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National Agrobiodiversity Center, National Institute of Agricultural Sciences, RDA, Jeonju 54874, Kore
Using morphological characteristics and simple sequence repeat (SSR) markers, we evaluated the morphological variation and genetic diversity of 200 Perilla accessions collected from the five regions of South Korea and another region. In morphological characteristics analysis, particularly leaf color, stem color, degree of pubescence, and leaf size have been found to help distinguish the morphological features of native Perilla accessions cultivated in South Korea. Twenty SSR primer sets confirmed a total of 137 alleles in the 200 Perilla accessions. The number of alleles per locus ranged from 3 to 13, with an average number of alleles per locus of 6.85. The average genetic diversity (GD) was 0.649, with a range of 0.290–0.828. From analysis of SSR markers, accessions from the Jeolla-do and Gyeongsang-do regions showed comparatively high genetic diversity values compared with those from other regions in South Korea. In the unweighted pair group method with arithmetic mean (UPGMA) analysis, the 200 Perilla accessions were found to cluster into three main groups and an outgroup with 42% genetic similarity, and did not show a clear geographic structure from the five regions of South Korea. Therefore, it is believed that landrace Perilla seeds are frequently exchanged by farmers through various routes between the five regions of South Korea. The results of this study are expected to provide interesting information on the conservation of these genetic resources and selection of useful resources for the development of varieties for seeds and leafy vegetables of cultivated Perilla frutescens var. frutescens in South Korea.
Jun Seok Oh; Kyu Jin Sa; Hyeon Park; Do Yoon Hyun; Sookyeong Lee; Ju Hee Rhee; Ju Kyong Lee. Genetic Variation of Native Perilla Germplasms Collected from South Korea Using Simple Sequence Repeat (SSR) Markers and Morphological Characteristics. Plants 2021, 10, 1764 .
AMA StyleJun Seok Oh, Kyu Jin Sa, Hyeon Park, Do Yoon Hyun, Sookyeong Lee, Ju Hee Rhee, Ju Kyong Lee. Genetic Variation of Native Perilla Germplasms Collected from South Korea Using Simple Sequence Repeat (SSR) Markers and Morphological Characteristics. Plants. 2021; 10 (9):1764.
Chicago/Turabian StyleJun Seok Oh; Kyu Jin Sa; Hyeon Park; Do Yoon Hyun; Sookyeong Lee; Ju Hee Rhee; Ju Kyong Lee. 2021. "Genetic Variation of Native Perilla Germplasms Collected from South Korea Using Simple Sequence Repeat (SSR) Markers and Morphological Characteristics." Plants 10, no. 9: 1764.
Perilla seed oil has been attracting attention in South Korea as a health food. Five fatty acids of 100 Perilla accessions were identified as follows: palmitic acid (PA) (5.10–9.13%), stearic acid (SA) (1.70–3.99%), oleic acid (OA) (11.1–21.9%), linoleic acid (LA) (10.2–23.4%), and linolenic acid (LNA) (54.3–75.4%). Additionally, the 100 Perilla accessions were divided into two groups (high or low) based on the total fatty acid content (TFAC). By using an association analysis of 40 simple sequence repeat (SSR) markers and the six Perilla seed oil traits in the 100 Perilla accessions, we detected four SSR markers associated with TFAC, five SSR markers associated with LNA, one SSR marker associated with LA, two SSR markers each associated with OA and PA, and four SSR markers associated with SA. Among these SSR markers, four SSR markers (KNUPF14, KNUPF62, KNUPF72, KNUPF85) were all associated with TFAC and LNA. Moreover, two SSR markers (KNUPF62, KNUPF85) were both associated with TFAC, LNA, and OA. Therefore, these SSR markers are considered to be useful molecular markers for selecting useful accessions related to fatty acid contents in Perilla germplasm and for improving the seed oil quality of Perilla crop through marker-assisted selection (MAS) breeding programs.
Hyeon Park; Kyu Sa; Do Hyun; Sookyeong Lee; Ju Lee. Identifying SSR Markers Related to Seed Fatty Acid Content in Perilla Crop (Perilla frutescens L.). Plants 2021, 10, 1404 .
AMA StyleHyeon Park, Kyu Sa, Do Hyun, Sookyeong Lee, Ju Lee. Identifying SSR Markers Related to Seed Fatty Acid Content in Perilla Crop (Perilla frutescens L.). Plants. 2021; 10 (7):1404.
Chicago/Turabian StyleHyeon Park; Kyu Sa; Do Hyun; Sookyeong Lee; Ju Lee. 2021. "Identifying SSR Markers Related to Seed Fatty Acid Content in Perilla Crop (Perilla frutescens L.)." Plants 10, no. 7: 1404.
