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"abstractNote": "Targeted genome engineering has been described as a “game-changing technology” for fields as diverse as human genetics and plant biotechnology. One technique used for precise gene editing utilises the CRISPR-Cas system and is an effective method for genetic engineering in a wide variety of plants. However, many researchers remain unaware of both the technical challenges that emerge when using this technique or of its potential benefits. Therefore in September 2015, GARNet and OpenPlant organized a two-day workshop at the John Innes Centre that provided both background information and hands-on training for this important technology.", "publicationTitle": "Plant Methods", "publisher": "", "place": "", "date": "2016", "volume": "12", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "6", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Plant Methods", "DOI": "10.1186/s13007-016-0104-z", "citationKey": "", "url": "http://dx.doi.org/10.1186/s13007-016-0104-z", "accessDate": "2016-04-28T14:13:57Z", "PMID": "", "PMCID": "", "ISSN": "1746-4811", "archive": "", "archiveLocation": "", "shortTitle": "Meeting report", "language": "", "libraryCatalog": "BioMed Central", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "CRISPR", "type": 1 }, { "tag": "Cas9", "type": 1 }, { "tag": "Gene Editing", "type": 1 }, { "tag": "Genetic Engineering", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2016-04-28T14:13:57Z", "dateModified": "2016-04-28T14:13:57Z" } }, { "key": "6P584TJE", "version": 7, "library": { "type": "group", "id": 520319, "name": "OpenPlant", "links": { "alternate": { "href": "https://www.zotero.org/groups/openplant", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/520319/items/6P584TJE", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/openplant/items/6P584TJE", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/520319/items/NP7CGDV5", "type": "application/json" } }, "meta": { "createdByUser": { "id": 2446065, "username": "openplant", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/openplant", "type": "text/html" } } } }, "data": { "key": "6P584TJE", "version": 7, "parentItem": "NP7CGDV5", "itemType": "attachment", "linkMode": "imported_url", "title": "Snapshot", "accessDate": "2016-04-28T14:13:02Z", "url": "https://pag.confex.com/pag/xxiii/webprogram/Paper14425.html", "note": "", "contentType": "text/html", "charset": "windows-1252", "filename": "Paper14425.html", "md5": "438ab51732b9a04e02873f00279c6964", "mtime": 1461852781000, "tags": [], "relations": {}, "dateAdded": "2016-04-28T14:13:02Z", "dateModified": "2016-04-28T14:13:02Z" } }, { "key": "FUHDW76Q", "version": 7, "library": { "type": "group", "id": 520319, "name": "OpenPlant", "links": { "alternate": { "href": "https://www.zotero.org/groups/openplant", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/520319/items/FUHDW76Q", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/openplant/items/FUHDW76Q", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/520319/items/8CECDFK8", "type": "application/json" } }, "meta": { "createdByUser": { "id": 2446065, "username": "openplant", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/openplant", "type": "text/html" } } }, "numChildren": 0 }, "data": { "key": "FUHDW76Q", "version": 7, "parentItem": "8CECDFK8", "itemType": "attachment", "linkMode": "imported_url", "title": "Full Text PDF", "accessDate": "2016-04-28T14:12:52Z", "url": "http://onlinelibrary.wiley.com/doi/10.1111/nph.13532/pdf", "note": "", "contentType": "application/pdf", "charset": "", "filename": "Patron et al. - 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R.", "lastName": "Webb" }, { "creatorType": "author", "firstName": "James", "lastName": "Locke" }, { "creatorType": "author", "firstName": "Sebastian", "lastName": "Schornack" }, { "creatorType": "author", "firstName": "Jim", "lastName": "Ajioka" }, { "creatorType": "author", "firstName": "David C.", "lastName": "Baulcombe" }, { "creatorType": "author", "firstName": "Cyril", "lastName": "Zipfel" }, { "creatorType": "author", "firstName": "Sophien", "lastName": "Kamoun" }, { "creatorType": "author", "firstName": "Jonathan D. G.", "lastName": "Jones" }, { "creatorType": "author", "firstName": "Hannah", "lastName": "Kuhn" }, { "creatorType": "author", "firstName": "Silke", "lastName": "Robatzek" }, { "creatorType": "author", "firstName": "H. Peter", "lastName": "Van