Ontology type: schema:ScholarlyArticle Open Access: True
2010-08
AUTHORSShinsuke Ito, Ana C. D’Alessio, Olena V. Taranova, Kwonho Hong, Lawrence C. Sowers, Yi Zhang
ABSTRACTDNA methylation is one of the best-characterized epigenetic modifications. Although the enzymes that catalyse DNA methylation have been characterized, enzymes responsible for demethylation have been elusive. A recent study indicates that the human TET1 protein could catalyse the conversion of 5-methylcytosine (5mC) of DNA to 5-hydroxymethylcytosine (5hmC), raising the possibility that DNA demethylation may be a Tet1-mediated process. Here we extend this study by demonstrating that all three mouse Tet proteins (Tet1, Tet2 and Tet3) can also catalyse a similar reaction. Tet1 has an important role in mouse embryonic stem (ES) cell maintenance through maintaining the expression of Nanog in ES cells. Downregulation of Nanog via Tet1 knockdown correlates with methylation of the Nanog promoter, supporting a role for Tet1 in regulating DNA methylation status. Furthermore, knockdown of Tet1 in pre-implantation embryos results in a bias towards trophectoderm differentiation. Thus, our studies not only uncover the enzymatic activity of the Tet proteins, but also demonstrate a role for Tet1 in ES cell maintenance and inner cell mass cell specification. More... »
PAGES1129
http://scigraph.springernature.com/pub.10.1038/nature09303
DOIhttp://dx.doi.org/10.1038/nature09303
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1028926361
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/20639862
JSON-LD is the canonical representation for SciGraph data.
TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT
[
{
"@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json",
"about": [
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0601",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Biochemistry and Cell Biology",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Biological Sciences",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "5-Methylcytosine",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Alkaline Phosphatase",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Animals",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Blastocyst Inner Cell Mass",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Cell Proliferation",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Cytosine",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "DNA-Binding Proteins",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Embryonic Stem Cells",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Gene Expression Regulation, Developmental",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Gene Knockdown Techniques",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Homeodomain Proteins",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Mice",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Nanog Homeobox Protein",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Proto-Oncogene Proteins",
"type": "DefinedTerm"
}
],
"author": [
{
"affiliation": {
"alternateName": "University of North Carolina at Chapel Hill",
"id": "https://www.grid.ac/institutes/grid.10698.36",
"name": [
"Howard Hughes Medical Institute,",
"Department of Biochemistry and Biophysics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7295, USA"
],
"type": "Organization"
},
"familyName": "Ito",
"givenName": "Shinsuke",
"id": "sg:person.014365634227.11",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014365634227.11"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of North Carolina at Chapel Hill",
"id": "https://www.grid.ac/institutes/grid.10698.36",
"name": [
"Howard Hughes Medical Institute,",
"Department of Biochemistry and Biophysics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7295, USA"
],
"type": "Organization"
},
"familyName": "D\u2019Alessio",
"givenName": "Ana C.",
"id": "sg:person.0633174765.37",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0633174765.37"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of North Carolina at Chapel Hill",
"id": "https://www.grid.ac/institutes/grid.10698.36",
"name": [
"Howard Hughes Medical Institute,",
"Department of Biochemistry and Biophysics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7295, USA"
],
"type": "Organization"
},
"familyName": "Taranova",
"givenName": "Olena V.",
"id": "sg:person.01310465665.43",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01310465665.43"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of North Carolina at Chapel Hill",
"id": "https://www.grid.ac/institutes/grid.10698.36",
"name": [
"Howard Hughes Medical Institute,",
"Department of Biochemistry and Biophysics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7295, USA"
],
"type": "Organization"
},
"familyName": "Hong",
"givenName": "Kwonho",
"id": "sg:person.01236552707.39",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01236552707.39"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Loma Linda University",
"id": "https://www.grid.ac/institutes/grid.43582.38",
"name": [
"Department of Basic Sciences, Loma Linda University School of Medicine, Loma Linda, California 92350, USA"
],
"type": "Organization"
},
"familyName": "Sowers",
"givenName": "Lawrence C.",
"id": "sg:person.01170725547.80",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01170725547.80"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of North Carolina at Chapel Hill",
"id": "https://www.grid.ac/institutes/grid.10698.36",
"name": [
"Howard Hughes Medical Institute,",
"Department of Biochemistry and Biophysics, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7295, USA"
],
"type": "Organization"
},
"familyName": "Zhang",
"givenName": "Yi",
"id": "sg:person.015533713660.59",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015533713660.59"
],
"type": "Person"
}
],
"citation": [
{
"id": "https://doi.org/10.1016/s0006-291x(88)80489-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1003152957"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1170116",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004667708"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-2443.2006.00984.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005500322"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/s0960-9822(00)00448-6",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008449886"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2007.02.010",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011587700"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/22.15.2990",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013818512"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature08732",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014852853",
"https://doi.org/10.1038/nature08732"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature08732",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014852853",