Kenaf (Hibiscus cannabinus L.) is widely used as an important industrial crop. It has the potential to act as a sustainable energy provider in the future, and contains beneficial compounds for medical and therapeutic use. However, there are no clear breeding strategies to increase its biomass or leaf volume. Thus, to attain an increase in these parameters, we examined potential key traits such as stem diameter, plant height, and number of nodes to determine the relationship among them. We hypothesized that it would be easier to reduce the amount of time and labor required for breeding if correlations among these parameters are identified. In this study, we found a strong positive correlation between height and number of nodes (Spearman’s Rho = 0.67, p< 0.001) and number of nodes and stem diameter (Spearman’s Rho = 0.65, p< 0.001), but a relatively low correlation (Spearman’s Rho = 0.34, p< 0.01) between height and stem diameter in the later stages of kenaf growth. We suggest that an efficient breeding strategy could be devised according to the breeding purpose, considering the correlations between various individual traits of kenaf.
Jaeyoung Kim; Gyung Han; Gopi Muthukathan; Renato Rodrogues; Do Hyun; Seong-Hoon Kim; Ju-Kyung Yu; Jieun Park; Soo-Cheul Yoo; Yong Chung. What Traits Should Be Measured for Biomass in Kenaf? Plants 2021, 10, 1394 .
AMA StyleJaeyoung Kim, Gyung Han, Gopi Muthukathan, Renato Rodrogues, Do Hyun, Seong-Hoon Kim, Ju-Kyung Yu, Jieun Park, Soo-Cheul Yoo, Yong Chung. What Traits Should Be Measured for Biomass in Kenaf? Plants. 2021; 10 (7):1394.
Chicago/Turabian StyleJaeyoung Kim; Gyung Han; Gopi Muthukathan; Renato Rodrogues; Do Hyun; Seong-Hoon Kim; Ju-Kyung Yu; Jieun Park; Soo-Cheul Yoo; Yong Chung. 2021. "What Traits Should Be Measured for Biomass in Kenaf?" Plants 10, no. 7: 1394.
Melon (Cucumis melo L.) is an economically important horticultural crop with abundant morphological and genetic variability. Complex genetic variations exist even among melon varieties and remain unclear to date. Therefore, unraveling the genetic variability among the three different melon varieties, muskmelon (C. melo subsp. melo), makuwa (C. melo L. var. makuwa), and cantaloupes (C. melo subsp. melo var. cantalupensis), could provide a basis for evolutionary research. In this study, we attempted a systematic approach with genotyping-by-sequencing (GBS)-derived single nucleotide polymorphisms (SNPs) to reveal the genetic structure and diversity, haplotype differences, and marker-based varieties differentiation. A total of 6406 GBS-derived SNPs were selected for the diversity analysis, in which the muskmelon varieties showed higher heterozygote SNPs. Linkage disequilibrium (LD) decay varied significantly among the three melon varieties, in which more rapid LD decay was observed in muskmelon (r2 = 0.25) varieties. The Bayesian phylogenetic tree provided the intraspecific relationships among the three melon varieties that formed, as expected, individual clusters exhibiting the greatest genetic distance based on the posterior probability. The haplotype analysis also supported the phylogeny result by generating three major networks for 48 haplotypes. Further investigation for varieties discrimination allowed us to detect a total of 52 SNP markers that discriminated muskmelon from makuwa varieties, of which two SNPs were converted into cleaved amplified polymorphic sequence markers for practical use. In addition to these markers, the genome-wide association study identified two SNPs located in the genes on chromosome 6, which were significantly associated with the phenotypic traits of melon seed. This study demonstrated that a systematic approach using GBS-derived SNPs could serve to efficiently classify and manage the melon varieties in the genebank.
Do Hyun; Raveendar Sebastin; Gi-An Lee; Kyung Lee; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Man-Jung Kang; Seung Lee; Ik Jang; Na-Young Ro; Gyu-Taek Cho. Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing. International Journal of Molecular Sciences 2021, 22, 6722 .
AMA StyleDo Hyun, Raveendar Sebastin, Gi-An Lee, Kyung Lee, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Man-Jung Kang, Seung Lee, Ik Jang, Na-Young Ro, Gyu-Taek Cho. Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing. International Journal of Molecular Sciences. 2021; 22 (13):6722.
Chicago/Turabian StyleDo Hyun; Raveendar Sebastin; Gi-An Lee; Kyung Lee; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Man-Jung Kang; Seung Lee; Ik Jang; Na-Young Ro; Gyu-Taek Cho. 2021. "Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing." International Journal of Molecular Sciences 22, no. 13: 6722.
Potato (Solanum tuberosum L.) is an important staple food and economic crop in many countries. It is of critical importance to understand the genetic diversity and population structure for effective collection, conservation, and utilization of potato germplasm. Thus, the objective of the present study was to investigate the genetic diversity and population structure of potato germplasm conserved in the National Agrobiodiversity Center (NAC) of South Korea to provide basic data for future preservation and breeding of potato genetic resources. A total of 24 simple sequence repeat (SSR) markers were used to assess the genetic diversity and population structure of 482 potato accessions. A total of 257 alleles were detected, with an average of 10.71 alleles per locus. Analysis of molecular variance showed that 97% of allelic diversity was attributed to individual accessions within the population, while only 3% was distributed among populations. Results of genetic structure analysis based on STRUCTURE and discriminant analysis of principal components revealed that 482 potato accessions could be divided into two main subpopulations. Accessions of subpopulation 1 mainly belonged to cultivars and breeding lines. Accessions of subpopulations 2 basically corresponded to wild relatives of potatoes. Results of this study provide useful information for potato improvement and conservation programs, although further studies are needed for a more accurate evaluation of genetic diversity and phenotypic traits of potatoes.