Esse" }, { "creatorType": "author", "firstName": "Dale", "lastName": "Sanders" }, { "creatorType": "author", "firstName": "Giles", "lastName": "Oldroyd" }, { "creatorType": "author", "firstName": "Cathie", "lastName": "Martin" }, { "creatorType": "author", "firstName": "Rob", "lastName": "Field" }, { "creatorType": "author", "firstName": "Sarah", "lastName": "O'Connor" }, { "creatorType": "author", "firstName": "Samantha", "lastName": "Fox" }, { "creatorType": "author", "firstName": "Brande", "lastName": "Wulff" }, { "creatorType": "author", "firstName": "Ben", "lastName": "Miller" }, { "creatorType": "author", "firstName": "Andy", "lastName": "Breakspear" }, { "creatorType": "author", "firstName": "Guru", "lastName": "Radhakrishnan" }, { "creatorType": "author", "firstName": "Pierre-Marc", "lastName": "Delaux" }, { "creatorType": "author", "firstName": "Dominique", "lastName": "Loqué" }, { "creatorType": "author", "firstName": "Antonio", "lastName": "Granell" }, { "creatorType": "author", "firstName": "Alain", "lastName": "Tissier" }, { "creatorType": "author", "firstName": "Patrick", "lastName": "Shih" }, { "creatorType": "author", "firstName": "Thomas P.", "lastName": "Brutnell" }, { "creatorType": "author", "firstName": "W. Paul", "lastName": "Quick" }, { "creatorType": "author", "firstName": "Heiko", "lastName": "Rischer" }, { "creatorType": "author", "firstName": "Paul D.", "lastName": "Fraser" }, { "creatorType": "author", "firstName": "Asaph", "lastName": "Aharoni" }, { "creatorType": "author", "firstName": "Christine", "lastName": "Raines" }, { "creatorType": "author", "firstName": "Paul F.", "lastName": "South" }, { "creatorType": "author", "firstName": "Jean-Michel", "lastName": "Ané" }, { "creatorType": "author", "firstName": "Björn R.", "lastName": "Hamberger" }, { "creatorType": "author", "firstName": "Jane", "lastName": "Langdale" }, { "creatorType": "author", "firstName": "Jens", "lastName": "Stougaard" }, { "creatorType": "author", "firstName": "Harro", "lastName": "Bouwmeester" }, { "creatorType": "author", "firstName": "Michael", "lastName": "Udvardi" }, { "creatorType": "author", "firstName": "James A. H.", "lastName": "Murray" }, { "creatorType": "author", "firstName": "Vardis", "lastName": "Ntoukakis" }, { "creatorType": "author", "firstName": "Patrick", "lastName": "Schäfer" }, { "creatorType": "author", "firstName": "Katherine", "lastName": "Denby" }, { "creatorType": "author", "firstName": "Keith J.", "lastName": "Edwards" }, { "creatorType": "author", "firstName": "Anne", "lastName": "Osbourn" }, { "creatorType": "author", "firstName": "Jim", "lastName": "Haseloff" } ], "abstractNote": "Inventors in the field of mechanical and electronic engineering can access multitudes of components and, thanks to standardization, parts from different manufacturers can be used in combination with each other. The introduction of BioBrick standards for the assembly of characterized DNA sequences was a landmark in microbial engineering, shaping the field of synthetic biology. Here, we describe a standard for Type IIS restriction endonuclease-mediated assembly, defining a common syntax of 12 fusion sites to enable the facile assembly of eukaryotic transcriptional units. This standard has been developed and agreed by representatives and leaders of the international plant science and synthetic biology communities, including inventors, developers and adopters of Type IIS cloning methods. Our vision is of an extensive catalogue of standardized, characterized DNA parts that will accelerate plant bioengineering.", "publicationTitle": "New Phytologist", "publisher": "", "place": "", "date": "October 1, 2015", "volume": "208", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "13-19", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "New Phytol", "DOI": "10.1111/nph.13532", "citationKey": "", "url": "http://onlinelibrary.wiley.com/doi/10.1111/nph.13532/abstract", "accessDate": "2016-04-28T14:12:52Z", "PMID": "", "PMCID": "", "ISSN": "1469-8137", "archive": "", "archiveLocation": "", "shortTitle": "Standards for plant synthetic biology", "language": "en", "libraryCatalog": "Wiley Online Library", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "DNA assembly", "type": 1 }, { "tag": "GoldenGate", "type": 1 }, { "tag": "Type IIS restriction endonucleases", "type": 