Ontology type: schema:ScholarlyArticle Open Access: True
2018-12
AUTHORSZheng Hu, Zhaoying Shi, Xiaogang Guo, Baishan Jiang, Guo Wang, Dixian Luo, Yonglong Chen, Yuan-Shan Zhu
ABSTRACTBackground: Precise genome editing is essential for both basic and translational research. The recently developed CRISPR/Cas9 system can specifically cleave a designated site of target gene to create a DNA double-strand break, which triggers cellular DNA repair mechanism of either inaccurate non-homologous end joining, or site-specific homologous recombination. Unfortunately, homology-directed repair (HDR) is challenging due to its very low efficiency. Herein, we focused on improving the efficiency of HDR using a combination of CRISPR/Cas9, eGFP, DNA ligase IV inhibitor SCR7, and single-stranded oligodeoxynucleotides (ssODN) in human cancer cells. Results: When Cas9, gRNA and eGFP were assembled into a co-expression vector, the disruption rate more than doubled following GFP-positive cell sorting in transfected cells compared to those unsorted cells. Using ssODNs as templates, SCR7 treatment increased targeted insertion efficiency threefold in transfected cells compared to those without SCR7 treatment. Moreover, this combinatorial approach greatly improved the efficiency of HDR and targeted gene mutation correction at both the GFP-silent mutation and the β-catenin Ser45 deletion mutation cells. Conclusion: The data of this study suggests that a combination of co-expression vector, ssODN, and ligase IV inhibitor can markedly improve the CRISPR/Cas9-directed gene editing, which should have significant application in targeted gene editing and genetic disease therapy. More... »
PAGES12
http://scigraph.springernature.com/pub.10.1186/s13578-018-0200-z
DOIhttp://dx.doi.org/10.1186/s13578-018-0200-z
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1101102469
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/29468011
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/2008/0604",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Genetics",
"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"
}
],
"author": [
{
"affiliation": {
"alternateName": "Chenzhou First People's Hospital",
"id": "https://www.grid.ac/institutes/grid.459429.7",
"name": [
"Department of Clinical Pharmacology, Xiangya Hospital, Central South University, 410078, Changsha, Hunan, China",
"Translational Medicine Institute, National and Local Joint Engineering Laboratory for High-through Molecular Diagnosis Technology, The First People\u2019s Hospital of Chenzhou, 432000, Chenzhou, Hunan, China"
],
"type": "Organization"
},
"familyName": "Hu",
"givenName": "Zheng",
"id": "sg:person.01045763207.20",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01045763207.20"
],
"type": "Person"
},
{
"affiliation": {
"name": [
"Department of Biology, Guangdong Provincial Key Laboratory of Cell Microenvironment and Disease Research, Shenzhen Key Laboratory of Cell Microenvironment, Southern University of Science and Technology, 518055, Shenzhen, Guangdong, China"
],
"type": "Organization"
},
"familyName": "Shi",
"givenName": "Zhaoying",
"id": "sg:person.01126437065.35",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01126437065.35"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Guangzhou Institutes of Biomedicine and Health",
"id": "https://www.grid.ac/institutes/grid.428926.3",
"name": [
"Key Laboratory of Regenerative Biology, South China Institute for Stem Cell Biology and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, 510530, Guangzhou, Guangdong, China"
],
"type": "Organization"
},
"familyName": "Guo",
"givenName": "Xiaogang",
"id": "sg:person.0673004426.25",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0673004426.25"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Guangzhou Institutes of Biomedicine and Health",
"id": "https://www.grid.ac/institutes/grid.428926.3",
"name": [
"Institute of Chemical Biology, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, 510530, Guangzhou, Guangdong, China"
],
"type": "Organization"
},
"familyName": "Jiang",
"givenName": "Baishan",
"id": "sg:person.012142116255.48",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012142116255.48"
],
"type": "Person"
},
{
"affiliation": {
"name": [
"Department of Clinical Pharmacology, Xiangya Hospital, Central South University, 410078, Changsha, Hunan, China"
],
"type": "Organization"
},
"familyName": "Wang",
"givenName": "Guo",
"type": "Person"
},
{
"affiliation": {
"alternateName": "Chenzhou First People's Hospital",
"id": "https://www.grid.ac/institutes/grid.459429.7",
"name": [
"Translational Medicine Institute, National and Local Joint Engineering Laboratory for High-through Molecular Diagnosis Technology, The First People\u2019s Hospital of Chenzhou, 432000, Chenzhou, Hunan, China"
],
"type": "Organization"
},
"familyName": "Luo",
"givenName": "Dixian",
"id": "sg:person.012667677537.60",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012667677537.60"
],
"type": "Person"
},
{
"affiliation": {
"name": [
"Department of Biology, Guangdong Provincial Key Laboratory of Cell Microenvironment and Disease Research, Shenzhen Key Laboratory of Cell Microenvironment, Southern University of Science and Technology, 518055, Shenzhen, Guangdong, China"
],
"type": "Organization"
},
"familyName": "Chen",
"givenName": "Yonglong",
"id": "sg:person.0742360372.79",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0742360372.79"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Cornell University",
"id": "https://www.grid.ac/institutes/grid.5386.8",
"name": [
"Department of Clinical Pharmacology, Xiangya Hospital, Central South University, 410078, Changsha, Hunan, China",
"Department of Medicine, Weill Cornell Medical College, 10065, New York, NY, USA"
],
"type": "Organization"
},
"familyName": "Zhu",
"givenName": "Yuan-Shan",