Kyung-Jun Lee; Raveendar Sebastin; Gyu-Taek Cho; Munsup Yoon; Gi-An Lee; Do-Yoon Hyun. Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation. Plants 2021, 10, 752 .
AMA StyleKyung-Jun Lee, Raveendar Sebastin, Gyu-Taek Cho, Munsup Yoon, Gi-An Lee, Do-Yoon Hyun. Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation. Plants. 2021; 10 (4):752.
Chicago/Turabian StyleKyung-Jun Lee; Raveendar Sebastin; Gyu-Taek Cho; Munsup Yoon; Gi-An Lee; Do-Yoon Hyun. 2021. "Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation." Plants 10, no. 4: 752.
Recently, within the Fabaceae family, the Vicia genus has been recognized for its vital role in sustainable agriculture. Vicia species are economically important grain and forage crops. However, the presence of complex morphological characteristics makes identification and recognition of native species difficult. In this study, the possibility of using DNA barcoding regions (ITS2, matK, and rbcL) to distinguish among 19 Vicia taxa (59 accessions) found in South Korea was evaluated. The sequence alignment analysis revealed considerable nucleotide diversity (π) between the loci, in which ITS2 showed the highest mean interspecific distance, whereas there was no intraspecific variability among the barcode regions in 12 of the 19 taxa. Phylogenetic analysis of combined barcoding regions revealed well-resolved phylogeny with the highest species level discrimination. Combinations of barcode loci were also used in classification at the subgenera and section levels. The results revealed that the combined barcoding regions can be used effectively to differentiate the following species: Vicia angustifolia var. segetilis, Vicia bungei, Vicia villosa, Vicia cracca, Vicia dasycarpa, Vicia hirsuta, Vicia tetrasperma, Vicia amurensis, Vicia hirticalycina, and Vicia chosenensis. However, it is difficult to differentiate the species of Vicia unijuga, Vicia unijuga var. kaussanensis, Vicia linearifolia, Vicia unijuga f. angustifolia, Vicia nipponica, Vicia amoena, Vicia venosa var. cuspidata, Vicia pseudo-orobus, and Vicia japonica with the tested barcode regions. These species come under sect. Vicilla and are found to be closely related or species that have recently undergone speciation; thus, it has limitation to distinguish with recommended barcodes. Hence, to differentiate the unclassified species, 39 morphological characteristics were investigated, in which 16 useful characteristics were selected for efficient classification. Finally, the 16 selected morphological useful traits efficiently differentiated all the Vicia species. In conclusion, a combination of barcoding loci together with morphological characteristics of this study efficiently discriminated all the Korean Vicia species.
Seahee Han; Raveendar Sebastin; Xiaohan Wang; Kyung Jun Lee; Gyu-Taek Cho; Do Yoon Hyun; Jong-Wook Chung. Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics. Frontiers in Plant Science 2021, 12, 1 .
AMA StyleSeahee Han, Raveendar Sebastin, Xiaohan Wang, Kyung Jun Lee, Gyu-Taek Cho, Do Yoon Hyun, Jong-Wook Chung. Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics. Frontiers in Plant Science. 2021; 12 ():1.
Chicago/Turabian StyleSeahee Han; Raveendar Sebastin; Xiaohan Wang; Kyung Jun Lee; Gyu-Taek Cho; Do Yoon Hyun; Jong-Wook Chung. 2021. "Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics." Frontiers in Plant Science 12, no. : 1.
Tea has received attention due to its phytochemicals. For the direct use of tea germplasm in breeding programs, a core collection that retains the genetic diversity and various phytochemicals in tea is needed. In this study, we evaluated the content of eight phytochemicals over two years and the genetic diversity through 33 SSR (simple sequence repeats) markers for 462 tea accessions (entire collection, ENC) and developed a target-oriented core collection (TOCC). Significant phytochemical variation was observed in the ENC between genotypes and years. The genetic diversity of ENC showed high levels of molecular variability. These results were incorporated into developing TOCCs. The TOCC showed a representation of the ENC, where the mean difference percentage, the variance difference percentage, the variable rate of coefficient of variance percentage, and the coincidence rate of range percentage were 7.88, 39.33, 120.79, and 97.43, respectively. The Shannon’s diversity index (I) and Nei’s gene diversity (H) of TOCC were higher than those of ENC. Furthermore, the accessions in TOCC were shown to be selected proportionally, thus accurately reflecting the distribution of the overall accessions for each phytochemical. This is the first report describing the development of a TOCC retaining the diversity of phytochemicals in tea germplasm. This TOCC will facilitate the identification of the genetic determinants of trait variability and the effective utilization of phytochemical diversity in crop improvement programs.
