoto T., Dev Dyn. October 1, 2009; 238 (10): 2511-21.

Suppressor of Hairless (Su(H)) is required for foregut development in the sea urchin embryo., Karasawa K, Sakamoto N, Fujita K, Ochiai H, Fujii T, Akasaka K, Yamamoto T., Zoolog Sci. October 1, 2009; 26 (10): 686-90.

The Ars insulator facilitates I-SceI meganuclease-mediated transgenesis in the sea urchin embryo., Ochiai H, Sakamoto N, Suzuki K, Akasaka K, Yamamoto T., Dev Dyn. September 1, 2008; 237 (9): 2475-82.

Analysis of cis-regulatory elements controlling spatio-temporal expression of T-brain gene in sea urchin, Hemicentrotus pulcherrimus., Ochiai H, Sakamoto N, Momiyama A, Akasaka K, Yamamoto T., Mech Dev. January 1, 2008; 125 (1-2): 2-17.

DNA variations within the sea urchin Otx gene enhancer., Yamamoto T, Kawamoto R, Fujii T, Sakamoto N, Shibata T., FEBS Lett. November 13, 2007; 581 (27): 5234-40.

Functional analysis of the sea urchin-derived arylsulfatase (Ars)-element in mammalian cells., Watanabe S, Watanabe S, Sakamoto N, Sato M, Akasaka K., Genes Cells. September 1, 2006; 11 (9): 1009-21.

Developmental expression of HpNanos, the Hemicentrotus pulcherrimus homologue of nanos., Fujii T, Mitsunaga-Nakatsubo K, Saito I, Iida H, Sakamoto N, Akasaka K, Yamamoto T., Gene Expr Patterns. June 1, 2006; 6 (5): 572-7.

Unichrom, a novel nuclear matrix protein, binds to the Ars insulator and canonical MARs., Tagashira H, Shimotori T, Sakamoto N, Katahira M, Miyanoiri Y, Yamamoto T, Mitsunaga-Nakatsubo K, Shimada H, Kusunoki S, Akasaka K., Zoolog Sci. January 1, 2006; 23 (1): 9-21.

A new G-stretch-DNA-binding protein, Unichrom, displays cell-cycle-dependent expression in sea urchin embryos., Moritani K, Tagashira H, Shimotori T, Sakamoto N, Tanaka S, Takata K, Mitsunaga-Nakatsubo K, Bojiiwa Y, Yamamoto T, Shimada H, Akasaka K., Dev Growth Differ. August 1, 2004; 46 (4): 335-41.

The Otx binding site is required for the activation of HpOtxL mRNA expression in the sea urchin, Hemicentrotus pulcherrimus., Hayashibara Y, Mitsunaga-Nakatsubo K, Sakamoto N, Shimotori T, Akasaka K, Yamamoto T., Dev Growth Differ. February 1, 2004; 46 (1): 61-7.

Utilization of a particle gun DNA introduction system for the analysis of cis-regulatory elements controlling the spatial expression pattern of the arylsulfatase gene (HpArs) in sea urchin embryos., Kurita M, Kondoh H, Mitsunaga-Nakatsubo K, Shimotori T, Sakamoto N, Yamamoto T, Shimada H, Takata K, Akasaka K., Dev Genes Evol. February 1, 2003; 213 (1): 44-9.

T-brain homologue (HpTb) is involved in the archenteron induction signals of micromere descendant cells in the sea urchin embryo., Fuchikami T, Mitsunaga-Nakatsubo K, Amemiya S, Hosomi T, Watanabe T, Kurokawa D, Kataoka M, Harada Y, Satoh N, Kusunoki S, Takata K, Shimotori T, Yamamoto T, Sakamoto N, Shimada H, Akasaka K., Development. November 1, 2002; 129 (22): 5205-16.

Differential expression of sea urchin Otx isoform (hpOtxE and HpOtxL) mRNAs during early development., Mitsunaga-Nakatsubo K, Akasaka K, Sakamoto N, Takata K, Matsumura Y, Kitajima T, Kusunoki S, Shimada H., Int J Dev Biol. July 1, 1998; 42 (5): 645-51.

Structure and function of a sea urchin orthodenticle-related gene (HpOtx)., Kiyama T, Akasaka K, Takata K, Mitsunaga-Nakatsubo K, Sakamoto N, Shimada H., Dev Biol. January 15, 1998; 193 (2): 139-45.

Two isoforms of orthodenticle-related proteins (HpOtx) bind to the enhancer element of sea urchin arylsulfatase gene., Sakamoto N, Akasaka K, Mitsunaga-Nakatsubo K, Takata K, Nishitani T, Shimada H., Dev Biol. January 15, 1997; 181 (2): 284-95.

A triplex DNA structure of the polypyrimidine: polypurine stretch in the 5'' flanking region of the sea urchin arylsulfatase gene., Sakamoto N, Akasaka K, Yamamoto T, Shimada H., Zoolog Sci. February 1, 1996; 13 (1): 105-9.

Corrected Structure of the 5' Flanking Region of Arylsulfatase Gene of the Sea Urchin, Hemicentrotus pulcherrimus: (5' flanking sequence/sea urchin/arylsulfatase gene/G-string)., Akasaka K, Sakamoto N, Yamamoto T, Morokuma J, Fujikawa N, Takata K, Eguchi S, Shimada H., Dev Growth Differ. December 1, 1994; 36 (6): 633-636.

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