"id": "sg:person.01112564320.17",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01112564320.17"
],
"type": "Person"
}
],
"citation": [
{
"id": "sg:pub.10.1038/cr.2007.111",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1000477639",
"https://doi.org/10.1038/cr.2007.111"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2012.11.054",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002867074"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.94.19.10330",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004335598"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1161/circresaha.117.306290",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004482365"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1161/circresaha.117.306290",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004482365"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/s1535-6108(03)00339-8",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004823496"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1242/dev.099853",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005226398"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2012.05.012",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005670808"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/cr.2013.45",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006654084",
"https://doi.org/10.1038/cr.2013.45"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/cr.2013.45",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006654084",
"https://doi.org/10.1038/cr.2013.45"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1247005",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007966801"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1247005",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007966801"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.stem.2013.10.016",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008524552"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nbt.3198",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008895789",
"https://doi.org/10.1038/nbt.3198"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.aad5725",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009619254"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.91.13.6064",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009846907"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/srep22847",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011671647",
"https://doi.org/10.1038/srep22847"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.0810475105",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011730313"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0077206",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011804731"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/febs.13416",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1012866076"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2013.04.025",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013935649"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/srep34524",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014694847",
"https://doi.org/10.1038/srep34524"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nbt.3190",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1017538548",
"https://doi.org/10.1038/nbt.3190"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0020159",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018478650"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.1202768109",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018658024"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/srep34531",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018698052",
"https://doi.org/10.1038/srep34531"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg2842",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018939216",
"https://doi.org/10.1038/nrg2842"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg2842",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018939216",
"https://doi.org/10.1038/nrg2842"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1231143",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019873131"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1232033",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1022072971"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1146/annurev.biochem.052308.093131",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1022097335"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.aad5177",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023285180"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/23.24.5012",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024116167"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/srep20070",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024675113",
"https://doi.org/10.1038/srep20070"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nbt.2501",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024988605",
"https://doi.org/10.1038/nbt.2501"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.stem.2013.11.002",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027005875"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s00018-015-2128-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027206277",
"https://doi.org/10.1007/s00018-015-2128-3"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1006/plas.1997.1305",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1033361782"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1096/fj.15-273425",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1033971060"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2013.08.022",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034724285"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/cr.2013.46",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038811201",