Do Yoon Hyun; Gwang-Yeon Gi; Raveendar Sebastin; Gyu-Taek Cho; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Dong-Mo Son; Kyung Jun Lee. Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm. Agronomy 2020, 10, 1667 .
AMA StyleDo Yoon Hyun, Gwang-Yeon Gi, Raveendar Sebastin, Gyu-Taek Cho, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Dong-Mo Son, Kyung Jun Lee. Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm. Agronomy. 2020; 10 (11):1667.
Chicago/Turabian StyleDo Yoon Hyun; Gwang-Yeon Gi; Raveendar Sebastin; Gyu-Taek Cho; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Dong-Mo Son; Kyung Jun Lee. 2020. "Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm." Agronomy 10, no. 11: 1667.
To improve crops, it is important to secure plant genetic source material and evaluate the genetic diversity. Ginseng (Panax ginseng C.A. Meyer) has long been used as a medicinal herb in Korea and China. Since ginseng originated from wild ginseng with low genetic diversity, it is also expected to have low genetic diversity. In this study, the genetic diversity of 451 ginseng accessions conserved in the National Agrobiodiversity Center (NAC) at Korea was analyzed using 33 SSR markers. Another objective was to establish a strategy for NAC to manage ginseng germplasm based on these results. The 451 accessions were collected from 22 cities in six provinces in South Korea. Among the 451 ginseng accessions, 390 (86.5%) and 61 (13.5%) were landraces and breeding lines, respectively. In the STRUCTURE results for the accessions, there was no relationship between assigned genotypes and collection areas, but there was a population genetic structure. In addition, genetic differentiation within populations of each analysis was low, indicating that the ginseng accessions conserved at NAC are extensively dispersed throughout the collection areas. The results of this study suggest that NAC should increase the genetic diversity of ginseng accessions for breeding programs, and alternatives are needed for securing ginseng genetic resources.
Kyung Jun Lee; Raveendar Sebastin; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Gyu-Taek Cho; Manjung Kang; Do Yoon Hyun. Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type. Agronomy 2020, 10, 1643 .
AMA StyleKyung Jun Lee, Raveendar Sebastin, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Gyu-Taek Cho, Manjung Kang, Do Yoon Hyun. Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type. Agronomy. 2020; 10 (11):1643.
Chicago/Turabian StyleKyung Jun Lee; Raveendar Sebastin; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Gyu-Taek Cho; Manjung Kang; Do Yoon Hyun. 2020. "Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type." Agronomy 10, no. 11: 1643.
Seed macro‐ and micro‐morphology were analyzed to evaluate their capacity to discriminate species in the genus Vicia (Fabaceae). To assess the interspecific variation of the taxa in the genus Vicia, 41 accessions were obtained from the USDA‐ARS germplasm collection in the USA and 19 accessions were collected from Korea. Seed morphological characteristics such as shape, color, mottling, finish, length, width, diameter, hilum shape, hilum color, hilum length, and lens distance from the hilum were examined under a stereomicroscope. Testa texture characteristics such as testa pattern, papillae type, density, height, ribbing, surface deposits, and peaks topped with wax were examined under scanning electron microscopy. Various gross‐morphological traits of seeds of Vicia species have been analyzed and compared. The present study revealed significant variation in testa traits. Testa were papillose and papillose with mounds, the latter being observed only in Vicia lathyroides. The present study revealed 20 key traits that could be used to diagnose Vicia species and classify them.
Seahee Han; Raveendar Sebastin; Kyung Jun Lee; Xiaohan Wang; Myoung‐Jae Shin; Seong‐Hoon Kim; Sookyeong Lee; Jung‐Ro Lee; Gyu‐Taek Cho; Do Yoon Hyun; Jong‐Wook Chung. Interspecific variation of seed morphological and micro‐morphological traits in the genus Vicia (Fabaceae). Microscopy Research and Technique 2020, 84, 337 -357.
AMA StyleSeahee Han, Raveendar Sebastin, Kyung Jun Lee, Xiaohan Wang, Myoung‐Jae Shin, Seong‐Hoon Kim, Sookyeong Lee, Jung‐Ro Lee, Gyu‐Taek Cho, Do Yoon Hyun, Jong‐Wook Chung. Interspecific variation of seed morphological and micro‐morphological traits in the genus Vicia (Fabaceae). Microscopy Research and Technique. 2020; 84 (2):337-357.
Chicago/Turabian StyleSeahee Han; Raveendar Sebastin; Kyung Jun Lee; Xiaohan Wang; Myoung‐Jae Shin; Seong‐Hoon Kim; Sookyeong Lee; Jung‐Ro Lee; Gyu‐Taek Cho; Do Yoon Hyun; Jong‐Wook Chung. 2020. "Interspecific variation of seed morphological and micro‐morphological traits in the genus Vicia (Fabaceae)." Microscopy Research and Technique 84, no. 2: 337-357.