"https://doi.org/10.1038/nature08732"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ni887",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015012908",
"https://doi.org/10.1038/ni887"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ni887",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015012908",
"https://doi.org/10.1038/ni887"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1634/stemcells.2006-0813",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019108901"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature06403",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1020501792",
"https://doi.org/10.1038/nature06403"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature08829",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021451085",
"https://doi.org/10.1038/nature08829"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature08829",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021451085",
"https://doi.org/10.1038/nature08829"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/25.3.553",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1026811757"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg2540",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027423279",
"https://doi.org/10.1038/nrg2540"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg2540",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027423279",
"https://doi.org/10.1038/nrg2540"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nsmb.1499",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1030165831",
"https://doi.org/10.1038/nsmb.1499"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gad.947102",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1030570608"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg2295",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038115678",
"https://doi.org/10.1038/nrg2295"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/mcb.24.20.8862-8871.2004",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1041763929"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature04915",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042927160",
"https://doi.org/10.1038/nature04915"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature04915",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042927160",
"https://doi.org/10.1038/nature04915"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature04915",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042927160",
"https://doi.org/10.1038/nature04915"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature04915",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042927160",
"https://doi.org/10.1038/nature04915"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gad.11.16.2124",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043499411"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/35000656",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047334872",
"https://doi.org/10.1038/35000656"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/35000656",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047334872",
"https://doi.org/10.1038/35000656"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2008.06.009",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1048490793"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-2443.2007.01058.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049202099"
],
"type": "CreativeWork"
}
],
"datePublished": "2010-08",
"datePublishedReg": "2010-08-01",
"description": "DNA methylation is one of the best-characterized epigenetic modifications. Although the enzymes that catalyse DNA methylation have been characterized, enzymes responsible for demethylation have been elusive. A recent study indicates that the human TET1 protein could catalyse the conversion of 5-methylcytosine (5mC) of DNA to 5-hydroxymethylcytosine (5hmC), raising the possibility that DNA demethylation may be a Tet1-mediated process. Here we extend this study by demonstrating that all three mouse Tet proteins (Tet1, Tet2 and Tet3) can also catalyse a similar reaction. Tet1 has an important role in mouse embryonic stem (ES) cell maintenance through maintaining the expression of Nanog in ES cells. Downregulation of Nanog via Tet1 knockdown correlates with methylation of the Nanog promoter, supporting a role for Tet1 in regulating DNA methylation status. Furthermore, knockdown of Tet1 in pre-implantation embryos results in a bias towards trophectoderm differentiation. Thus, our studies not only uncover the enzymatic activity of the Tet proteins, but also demonstrate a role for Tet1 in ES cell maintenance and inner cell mass cell specification.",
"genre": "research_article",
"id": "sg:pub.10.1038/nature09303",
"inLanguage": [
"en"
],
"isAccessibleForFree": true,
"isFundedItemOf": [
{
"id": "sg:grant.2518064",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.2474695",
"type": "MonetaryGrant"
}
],
"isPartOf": [
{
"id": "sg:journal.1018957",
"issn": [
"0090-0028",
"1476-4687"
],
"name": "Nature",
"type": "Periodical"
},
{
"issueNumber": "7310",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "466"
}
],
"name": "Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification",
"pagination": "1129",
"productId": [
{
"name": "readcube_id",
"type": "PropertyValue",
"value": [
"89cc4bdf66fe214c853ae2b1500f0a3827be410950bdd192cad6f61205adfeae"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"20639862"
]
},
{
"name": "nlm_unique_id",
"type": "PropertyValue",
"value": [
"0410462"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1038/nature09303"
]
},
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1028926361"
]
}
],
"sameAs": [
"https://doi.org/10.1038/nature09303",
"https://app.dimensions.ai/details/publication/pub.1028926361"
],
"sdDataset": "articles",
"sdDatePublished": "2019-04-10T16:30",
"sdLicense": "https://scigraph.springernature.com/explorer/license/",
"sdPublisher": {
"name": "Springer Nature - SN SciGraph project",
"type": "Organization"
},
"sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8669_00000434.jsonl",
"type": "ScholarlyArticle",
"url": "https://www.nature.com/articles/nature09303"
}
]
Download the RDF metadata as: json-ld nt turtle xml License info
JSON-LD is a popular format for linked data which is fully compatible with JSON.
curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/nature09303'
N-Triples is a line-based linked data format ideal for batch operations.
curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/nature09303'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nature09303'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nature09303'
This table displays all metadata directly associated to this object as RDF triples.
243 TRIPLES
21 PREDICATES
65 URIs
35 LITERALS
23 BLANK NODES