Transcriptome analysis and development of SSR markers of ethnobotanical plant Sterculia lanceolata

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dc.contributor.authorSang Mi Eum-
dc.contributor.authorSoo Yong Kim-
dc.contributor.authorJ S Hong-
dc.contributor.authorN S Roy-
dc.contributor.authorChoi Sangho-
dc.contributor.authorJin Hyub Paik-
dc.contributor.authorSang Woo Lee-
dc.contributor.authorT B Tran-
dc.contributor.authorV H Do-
dc.contributor.authorK S Kim-
dc.contributor.authorE S Seong-
dc.contributor.authorK C Park-
dc.contributor.authorC Y Yu-
dc.contributor.authorS H Eom-
dc.contributor.authorK Y Choi-
dc.contributor.authorJ H Kim-
dc.contributor.authorJ K Na-
dc.date.accessioned2019-07-10T01:23:25Z-
dc.date.available2019-07-10T01:23:25Z-
dc.date.issued2019-
dc.identifier.issn16142942-
dc.identifier.uri10.1007/s11295-019-1348-3ko
dc.identifier.urihttps://oak.kribb.re.kr/handle/201005/18771-
dc.description.abstractSeveral members of the genus Sterculia have a great potential as a candidate for the identification of new drug lead molecules, but lack of their genomic information can be a hindrance for the verification of the genetic background for future use. To obtain genomic resources, RNA-seq transcriptome analysis was conducted using leaves of Sterculia lanceolata, a member of the genus Sterculia, resulting in a total of 28,088,794 clear reads with a length of 3,692,930,973 bp. De novo assembly generated 7857 (3,559,905 bp) non-redundant unigenes with an average length of 453 bp. Among 1893 unigenes assigned by the Kyoto Encyclopedia of Genes and Genomes (KEGG) Orthology (KO) database, a total of 1158 were mapped into 328 different metabolic pathways. The biosynthesis of secondary metabolites (KO01110) pathway was the second highest hits with 159 unigenes, of which 72 are known to be involved in terpenoid, phenylpropanoid, and flavonoid biosynthesis. The search for simple sequence repeats (SSRs) identified a total of 899 SSRs. Nineteen polymorphic SSR markers were developed, of which polymorphism information content (PIC) values ranging from 0.10 to 0.49. Both Principal Coordinates Analysis (PCoA) and neighbor joining analysis using allelic data formed three clusters among 15 Sterculia species. The cluster of genotypes formed in the PCoA shows the genotypes in close proximity to those in neighbor joining tree. Taken together, our results provide a valuable source for genetic studies and also for molecular studies to unravel underlying mechanisms involved in medicinal properties of Sterculia L-
dc.publisherSpringer-
dc.titleTranscriptome analysis and development of SSR markers of ethnobotanical plant Sterculia lanceolata-
dc.title.alternativeTranscriptome analysis and development of SSR markers of ethnobotanical plant Sterculia lanceolata-
dc.typeArticle-
dc.citation.titleTree Genetics & Genomes-
dc.citation.number3-
dc.citation.endPage37-
dc.citation.startPage37-
dc.citation.volume15-
dc.contributor.affiliatedAuthorSang Mi Eum-
dc.contributor.affiliatedAuthorSoo Yong Kim-
dc.contributor.affiliatedAuthorChoi Sangho-
dc.contributor.affiliatedAuthorJin Hyub Paik-
dc.contributor.affiliatedAuthorSang Woo Lee-
dc.contributor.alternativeName엄상미-
dc.contributor.alternativeName김수용-
dc.contributor.alternativeName홍진성-
dc.contributor.alternativeNameRoy-
dc.contributor.alternativeName최상호-
dc.contributor.alternativeName백진협-
dc.contributor.alternativeName이상우-
dc.contributor.alternativeNameTran-
dc.contributor.alternativeNameDo-
dc.contributor.alternativeName김경수-
dc.contributor.alternativeName성은수-
dc.contributor.alternativeName박경철-
dc.contributor.alternativeName유창연-
dc.contributor.alternativeName엄석현-
dc.contributor.alternativeName최기영-
dc.contributor.alternativeName김종화-
dc.contributor.alternativeName나종국-
dc.identifier.bibliographicCitationTree Genetics & Genomes, vol. 15, no. 3, pp. 37-37-
dc.identifier.doi10.1007/s11295-019-1348-3-
dc.subject.keywordSterculia-
dc.subject.keywordGenomics-
dc.subject.keywordMedicinal plant-
dc.subject.keywordSSR markers-
dc.subject.localSterculia-
dc.subject.localGenomics-
dc.subject.localgenomics-
dc.subject.localmedicinal plant-
dc.subject.localmedicinal plants-
dc.subject.localMedicinal plant-
dc.subject.localMedicinal plants-
dc.subject.localSSR marker-
dc.subject.localSSR markers-
dc.description.journalClassY-
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Ochang Branch Institute > Division of Bioinfrastructure > International Biological Material Research Center > 1. Journal Articles
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