Wheat (Triticum spp.) has been an important staple food crop for mankind since the beginning of agriculture. The genus Triticum L. is composed of diploid, tetraploid, and hexaploid species, majority of which have not yet been discriminated clearly, and hence their phylogeny and classification remain unresolved. Genotyping-by-sequencing (GBS) is an easy and affordable method that allows us to generate genome-wide single nucleotide polymorphism (SNP) markers. In this study, we used GBS to obtain SNPs covering all seven chromosomes from 283 accessions of Triticum-related genera. After filtering low-quality and redundant SNPs based on haplotype information, the GBS assay provided 14,188 high-quality SNPs that were distributed across the A (71%), B (26%), and D (2.4%) genomes. Cluster analysis and discriminant analysis of principal components (DAPC) allowed us to distinguish six distinct groups that matched well with Triticum species complexity. We constructed a Bayesian phylogenetic tree using 14,188 SNPs, in which 17 Triticum species and subspecies were discriminated. Dendrogram analysis revealed that the polyploid wheat species could be divided into groups according to the presence of A, B, D, and G genomes with strong nodal support and provided new insight into the evolution of spelt wheat. A total of 2,692 species-specific SNPs were identified to discriminate the common (T. aestivum) and durum (T. turgidum) wheat cultivar and landraces. In principal component analysis grouping, the two wheat species formed individual clusters and the SNPs were able to distinguish up to nine groups of 10 subspecies. This study demonstrated that GBS-derived SNPs could be used efficiently in genebank management to classify Triticum species and subspecies that are very difficult to distinguish by their morphological characters.
Do Yoon Hyun; Raveendar Sebastin; Kyung Jun Lee; Gi-An Lee; Myoung-Jae Shin; Seong Hoon Kim; Jung-Ro Lee; Gyu-Taek Cho. Genotyping-by-Sequencing Derived Single Nucleotide Polymorphisms Provide the First Well-Resolved Phylogeny for the Genus Triticum (Poaceae). Frontiers in Plant Science 2020, 11, 1 .
AMA StyleDo Yoon Hyun, Raveendar Sebastin, Kyung Jun Lee, Gi-An Lee, Myoung-Jae Shin, Seong Hoon Kim, Jung-Ro Lee, Gyu-Taek Cho. Genotyping-by-Sequencing Derived Single Nucleotide Polymorphisms Provide the First Well-Resolved Phylogeny for the Genus Triticum (Poaceae). Frontiers in Plant Science. 2020; 11 ():1.
Chicago/Turabian StyleDo Yoon Hyun; Raveendar Sebastin; Kyung Jun Lee; Gi-An Lee; Myoung-Jae Shin; Seong Hoon Kim; Jung-Ro Lee; Gyu-Taek Cho. 2020. "Genotyping-by-Sequencing Derived Single Nucleotide Polymorphisms Provide the First Well-Resolved Phylogeny for the Genus Triticum (Poaceae)." Frontiers in Plant Science 11, no. : 1.
Black soybean (Glycine max L.) has been used as a traditional medicine because its seed coat contains various natural phenolic compounds such as anthocyanins. The objective of this study was to reveal the genetic variation in the agricultural traits, phytochemicals, and antioxidant activity of 172 Korean black soybean landraces (KBSLs) and establish a relationship among them. The evaluation of three agricultural traits (days to 50% flowering, maturity, and 100-seed weight), six phytochemicals (delphinidin-3-glucoside, cyaniding-3-glucoside, petunidin-3-glucoside, daidzin, glycitin, and genestin), and four antioxidant activities (2,2-diphenyl-1-picrylhydrazyl (DPPH), 2,2′-azino-bis-(3-ethylbenzothiazoline-6-sulfonic acid)(ABTS), ferric-reducing antioxidant power (FRAP), and the total polyphenol content (TPC) of 172 KBSLs were analyzed in 2012 and 2015. The agricultural traits, phytochemicals, and antioxidant activities of the 172 KBSLs showed wide variation among the accessions and years. In correlation analysis, the agricultural traits and phytochemicals showed positive and negative correlations with phytochemicals and antioxidant activity, respectively. The principal component analyses result indicated that phytochemicals accounted for most of the variability in the KBSLs. In clustering analysis, the 172 KBSLs were classified into four clusters. These results could lead to expanding the knowledge of the agricultural traits, phytochemicals, and antioxidant activity of the KBSLs, which are valuable materials for the development of new soybean varieties.
Kyung Jun Lee; Da-Young Baek; Gi-An Lee; Gyu-Taek Cho; Yoon-Sup So; Jung-Ro Lee; Kyung-Ho Ma; Jong-Wook Chung; Do Yoon Hyun. Phytochemicals and Antioxidant Activity of Korean Black Soybean (Glycine max L.) Landraces. Antioxidants 2020, 9, 213 .
AMA StyleKyung Jun Lee, Da-Young Baek, Gi-An Lee, Gyu-Taek Cho, Yoon-Sup So, Jung-Ro Lee, Kyung-Ho Ma, Jong-Wook Chung, Do Yoon Hyun. Phytochemicals and Antioxidant Activity of Korean Black Soybean (Glycine max L.) Landraces. Antioxidants. 2020; 9 (3):213.
