A Systems Approach Reveals that the Myogenesis Genome Network Is Regulated by the Transcriptional Repressor RP58
We created a whole-mount in situ hybridization (WISH) database, termed EMBRYS, containing expression data of 1520 transcription factors and cofactors expressed in E9.5, E10.5, and E11.5 mouse embryos—a highly dynamic stage of skeletal myogenesis. This approach implicated 43 genes in regulation of em...
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| creator | Yokoyama, Shigetoshi Ito, Yoshiaki Ueno-Kudoh, Hiroe Shimizu, Hirohito Uchibe, Kenta Albini, Sonia Mitsuoka, Kazuhiko Miyaki, Shigeru Kiso, Minako Nagai, Akane Hikata, Tomohiro Osada, Tadahiro Fukuda, Noritsugu Yamashita, Satoshi Harada, Daisuke Mezzano, Valeria Kasai, Masataka Puri, Pier Lorenzo Hayashizaki, Yoshihide Okado, Haruo Hashimoto, Megumi Asahara, Hiroshi |
| description | We created a whole-mount in situ hybridization (WISH) database, termed EMBRYS, containing expression data of 1520 transcription factors and cofactors expressed in E9.5, E10.5, and E11.5 mouse embryos—a highly dynamic stage of skeletal myogenesis. This approach implicated 43 genes in regulation of embryonic myogenesis, including a transcriptional repressor, the zinc-finger protein
RP58 (also known as
Zfp238). Knockout and knockdown approaches confirmed an essential role for
RP58 in skeletal myogenesis. Cell-based high-throughput transfection screening revealed that RP58 is a direct MyoD target. Microarray analysis identified two inhibitors of skeletal myogenesis,
Id2 and
Id3, as targets for RP58-mediated repression. Consistently, MyoD-dependent activation of the myogenic program is impaired in
RP58 null fibroblasts and downregulation of
Id2 and
Id3 rescues MyoD's ability to promote myogenesis in these cells. Our combined, multi-system approach reveals a MyoD-activated regulatory loop relying on RP58-mediated repression of muscle regulatory factor (MRF) inhibitors. |
| doi_str_mv | 10.1016/j.devcel.2009.10.011 |
| format | Article |
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RP58 (also known as
Zfp238). Knockout and knockdown approaches confirmed an essential role for
RP58 in skeletal myogenesis. Cell-based high-throughput transfection screening revealed that RP58 is a direct MyoD target. Microarray analysis identified two inhibitors of skeletal myogenesis,
Id2 and
Id3, as targets for RP58-mediated repression. Consistently, MyoD-dependent activation of the myogenic program is impaired in
RP58 null fibroblasts and downregulation of
Id2 and
Id3 rescues MyoD's ability to promote myogenesis in these cells. Our combined, multi-system approach reveals a MyoD-activated regulatory loop relying on RP58-mediated repression of muscle regulatory factor (MRF) inhibitors.</description><identifier>ISSN: 1534-5807</identifier><identifier>EISSN: 1878-1551</identifier><identifier>DOI: 10.1016/j.devcel.2009.10.011</identifier><identifier>PMID: 20059953</identifier><language>eng</language><publisher>Cambridge, MA: Elsevier Inc</publisher><subject>Animals ; Biological and medical sciences ; Cell differentiation, maturation, development, hematopoiesis ; Cell physiology ; Cofactors ; Computer programs ; Data processing ; DEVBIO ; DNA microarrays ; Embryos ; Fibroblasts ; Fundamental and applied biological sciences. Psychology ; Gene Knockdown Techniques ; Gene Knockout Techniques ; Gene regulation ; Gene Regulatory Networks ; Genomes ; Inhibitor of Differentiation Protein 2 - metabolism ; Inhibitor of Differentiation Proteins - metabolism ; Mice ; Molecular and cellular biology ; Molecular genetics ; Muscle Development ; Muscle regulatory factor ; Muscle, Skeletal - embryology ; MyoD protein ; myogenesis ; Myogenic Regulatory Factors - genetics ; Repressor Proteins - metabolism ; Repressors ; Transcription ; Transcription factors ; Transcription. Transcription factor. Splicing. Rna processing ; Transfection ; Zinc finger proteins</subject><ispartof>Developmental cell, 2009-12, Vol.17 (6), p.836-848</ispartof><rights>2009 Elsevier Inc.</rights><rights>2015 INIST-CNRS</rights><rights>2009 Elsevier Inc. