{"data":{"id":"10.6084/m9.figshare.1404944","type":"dois","attributes":{"doi":"10.6084/m9.figshare.1404944","prefix":"10.6084","suffix":"m9.figshare.1404944","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Ikenaga, Makoto","nameType":"Personal","givenName":"Makoto","familyName":"Ikenaga","affiliation":[],"nameIdentifiers":[]},{"name":"Tabuchi, Masakazu","nameType":"Personal","givenName":"Masakazu","familyName":"Tabuchi","affiliation":[],"nameIdentifiers":[]},{"name":"Oyama, Takuya","nameType":"Personal","givenName":"Takuya","familyName":"Oyama","affiliation":[],"nameIdentifiers":[]},{"name":"Akagi, Isao","nameType":"Personal","givenName":"Isao","familyName":"Akagi","affiliation":[],"nameIdentifiers":[]},{"name":"Sakai, Masao","nameType":"Personal","givenName":"Masao","familyName":"Sakai","affiliation":[],"nameIdentifiers":[]}],"titles":[{"title":"Development of LNA oligonucleotide–PCR clamping technique in investigating the community structures of plant-associated bacteria"}],"publisher":"Taylor \u0026 Francis","container":{},"publicationYear":2015,"subjects":[{"subject":"Plant Biology"},{"subject":"FOS: Biological sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Biological sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"110309 Infectious Diseases","subjectScheme":"FOR"},{"subject":"FOS: Health sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Health sciences","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"Biological Sciences"},{"subject":"Ecology"},{"subject":"Earth and Environmental Sciences"},{"subject":"Biotechnology"},{"subject":"Molecular Biology"},{"subject":"Microbiology"},{"subject":"Biochemistry"}],"contributors":[],"dates":[{"date":"2015-05-06","dateType":"Created"},{"date":"2015-12-03","dateType":"Updated"},{"date":"2015","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[{"relationType":"IsSupplementTo","relatedIdentifier":"10.1080/09168451.2015.1038213","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["72704 Bytes"],"formats":[],"version":null,"rightsList":[{"rights":"Creative Commons Attribution 4.0 International","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc-by-4.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"Simultaneous extraction of plant organelle (mitochondria and plastid) genes during the DNA extraction step is major limitation in investigating the community structures of plant-associated bacteria. Although locked nucleic acid (LNA) oligonucleotides was designed to selectively amplify the bacterial small subunit rRNA genes by applying the PCR clamping technique, those for plastids were applicable only for particular plants, while those for mitochondria were available throughout most plants. To widen the applicable range, new LNA oligonucleotides specific for plastids were designed, and the efficacy was investigated. PCR without LNA oligonucleotides predominantly amplified the organelle genes, while bacterial genes were predominantly observed in having applied the LNA oligonucleotides. Denaturing gradient gel electrophoresis (DGGE) analysis displayed additional bacterial DGGE bands, the amplicons of which were prepared using the LNA oligonucleotides. Thus, new designed LNA oligonucleotides specific for plastids were effective and have widened the scope in investigating the community structures of plant-associated bacteria.","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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","url":"https://tandf.figshare.com/articles/dataset/Development_of_LNA_oligonucleotide_8211_PCR_clamping_technique_in_investigating_the_community_structures_of_plant_associated_bacteria/1404944","contentUrl":null,"metadataVersion":3,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"mds","isActive":true,"state":"findable","reason":null,"viewCount":0,"viewsOverTime":[],"downloadCount":0,"downloadsOverTime":[],"referenceCount":0,"citationCount":0,"citationsOverT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