Chicago/Turabian StyleKyung Jun Lee; Da-Young Baek; Gi-An Lee; Gyu-Taek Cho; Yoon-Sup So; Jung-Ro Lee; Kyung-Ho Ma; Jong-Wook Chung; Do Yoon Hyun. 2020. "Phytochemicals and Antioxidant Activity of Korean Black Soybean (Glycine max L.) Landraces." Antioxidants 9, no. 3: 213.
Ginseng (Panax ginseng C.A. Meyer), commonly known as Korean or Asian ginseng, is a perennial herb native to Korea and China. There has been limited research effort to analyze the genetic diversity and population structure of ginseng germplasm because of its growth habits. In the present study, genetic diversity and population structure of ginseng germplasm conserved in the National Agrobiodiversity Center (NAC) of South Korea were analyzed to provide basic data for future preservation and breeding of ginseng genetic resources. Seventeen simple sequence repeat (SSR) markers were used to assess the genetic diversity and population structure of 1109 ginseng accessions. Among 1109 ginseng accessions, 1042 (94.0%) accessions were landraces and 66 (6.0%) accessions were breeding lines (61 accessions, 5.5%) or cultivars (5 accessions, 0.5%). SSR markers revealed 56 different alleles with an average of 3.29 alleles per locus. The average gene diversity was 0.49. Analysis of molecular variance showed that 91% of allelic diversity was attributed to individual accessions within clusters while only 9% was distributed among clusters. Using discriminant analysis of principal components, 12 clusters were detected in 1109 ginseng accessions. The results of this study provide molecular evidence for the narrow genetic base of ginseng germplasm in NAC. For the broad understanding and efficient use of ginseng germplasm, it is necessary to analyze functional factors and to evaluate morphological traits.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Gyu-Taek Cho; Do Yoon Hyun. Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation. Agronomy 2020, 10, 68 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Gyu-Taek Cho, Do Yoon Hyun. Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation. Agronomy. 2020; 10 (1):68.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Gyu-Taek Cho; Do Yoon Hyun. 2020. "Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation." Agronomy 10, no. 1: 68.
Sweet potato (Ipomoea batatas L. Lam) is an important food crop widely cultivated in the world. In this study, nine chloroplast simple sequence repeat (cpSSR) markers were used to analyze the genetic diversity and relationships of 558 sweet potato accessions in the germplasm collection of the National Agrobiodiversity Center (NAC). Eight of the nine cpSSR showed polymorphisms, while Ibcp31 did not. The number of alleles per locus ranged from two to four. In general, the Shannon index for each cpSSR ranged from 0.280 to 1.123 and the diversity indices and unbiased diversity ranged from 0.148 to 0.626, and 0.210 to 0.627, respectively. Results of the median-joining network showed 33 chlorotypes in 558 sweet potato accessions. In factor analysis, 558 sweet potato accessions were divided into four clusters, with clusters I and II composed only of the sweet potato accessions from Korea, Japan, Taiwan, and the USA. The results of this study confirmed that the genetic diversity of the female parents of sweet potato accessions conserved at the NAC is low and therefore more sweet potato accessions need to be collected. These results will help to establish an efficient management plan for sweet potato genetic germplasms at the NAC.
Kyung Jun Lee; Gi-An Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Gyu-Taek Cho; Do Yoon Hyun. Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers. Agronomy 2019, 9, 752 .
AMA StyleKyung Jun Lee, Gi-An Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Gyu-Taek Cho, Do Yoon Hyun. Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers. Agronomy. 2019; 9 (11):752.
Chicago/Turabian StyleKyung Jun Lee; Gi-An Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers." Agronomy 9, no. 11: 752.
Watermelon is an economically important vegetable fruit worldwide. The objective of this study was to conduct a genetic diversity of 68 watermelon accessions using single nucleotide polymorphisms (SNPs). Genotyping by sequencing (GBS) was used to discover SNPs and assess genetic diversity and population structure using STRUCTURE and discriminant analysis of principal components (DAPC) in watermelon accessions. Two groups of watermelons were used: 1) highly utilized 41 watermelon accessions at the National Agrobiodiversity Center (NAC) at the Rural Development Administration in South Korea; and 2) 27 Korean commercial watermelons. Results revealed the presence of four clusters within the populations differentiated principally based on seed companies. In addition, there was higher genetic differentiation among commercial watermelons of each company. It is hypothesized that the results obtained from this study would contribute towards the expansion of this crop as well as providing data about genetic diversity, which would be useful for the preservation of genetic resources or for future breeding programs.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm. Genes 2019, 10, 822 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Seong-Hoon Kim, Gyu-Taek Cho, Do Yoon Hyun. Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm. Genes. 2019; 10 (10):822.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm." Genes 10, no. 10: 822.