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c552t-4e84ed635679567c143d9b054803d6b8109ba15642cbbe4eda1f91a90e172cc73</citedby><cites>FETCH-LOGICAL-c552t-4e84ed635679567c143d9b054803d6b8109ba15642cbbe4eda1f91a90e172cc73</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S153458070900433X$$EHTML$$P50$$Gelsevier$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=22263633$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/20059953$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yokoyama, Shigetoshi</creatorcontrib><creatorcontrib>Ito, Yoshiaki</creatorcontrib><creatorcontrib>Ueno-Kudoh, Hiroe</creatorcontrib><creatorcontrib>Shimizu, Hirohito</creatorcontrib><creatorcontrib>Uchibe, Kenta</creatorcontrib><creatorcontrib>Albini, Sonia</creatorcontrib><creatorcontrib>Mitsuoka, Kazuhiko</creatorcontrib><creatorcontrib>Miyaki, Shigeru</creatorcontrib><creatorcontrib>Kiso, Minako</creatorcontrib><creatorcontrib>Nagai, Akane</creatorcontrib><creatorcontrib>Hikata, Tomohiro</creatorcontrib><creatorcontrib>Osada, Tadahiro</creatorcontrib><creatorcontrib>Fukuda, Noritsugu</creatorcontrib><creatorcontrib>Yamashita, Satoshi</creatorcontrib><creatorcontrib>Harada, Daisuke</creatorcontrib><creatorcontrib>Mezzano, Valeria</creatorcontrib><creatorcontrib>Kasai, Masataka</creatorcontrib><creatorcontrib>Puri, Pier Lorenzo</creatorcontrib><creatorcontrib>Hayashizaki, Yoshihide</creatorcontrib><creatorcontrib>Okado, Haruo</creatorcontrib><creatorcontrib>Hashimoto, Megumi</creatorcontrib><creatorcontrib>Asahara, Hiroshi</creatorcontrib><title>A Systems Approach Reveals that the Myogenesis Genome Network Is Regulated by the Transcriptional Repressor RP58</title><title>Developmental cell</title><addtitle>Dev Cell</addtitle><description>We created a whole-mount in situ hybridization (WISH) database, termed EMBRYS, containing expression data of 1520 transcription factors and cofactors expressed in E9.5, E10.5, and E11.5 mouse embryos—a highly dynamic stage of skeletal myogenesis. This approach implicated 43 genes in regulation of embryonic myogenesis, including a transcriptional repressor, the zinc-finger protein
RP58 (also known as
Zfp238). Knockout and knockdown approaches confirmed an essential role for
RP58 in skeletal myogenesis. Cell-based high-throughput transfection screening revealed that RP58 is a direct MyoD target. Microarray analysis identified two inhibitors of skeletal myogenesis,
Id2 and
Id3, as targets for RP58-mediated repression. Consistently, MyoD-dependent activation of the myogenic program is impaired in
RP58 null fibroblasts and downregulation of
Id2 and
Id3 rescues MyoD's ability to promote myogenesis in these cells. Our combined, multi-system approach reveals a MyoD-activated regulatory loop relying on RP58-mediated repression of muscle regulatory factor (MRF) inhibitors.</description><subject>Animals</subject><subject>Biological and medical sciences</subject><subject>Cell differentiation, maturation, development, hematopoiesis</subject><subject>Cell physiology</subject><subject>Cofactors</subject><subject>Computer programs</subject><subject>Data processing</subject><subject>DEVBIO</subject><subject>DNA microarrays</subject><subject>Embryos</subject><subject>Fibroblasts</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene Knockdown Techniques</subject><subject>Gene Knockout Techniques</subject><subject>Gene regulation</subject><subject>Gene Regulatory Networks</subject><subject>Genomes</subject><subject>Inhibitor of Differentiation Protein 2 - metabolism</subject><subject>Inhibitor of Differentiation Proteins - metabolism</subject><subject>Mice</subject><subject>Molecular and cellular biology</subject><subject>Molecular genetics</subject><subject>Muscle Development</subject><subject>Muscle regulatory factor</subject><subject>Muscle, Skeletal - embryology</subject><subject>MyoD protein</subject><subject>myogenesis</subject><subject>Myogenic Regulatory Factors - genetics</subject><subject>Repressor Proteins - metabolism</subject><subject>Repressors</subject><subject>Transcription</subject><subject>Transcription factors</subject><subject>Transcription. Transcription factor. Splicing. Rna processing</subject><subject>Transfection</subject><subject>Zinc finger