1 }, { "tag": "cloning", "type": 1 }, { "tag": "genetic syntax", "type": 1 }, { "tag": "synthetic biology", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2016-04-28T14:12:52Z", "dateModified": "2016-04-28T14:12:52Z" } }, { "key": "R87KDSXE", "version": 5, "library": { "type": "group", "id": 520319, "name": "OpenPlant", "links": { "alternate": { "href": "https://www.zotero.org/groups/openplant", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/520319/items/R87KDSXE", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/openplant/items/R87KDSXE", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/520319/items/FE47P3UZ", "type": "application/json" } }, "meta": { "createdByUser": { "id": 2446065, "username": "openplant", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/openplant", "type": "text/html" } } }, "numChildren": 0 }, "data": { "key": "R87KDSXE", "version": 5, "parentItem": "FE47P3UZ", "itemType": "attachment", "linkMode": "imported_url", "title": "Full Text PDF", "accessDate": "2016-04-28T14:11:35Z", "url": "http://pcp.oxfordjournals.org/content/57/2/291.full.pdf", "note": "", "contentType": "application/pdf", "charset": "", "filename": "Boehm et al. - 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Its ease of handling, well-characterized plastome and proven protocols for biolistic plastid transformation qualify M. polymorpha as an attractive platform to study the evolution of chloroplasts during the transition from water to land. In addition, chloroplasts of M. polymorpha provide a convenient test-bed for the characterization of genetic elements involved in plastid gene expression due to the absence of mechanisms for RNA editing. While reporter genes have proven valuable to the qualitative and quantitative study of gene expression in chloroplasts, expression of green fluorescent protein (GFP) in chloroplasts of M. polymorpha has proven problematic. We report the design of a codon-optimized gfp varian, mturq2cp, which allowed successful expression of a cyan fluorescent protein under control of the tobacco psbA promoter from the chloroplast genome of M. polymorpha. We demonstrate the utility of mturq2cp in (i) early screening for transplastomic events following biolistic transformation of M. polymorpha spores; (ii) visualization of stromules as elements of plastid structure in Marchantia; and (iii) quantitative microscopy for the analysis of promoter activity.", "publicationTitle": "Plant and Cell Physiology", "publisher": "", "place": "", "date": "02/01/2016", "volume": "57", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "291-299", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "Plant Cell Physiol", "DOI": "10.1093/pcp/pcv160", "citationKey": "", "url": "http://pcp.oxfordjournals.org/content/57/2/291", "accessDate": "2016-04-28T14:11:35Z", "PMID": "26634291", "PMCID": "", "ISSN": "0032-0781, 1471-9053", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "en", "libraryCatalog": "pcp.oxfordjournals.org", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "Chloroplast", "type": 1 }, { "tag": "Codon bias", "type": 1 }, { "tag": "GFP", "type": 1 }, { "tag": "Marchantia polymorpha", "type": 1 }, { "tag": "Reporter gene", "type": 1 }, { "tag": "Stromules", "type": 1 } ], "collections": [], "relations": {}, "dateAdded": "2016-04-28T14:11:35Z", "dateModified": "2016-04-28T14:11:35Z" } }, { "key": "8MSJDKPQ", "version": 4, "library": { "type": "group", "id": 520319, "name": "OpenPlant", "links": { "alternate": { "href": "https://www.zotero.org/groups/openplant", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/520319/items/8MSJDKPQ", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/openplant/items/8MSJDKPQ", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/520319/items/FE47P3UZ", "type": "application/json" } }, "meta": { "createdByUser": { "id": 2446065, "username": "openplant", "name": "", "links": { "alternate": { "href": "https://www.zotero.org/openplant", "type": "text/html" } } } }, "data": { "key": "8MSJDKPQ", "version": 4, "parentItem": "FE47P3UZ", "itemType": "attachment", "linkMode": "linked_url", "title": "PubMed entry", "accessDate": "2016-04-28T14:11:35Z", "url": "http://www.ncbi.nlm.nih.gov/pubmed/26634291", "note": "", "contentType": "text/html", "charset": "", "tags": [], "relations": {}, "dateAdded": "2016-04-28T14:11:35Z", "dateModified": "2016-04-28T14:11:35Z" } } ]