Tea (Camellia sinensis (L.) O. Kuntze) is cultivated in many developing Asian, African, and South American countries, and is the most widely consumed beverage in the world. It is of critical importance to understand the genetic diversity and population structure of tea germplasm for effective collection, conservation, and utilization. In this study, 410 tea accessions collected from South Korea were analyzed using 21 simple sequence repeat (SSR) markers. Among 410 tea accessions, 85.4% (350 accessions) were collected from Jeollanam-do. A total of 286 alleles were observed, and the genetic diversity and evenness were estimated to be on average 0.79 and 0.61, respectively, across all the tested samples. Using discriminant analysis of principal components, four clusters were detected in 410 tea accessions. Among them, cluster 1 showed a higher frequency of rare alleles (less than 1%). Using the calculation of the index of association and rbaD value, each cluster showed a clonal mode of reproduction. The result of analysis of molecular variance (AMOVA) showed that most of the variation observed was within populations (99%) rather than among populations (1%). The present study revealed the presence of lower diversity and simpler population structure in Korean tea germplasms. Consequently, more attention should be focused on collecting and conserving the new tea individuals to broaden genetic variation of new cultivars in future breeding of the tea plant.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank. Forests 2019, 10, 780 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Seong-Hoon Kim, Gyu-Taek Cho, Do Yoon Hyun. Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank. Forests. 2019; 10 (9):780.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank." Forests 10, no. 9: 780.
Anaerobic conditions in waterlogged soil lead to low germination rates, which significantly reduce crop yields. Good seed germination is prerequisite for direct-seeded cultivation of rice to obtain optimal yields not only in irrigated lowland but most importantly in rain-fed and waterlogged areas where water supply could be more than needed. Due to the limited availability of rice genotypes suitable for anaerobic germination, there is an urgent need to select diverse rice germplasm with enhanced anaerobic germinability. In this study, we evaluated 185 rice accessions from six subpopulations for germination rate (AGR) and coleoptile length (ACL) under anaerobic conditions. The highest average AGR (60%) and longest average ACL (2.13 cm) were observed in tropical japonica (TRJ) and temperate japonica (TEJ) germplasm, respectively. Meanwhile, the highest proportion of accessions with “very long” ACL was in the TEJ subpopulation, whereas those with the “highest” AGR were in the aus subpopulation based on our criteria. We selected seven strong accessions for anaerobic germinability (AG) based on AGR and ACL and analyzed the relative expression patterns of four AG-related genes in strong and weak accessions via qRT-PCR. In general, proton pyrophosphatase locus (OVP3) was expressed at the highest levels in strong accessions, whereas the expression level of rice ethylene response element binding protein locus (EREBP1) did not significantly differ among accessions under normal and anaerobic conditions. The relative expression results of rice alpha amylase locus (RAmy3D) and OVP3 showed distinct patterns and divided all strong accessions into two groups, suggesting that major genes involved in AG may vary depending on the germplasm. These findings could be helpful for breeders and lay the foundation for further genetic analysis.
Muhammad Rauf; Yu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Sejong Oh; Do Yoon Hyun. Evaluation of anaerobic germinability in various rice subpopulations: identifying genotypes suitable for direct-seeded rice cultivation. Euphytica 2019, 215, 19 .
AMA StyleMuhammad Rauf, Yu-Mi Choi, Sukyeung Lee, Myung-Chul Lee, Sejong Oh, Do Yoon Hyun. Evaluation of anaerobic germinability in various rice subpopulations: identifying genotypes suitable for direct-seeded rice cultivation. Euphytica. 2019; 215 (2):19.
Chicago/Turabian StyleMuhammad Rauf; Yu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Sejong Oh; Do Yoon Hyun. 2019. "Evaluation of anaerobic germinability in various rice subpopulations: identifying genotypes suitable for direct-seeded rice cultivation." Euphytica 215, no. 2: 19.
Bolivia is believed to be the origin of the Capsicum eximium, a wild chilli pepper. In this study, we sequenced the complete chloroplast (cp) genome sequence of C. eximium to investigate its phylogenetic relationship in the family Solanaceae. The complete cp genome sequence is 156,947 bp in length with 37.7% overall GC content and exhibits a typical quadripartite structure comprising one pair of inverted repeats (25,847 bp) separated by a small single-copy region (17,912 bp) and a large single-copy region (87,341 bp). The cp genome contains 113 unique genes, including 79 protein coding genes, 30 tRNA genes, and 4 rRNA genes. Of these, 21 genes are duplicated in the inverted repeat regions. The phylogenetic analysis indicated C. eximium is clustered in the Capsicum clade.
Raveendar Sebastin; Kyung Jun Lee; Gyu-Taek Cho; Myoung-Jae Shin; Seong-Hoon Kim; Do Yoon Hyun; Jung-Ro Lee. The complete chloroplast genome sequence of a Bolivian wild chili pepper, Capsicum eximium Hunz. (Solanaceae). Mitochondrial DNA Part B 2019, 4, 1634 -1635.
AMA StyleRaveendar Sebastin, Kyung Jun Lee, Gyu-Taek Cho, Myoung-Jae Shin, Seong-Hoon Kim, Do Yoon Hyun, Jung-Ro Lee. The complete chloroplast genome sequence of a Bolivian wild chili pepper, Capsicum eximium Hunz. (Solanaceae). Mitochondrial DNA Part B. 2019; 4 (1):1634-1635.