proteins</subject><issn>1534-5807</issn><issn>1878-1551</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kV1v0zAUhiMEYmPwDxDyDXCV4hPHiXODVE0wJo0PjXFtOc5p65LEme0W9d9zSssGN7vwh46f97V93ix7CXwGHKp361mHW4v9rOC8odKMAzzKTkHVKgcp4THtpShzqXh9kj2Lcc1JBoo_zU5IIptGitNsmrPvu5hwiGw-TcEbu2LXuEXTR5ZWJtGE7PPOL3HE6CK7wNEPyL5g-uXDT3YZiV5uepOwY-3uD30TzBhtcFNyfjQ9AVPAGH1g19-kep49WZA5vjiuZ9mPjx9uzj_lV18vLs_nV7mVskh5iarErhKyqhsaFkrRNS2XpeKiq1oFvGkNyKosbNsioQYWDZiGI9SFtbU4y94ffKdNO2BncUzB9HoKbjBhp71x-v-T0a300m-1AGqvBDJ4ezQI_naDMenBRep3b0b0m6hrURYC6mZ_1ZsHyQIEKFVWBJYH0AYfY8DF3XOA632oeq0Poep9qPsqhUqyV_9-5U70N0UCXh8BE63pFxSAdfGeK4pKVELc9wSp8VuHQUfrcLTYuYA26c67h1_yG0nzws4</recordid><startdate>20091201</startdate><enddate>20091201</enddate><creator>Yokoyama, Shigetoshi</creator><creator>Ito, Yoshiaki</creator><creator>Ueno-Kudoh, Hiroe</creator><creator>Shimizu, Hirohito</creator><creator>Uchibe, Kenta</creator><creator>Albini, Sonia</creator><creator>Mitsuoka, Kazuhiko</creator><creator>Miyaki, Shigeru</creator><creator>Kiso, Minako</creator><creator>Nagai, Akane</creator><creator>Hikata, Tomohiro</creator><creator>Osada, Tadahiro</creator><creator>Fukuda, Noritsugu</creator><creator>Yamashita, Satoshi</creator><creator>Harada, Daisuke</creator><creator>Mezzano, Valeria</creator><creator>Kasai, Masataka</creator><creator>Puri, Pier Lorenzo</creator><creator>Hayashizaki, Yoshihide</creator><creator>Okado, Haruo</creator><creator>Hashimoto, Megumi</creator><creator>Asahara, Hiroshi</creator><general>Elsevier Inc</general><general>Cell Press</general><scope>6I.</scope><scope>AAFTH</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20091201</creationdate><title>A Systems Approach Reveals that the Myogenesis Genome Network Is Regulated by the Transcriptional Repressor RP58</title><author>Yokoyama, Shigetoshi ; Ito, Yoshiaki ; Ueno-Kudoh, Hiroe ; Shimizu, Hirohito ; Uchibe, Kenta ; Albini, Sonia ; Mitsuoka, Kazuhiko ; Miyaki, Shigeru ; Kiso, Minako ; Nagai, Akane ; Hikata, Tomohiro ; Osada, Tadahiro ; Fukuda, Noritsugu ; Yamashita, Satoshi ; Harada, Daisuke ; Mezzano, Valeria ; Kasai, Masataka ; Puri, Pier Lorenzo ; Hayashizaki, Yoshihide ; Okado, Haruo ; Hashimoto, Megumi ; Asahara, Hiroshi</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c552t-4e84ed635679567c143d9b054803d6b8109ba15642cbbe4eda1f91a90e172cc73</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2009</creationdate><topic>Animals</topic><topic>Biological and medical sciences</topic><topic>Cell differentiation, maturation, development, hematopoiesis</topic><topic>Cell physiology</topic><topic>Cofactors</topic><topic>Computer programs</topic><topic>Data processing</topic><topic>DEVBIO</topic><topic>DNA microarrays</topic><topic>Embryos</topic><topic>Fibroblasts</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gene Knockdown Techniques</topic><topic>Gene Knockout Techniques</topic><topic>Gene regulation</topic><topic>Gene Regulatory Networks</topic><topic>Genomes</topic><topic>Inhibitor of Differentiation Protein 2 - metabolism</topic><topic>Inhibitor of Differentiation Proteins - metabolism</topic><topic>Mice</topic><topic>Molecular and cellular biology</topic><topic>Molecular genetics</topic><topic>Muscle Development</topic><topic>Muscle regulatory factor</topic><topic>Muscle, Skeletal - embryology</topic><topic>MyoD protein</topic><topic>myogenesis</topic><topic>Myogenic Regulatory Factors - genetics</topic><topic>Repressor Proteins - metabolism</topic><topic>Repressors</topic><topic>Transcription</topic><topic>Transcription factors</topic><topic>Transcription. Transcription factor. Splicing. Rna processing</topic><topic>Transfection</topic><topic>Zinc finger proteins</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yokoyama, Shigetoshi</creatorcontrib><creatorcontrib>Ito, Yoshiaki</creatorcontrib><creatorcontrib>Ueno-Kudoh, Hiroe</creatorcontrib><creatorcontrib>Shimizu, Hirohito</creatorcontrib><creatorcontrib>Uchibe, Kenta</creatorcontrib><creatorcontrib>Albini, Sonia</creatorcontrib><creatorcontrib>Mitsuoka, Kazuhiko</creatorcontrib><creatorcontrib>Miyaki, Shigeru</creatorcontrib><creatorcontrib>Kiso, Minako</creatorcontrib><creatorcontrib>Nagai, Akane</creatorcontrib><creatorcontrib>Hikata, Tomohiro</creatorcontrib><creatorcontrib>Osada, Tadahiro</creatorcontrib><creatorcontrib>Fukuda, Noritsugu</creatorcontrib><creatorcontrib>Yamashita, Satoshi</creatorcontrib><creatorcontrib>Harada, Daisuke</creatorcontrib><creatorcontrib>Mezzano, Valeria</creatorcontrib><creatorcontrib>Kasai, Masataka</creatorcontrib><creatorcontrib>Puri, Pier