"https://doi.org/10.1038/cr.2013.46"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg1619",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038970728",
"https://doi.org/10.1038/nrg1619"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrg1619",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038970728",
"https://doi.org/10.1038/nrg1619"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/cr.2008.1",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040825790",
"https://doi.org/10.1038/cr.2008.1"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nbt.2507",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1041881936",
"https://doi.org/10.1038/nbt.2507"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1002/jgm.1639",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042880384"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0006257",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043342817"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1246981",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043810806"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1246981",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043810806"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/978-1-4939-4035-6_15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043854580",
"https://doi.org/10.1007/978-1-4939-4035-6_15"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1080/15476286.2016.1185591",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045115698"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/978-1-60761-753-2_15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045832829",
"https://doi.org/10.1007/978-1-60761-753-2_15"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/978-1-60761-753-2_15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045832829",
"https://doi.org/10.1007/978-1-60761-753-2_15"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.aad5143",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045913940"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth.1653",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1046255083",
"https://doi.org/10.1038/nmeth.1653"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gr.145441.112",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047221664"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2011.06.019",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1052083829"
],
"type": "CreativeWork"
}
],
"datePublished": "2018-12",
"datePublishedReg": "2018-12-01",
"description": "Background: Precise genome editing is essential for both basic and translational research. The recently developed CRISPR/Cas9 system can specifically cleave a designated site of target gene to create a DNA double-strand break, which triggers cellular DNA repair mechanism of either inaccurate non-homologous end joining, or site-specific homologous recombination. Unfortunately, homology-directed repair (HDR) is challenging due to its very low efficiency. Herein, we focused on improving the efficiency of HDR using a combination of CRISPR/Cas9, eGFP, DNA ligase IV inhibitor SCR7, and single-stranded oligodeoxynucleotides (ssODN) in human cancer cells.\nResults: When Cas9, gRNA and eGFP were assembled into a co-expression vector, the disruption rate more than doubled following GFP-positive cell sorting in transfected cells compared to those unsorted cells. Using ssODNs as templates, SCR7 treatment increased targeted insertion efficiency threefold in transfected cells compared to those without SCR7 treatment. Moreover, this combinatorial approach greatly improved the efficiency of HDR and targeted gene mutation correction at both the GFP-silent mutation and the \u03b2-catenin Ser45 deletion mutation cells.\nConclusion: The data of this study suggests that a combination of co-expression vector, ssODN, and ligase IV inhibitor can markedly improve the CRISPR/Cas9-directed gene editing, which should have significant application in targeted gene editing and genetic disease therapy.",
"genre": "research_article",
"id": "sg:pub.10.1186/s13578-018-0200-z",
"inLanguage": [
"en"
],
"isAccessibleForFree": true,
"isPartOf": [
{
"id": "sg:journal.1045176",
"issn": [
"2045-3701"
],
"name": "Cell & Bioscience",
"type": "Periodical"
},
{
"issueNumber": "1",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "8"
}
],
"name": "Ligase IV inhibitor SCR7 enhances gene editing directed by CRISPR\u2013Cas9 and ssODN in human cancer cells",
"pagination": "12",
"productId": [
{
"name": "readcube_id",
"type": "PropertyValue",
"value": [
"001d64bf0546255f7aaaf75a0fcefe23733d0051f67b420a2554bf66a22d6e37"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"29468011"
]
},
{
"name": "nlm_unique_id",
"type": "PropertyValue",
"value": [
"101561195"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1186/s13578-018-0200-z"
]
},
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1101102469"
]
}
],
"sameAs": [
"https://doi.org/10.1186/s13578-018-0200-z",
"https://app.dimensions.ai/details/publication/pub.1101102469"
],
"sdDataset": "articles",
"sdDatePublished": "2019-04-11T09:14",
"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/v90/0000000338_0000000338/records_47995_00000002.jsonl",
"type": "ScholarlyArticle",
"url": "https://link.springer.com/10.1186%2Fs13578-018-0200-z"
}
]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.10.1186/s13578-018-0200-z'
N-Triples is a line-based linked data format ideal for batch operations.
curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/s13578-018-0200-z'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/s13578-018-0200-z'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/s13578-018-0200-z'
This table displays all metadata directly associated to this object as RDF triples.
299 TRIPLES
21 PREDICATES
79 URIs
21 LITERALS
9 BLANK NODES