Chicago/Turabian StyleRaveendar Sebastin; Kyung Jun Lee; Gyu-Taek Cho; Myoung-Jae Shin; Seong-Hoon Kim; Do Yoon Hyun; Jung-Ro Lee. 2019. "The complete chloroplast genome sequence of a Bolivian wild chili pepper, Capsicum eximium Hunz. (Solanaceae)." Mitochondrial DNA Part B 4, no. 1: 1634-1635.
Yu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Sejong Oh; Onsook Hur; Gyu Taek Cho; Munsup Yoon; Do Yoon Hyun. Comparison of Agricultural Traits and Physicochemical Properties of Lentil (Lens culinaris Med.), Chickpea (Cicer aretinum L.), and Guar (Cyamopsis tetragonoloba L.) Germplasms Collected from Tropical and Subtropical Regions. Korean Journal of Breeding Science 2018, 50, 453 -462.
AMA StyleYu-Mi Choi, Sukyeung Lee, Myung-Chul Lee, Sejong Oh, Onsook Hur, Gyu Taek Cho, Munsup Yoon, Do Yoon Hyun. Comparison of Agricultural Traits and Physicochemical Properties of Lentil (Lens culinaris Med.), Chickpea (Cicer aretinum L.), and Guar (Cyamopsis tetragonoloba L.) Germplasms Collected from Tropical and Subtropical Regions. Korean Journal of Breeding Science. 2018; 50 (4):453-462.
Chicago/Turabian StyleYu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Sejong Oh; Onsook Hur; Gyu Taek Cho; Munsup Yoon; Do Yoon Hyun. 2018. "Comparison of Agricultural Traits and Physicochemical Properties of Lentil (Lens culinaris Med.), Chickpea (Cicer aretinum L.), and Guar (Cyamopsis tetragonoloba L.) Germplasms Collected from Tropical and Subtropical Regions." Korean Journal of Breeding Science 50, no. 4: 453-462.
Direct-seeding cultivation of rice is increasing in Asia instead of transplanting system, because of its lower cost and operational simplicity. Low-temperature germinability (LTG) and anaerobic germinability (AG) are important characters for breeding of varieties for wide-spread adaptation of direct-seeding cultivation in rice. This study was performed to evaluate LTG and AG of seven rice varieties and identify varieties with strong germinability on both low-temperature and anaerobic conditions. The mean germination rate and germination vigor of seven varieties were 51.7% and 6.0 under low-temperature condition, respectively. Among these varieties, Cheongcheongjinmi and Hwanggeumnodeul had the highest germination rate of 80%, indicating that Cheongcheongjinmi and Hwanggeumnodeul have a good LTG. In anaerobic conditions, the germination rate and coleoptile length for all varieties were 47.6% and 3.2 cm, respectively. Of them, the highest germination rate and coleoptile length were observed in Subo and Hopum, respectively, suggesting that these two varieties are tolerant to anaerobic during germination stage. Molecular evaluation by SDS-PAGE revealed that the protein patterns differed at 50 kDa, 40 kDa, and 22 kDa between low-temperature and anaerobic conditions. Varieties identified as good LTG or AG in this study may be used for developing new direct-seeding rice cultivars through pyramiding these traits in the breeding program.
Do Yoon Hyun; Myeongwon Oh; Yu-Mi Choi; Sukyeung Lee. Morphological and molecular evaluation for germinability in rice varieties under low-temperature and anaerobic conditions. Journal of Crop Science and Biotechnology 2017, 20, 21 -27.
AMA StyleDo Yoon Hyun, Myeongwon Oh, Yu-Mi Choi, Sukyeung Lee. Morphological and molecular evaluation for germinability in rice varieties under low-temperature and anaerobic conditions. Journal of Crop Science and Biotechnology. 2017; 20 (1):21-27.
Chicago/Turabian StyleDo Yoon Hyun; Myeongwon Oh; Yu-Mi Choi; Sukyeung Lee. 2017. "Morphological and molecular evaluation for germinability in rice varieties under low-temperature and anaerobic conditions." Journal of Crop Science and Biotechnology 20, no. 1: 21-27.
Asjad Ali; Do Yoon-Hyun; Yu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Tae-Hwan Noh; Sejong Oh. Preliminary genome-wide association mapping of rice bacterial leaf blight resistance loci using major Korean races of Xoo (Xanthomonas oryzae). Plant Omics 2017, 10, 97 -106.
AMA StyleAsjad Ali, Do Yoon-Hyun, Yu-Mi Choi, Sukyeung Lee, Myung-Chul Lee, Tae-Hwan Noh, Sejong Oh. Preliminary genome-wide association mapping of rice bacterial leaf blight resistance loci using major Korean races of Xoo (Xanthomonas oryzae). Plant Omics. 2017; 10 (2):97-106.
Chicago/Turabian StyleAsjad Ali; Do Yoon-Hyun; Yu-Mi Choi; Sukyeung Lee; Myung-Chul Lee; Tae-Hwan Noh; Sejong Oh. 2017. "Preliminary genome-wide association mapping of rice bacterial leaf blight resistance loci using major Korean races of Xoo (Xanthomonas oryzae)." Plant Omics 10, no. 2: 97-106.