• Horticulture, Environment, and Biotechnology : HEB
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• v.59 no.6
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• pp.865-873
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• 2018

Allium ochotense and Allium microdictyon are commonly known as 'Mountain garlic' and are popular, economically important species in many countries such as Korea, China, and Mongolia. Their leaves are used as culinary side dishes and in traditional medicines. In Korea, these two species are at risk of extinction due to damage to their natural habitat and thus, conservation and breeding programs are needed. However, their identification relies mostly on morphological data, which is limited and until recently, led to classifying these two species under A. victorialis. In the present study, a simple and reliable method of molecular identification was developed to distinguish A. ochotense from A. microdictyon that targets four barcoding regions: the internal transcribed spacer (ITS), the maturase K gene (matK), the chloroplast psbA-trnH intergenic region, and the ribulose-bisphosphate carboxylase large subunit gene (rbcL). Single nucleotide polymorphisms (SNPs) were found in ITS and matK regions, and species-specific primers were designed based solely on the SNP at position 680 of the ITS region that could differentiate A. ochotense from A. microdictyon. Using these primers in amplification refractory mutation system (ARMS)-PCR, A. ochotense, and A. microdictyon could be simultaneously and efficiently distinguished. This study is the first to report a simple, rapid, and efficient method for discriminating A. ochotense and A. microdictyon, indicating the utility of species-specific markers in the development of conservation and breeding programs.

• Weed & Turfgrass Science
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• v.4 no.1
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• pp.18-25
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• 2015

A universal DNA barcoding for agricultural noxious weeds is a powerful technique for species identification without morphological knowledge, by using short sections of DNA from a specific region of the genome. Two standard barcode markers, chloroplast rbcL and matK, and a supplementary nuclear ribosomal Internal Transcribed Spacer (ITS) region were used to examine the effectiveness of the markers for Pooideae barcoding using 163 individuals of 29 taxa across 16 genera of Korean Pooideae. The rbcL and ITS revealed a good level of amplification and sequencing success while matK did not. Barcode gaps were 78.6% for rbcL, 96.2% for matK, and 91.7% for ITS, respectively. Resolving powers were 89.3% for rbcL, 92.3% for matK, and 79.1% for ITS. The matK obtained the best both barcode gap and resolving power. However, it should be considered not to employ matK for Pooideae barcode because of low rate of PCR amplification and sequencing success. As a single DNA marker, rbcL and ITS were reasonable for Pooideae barcode. Barcode gap and resolving power were increased when ITS was incorporated into the rbcL. The barcode sequences were deposited to the National Center for Biotechnology Information (NCBI) database for public use.

• Korean Journal of Plant Taxonomy
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• v.44 no.1
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• pp.39-50
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• 2014

Phylogenetic positions of Sedirea and Neofinetia were addressed using the chloroplast matK and the nuclear ITS sequences. We also evaluate the usefulness of the makers for the identification of species and localities. Sedirea and Neofinetia form an independent monophyletic genus, respectively, in both matK and nuclear ITS trees. The sister genus of the Neofinetia was Vanda in both trees. In addition, our trees support the separate recognition of the Neofinetia from Vanda rather than the inclusion of Neofinetia into Vanda. The sister group of the Sedirea was (Dimorphorchis(Pteroceras(Saccolabiun+Phalaeonopsis))) clade. The Dimorphorchis was one of the most probable sister genus to the Sedirea. The sister group relationship between Sedirea and Aerides was suggested by their similar morphology, but not supported in molecular trees. The identification of species and localities of Neofinetia was possible using our two molecular markers. However, several pseudo-gene sequences are discovered from the public data base. In addition, the horizontal gene transfer of chloroplast genomes is frequent events in orchid hybrids. Therefore, we need a careful evaluation for the data prior to systematic use. Generation of sequence data from multiple accessions of a species may helpful to reduce these types of error.