Lorenzo</creatorcontrib><creatorcontrib>Hayashizaki, Yoshihide</creatorcontrib><creatorcontrib>Okado, Haruo</creatorcontrib><creatorcontrib>Hashimoto, Megumi</creatorcontrib><creatorcontrib>Asahara, Hiroshi</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Developmental cell</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yokoyama, Shigetoshi</au><au>Ito, Yoshiaki</au><au>Ueno-Kudoh, Hiroe</au><au>Shimizu, Hirohito</au><au>Uchibe, Kenta</au><au>Albini, Sonia</au><au>Mitsuoka, Kazuhiko</au><au>Miyaki, Shigeru</au><au>Kiso, Minako</au><au>Nagai, Akane</au><au>Hikata, Tomohiro</au><au>Osada, Tadahiro</au><au>Fukuda, Noritsugu</au><au>Yamashita, Satoshi</au><au>Harada, Daisuke</au><au>Mezzano, Valeria</au><au>Kasai, Masataka</au><au>Puri, Pier Lorenzo</au><au>Hayashizaki, Yoshihide</au><au>Okado, Haruo</au><au>Hashimoto, Megumi</au><au>Asahara, Hiroshi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A Systems Approach Reveals that the Myogenesis Genome Network Is Regulated by the Transcriptional Repressor RP58</atitle><jtitle>Developmental cell</jtitle><addtitle>Dev Cell</addtitle><date>2009-12-01</date><risdate>2009</risdate><volume>17</volume><issue>6</issue><spage>836</spage><epage>848</epage><pages>836-848</pages><issn>1534-5807</issn><eissn>1878-1551</eissn><abstract>We created a whole-mount in situ hybridization (WISH) database, termed EMBRYS, containing expression data of 1520 transcription factors and cofactors expressed in E9.5, E10.5, and E11.5 mouse embryos—a highly dynamic stage of skeletal myogenesis. This approach implicated 43 genes in regulation of embryonic myogenesis, including a transcriptional repressor, the zinc-finger protein
RP58 (also known as
Zfp238). Knockout and knockdown approaches confirmed an essential role for
RP58 in skeletal myogenesis. Cell-based high-throughput transfection screening revealed that RP58 is a direct MyoD target. Microarray analysis identified two inhibitors of skeletal myogenesis,
Id2 and
Id3, as targets for RP58-mediated repression. Consistently, MyoD-dependent activation of the myogenic program is impaired in
RP58 null fibroblasts and downregulation of
Id2 and
Id3 rescues MyoD's ability to promote myogenesis in these cells. Our combined, multi-system approach reveals a MyoD-activated regulatory loop relying on RP58-mediated repression of muscle regulatory factor (MRF) inhibitors.</abstract><cop>Cambridge, MA</cop><pub>Elsevier Inc</pub><pmid>20059953</pmid><doi>10.1016/j.devcel.2009.10.011</doi><tpages>13</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
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| ispartof | Developmental cell, 2009-12, Vol.17 (6), p.836-848 |
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| source | MEDLINE; Cell Press Free Archives; Elsevier ScienceDirect Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals |
| subjects | Animals Biological and medical sciences Cell differentiation, maturation, development, hematopoiesis Cell physiology Cofactors Computer programs Data processing DEVBIO DNA microarrays Embryos Fibroblasts Fundamental and applied biological sciences. Psychology Gene Knockdown Techniques Gene Knockout Techniques Gene regulation Gene Regulatory Networks Genomes Inhibitor of Differentiation Protein 2 - metabolism Inhibitor of Differentiation Proteins - metabolism Mice Molecular and cellular biology Molecular genetics Muscle Development Muscle regulatory factor Muscle, Skeletal - embryology MyoD protein myogenesis Myogenic Regulatory Factors - genetics Repressor Proteins - metabolism Repressors Transcription Transcription factors Transcription. Transcription factor. Splicing. Rna processing Transfection Zinc finger proteins |
| title | A Systems Approach Reveals that the Myogenesis Genome Network Is Regulated by the Transcriptional Repressor RP58 |
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