2017
DOI: 10.3390/genes8100238
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Development of Genome-Wide SSR Markers from Angelica gigas Nakai Using Next Generation Sequencing

Abstract: Angelica gigas Nakai is an important medicinal herb, widely utilized in Asian countries especially in Korea, Japan, and China. Although it is a vital medicinal herb, the lack of sequencing data and efficient molecular markers has limited the application of a genetic approach for horticultural improvements. Simple sequence repeats (SSRs) are universally accepted molecular markers for population structure study. In this study, we found over 130,000 SSRs, ranging from di- to deca-nucleotide motifs, using the geno… Show more

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Cited by 21 publications
(11 citation statements)
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“…Forty‐eight polymorphic SSR loci with at least a 4‐bp motif containing a minimum of four repeats were selected by the comparison of the specific SSR loci of the four sequenced individuals using CLC Main Workbench (version 6.8.4, QIAGEN) according to Gil et al. (). SSR primers were designed using Primer3 (Untergasser et al., ) using the following conditions: length 18–26 bp, GC content 50–70%, and melting temperature 55–62°C.…”
Section: Methods and Resultsmentioning
confidence: 99%
“…Forty‐eight polymorphic SSR loci with at least a 4‐bp motif containing a minimum of four repeats were selected by the comparison of the specific SSR loci of the four sequenced individuals using CLC Main Workbench (version 6.8.4, QIAGEN) according to Gil et al. (). SSR primers were designed using Primer3 (Untergasser et al., ) using the following conditions: length 18–26 bp, GC content 50–70%, and melting temperature 55–62°C.…”
Section: Methods and Resultsmentioning
confidence: 99%
“…In previous studies, SSR markers have been widely used for genetic analyses of date palm 22 , barley 23 , angelica gigas 24 and maize 14 , 25 . In this study, 40 core SSR markers with proven performance for maize genotype identification 26 were used to genetically analyze 200 waxy maize accessions.…”
Section: Discussionmentioning
confidence: 99%
“…Constraints associated with medicinal plant studies include the complexity of plant secondary metabolism, which is often unique to the species, and the lack of genomic information. Genome sequences have been provided for some species [ 83 , 84 ], but as the basis for secondary metabolism studies, transcriptomic analysis is of growing importance ( Figure 1 ) [ 85 ]. RNA sequencing-based transcriptomic data are now available for medicinal plants such as Dendrobium officinale [ 86 ], Dioscorea nipponica [ 87 ], Ephedra sinica [ 88 ], L. japonica [ 89 ], and Polygonum minus [ 90 ].…”
Section: Application Of Proteomics To Indigenous Plantsmentioning
confidence: 99%