• The Plant Pathology Journal
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• v.38 no.2
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• pp.78-89
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• 2022

Phaeosphaeria species are pathogenic on wheat, barley and a wide range of wild grasses. To analyze mating type loci of the Phaeosphaeria species and investigate mating type distribution in Iran, we sequenced mating type loci of 273 Phaeosphaeria isolates including 67 isolates obtained from symptomatic leaves and ears of wheat, barley, and wild grasses from two wheat growing region in Iran as well as 206 isolates from our collection from other regions in Iran which were isolated in our previous studies. Mating type genes phylogeny was successfully used to determine the species identity and relationships among isolates within the Phaeosphaeria spp. complex. In this study, we reported seven new host records for Phaeosphaeria species and the Phaeosphaeria avenaria f. sp. tritici 3 group was first reported from Iran in this study. Mating type distribution among Phaeosphaeria species was determined. Both mating types were present in all sampling regions from Iran. We observed skewed distribution of mating types in one region (Kohgiluyeh va Boyer-Ahmad) and equal distribution in the other region (Bushehr). However, when considering our entire dataset of 273 Iranian Phaeosphaeria isolates, the ratio of mating types was not deviated significantly from 1:1 suggesting possibilities for isolates of opposite mating type to interact and reproduce sexually, although the sexual cycle may infrequently occur in some regions especially when the climatic conditions are unfavorable for teleomorph development.

• Journal of Microbiology and Biotechnology
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• v.5 no.5
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• pp.280-284
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• 1995

Aspergi11us niger F-580, a potent producer of aminopeptidase M inhibitor, was isolated from the brown spots of plant leaves with a pathological trait. The inhibitory activity was found only in the fungal mat formed by surface culture of Aspergi11us niger F-580, but not in the culture supernatant or cell pellet. The inhibitor was purified from the hot water extract of this fungal mat by using chromatographies on Diaion HP-20, DEAE-cellulose, Sephadex G-l0 and YMC-ODS-AQ columns. The purified inhibitor was analyzed by UV, mass, and NMR spectroscopies, and identified as OF494911, which had been isolated as an aminopeptidase B inhibitor from Penicillium rugulosum OF4949

• KOREAN JOURNAL OF CROP SCIENCE
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• v.36 no.1
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• pp.57-64
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• 1991

This experiment was conducted to elucidate the effect of plant growth regulators (PGR) on the root -mat formation of infant seedling (8- to 10-day-old seedling) of rice in machine transplanting. The rice seeds of Odaebyeo were socked in water with different concentrations of PGRs for 48 hours at room temperature. Seeding rate was 220 g per seed tray (30x60x3cm). Metalaxyl (25% wettable powder) was used for a fungicide. Generally, the metalaxyl-treated seeds markedly promoted the root growth of the rice seedling, while tetracy-cle, pachlobutrazol and NTN -821 reduced the seedling height and root length, and thickened the shoot diameter at higher concentation levels. Tetracycle decreased root length of the rice seedlings but increased root number per seedling, and root-mat formation was poor. Whereas, metalaxyl concentrations of 200 and 1,000 ppm markedly increased root length and number of root hairs without decreasing root number, thus root-mat formation was excellent. The optimum concentration of metalaxyl seed treatment to increase the root-mat formation of infant seedling of rice was about 200 ppm. Metalaxyl seed treatment could be advanced one to two days of the duration of root-mat formation compared with control.

• Korean Journal of Plant Taxonomy
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• v.40 no.4
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• pp.208-217
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• 2010

Crossosomatales is a recently recognized order in the rosid II clade with about 64 species in eight morphologically distinct families that have been previously classified in as many as 15 other orders. Phylogenetic relationships among the families and genera within Crossosomatales were investigated using chloroplast atpB, matK, and rbcL sequences employing maximum parsimony, maximum likelihood, and Bayesian methods. The phylogenetic framework was used to examine the patterns of morphological evolution and synapomorphies for subclades within Crossosomatales. The combined data with representative species from all genera in the order strongly supported monophyly of Crossosomatales. Strong support was found for the families in the Southern Hemisphere, in which Aphloiaceae is sister to the clade of (Geissolomataceae, (Ixerbaceae + Strasburgeriaceae)). The sister relationship between the Southern Hemisphere clade and families distributed primarily in the Northern Hemisphere was also supported. As in the previous studies, following relationships were found within the Northern Hemisphere clade: Staphyleaceae is sister to a clade of (Guamatelaceae, (Stachyuraceae + Crossosomataceae)). The pattern analysis indicates that evolutionary pattern of morphological characters is complex, requiring multiple changes within Crossosomatales. Several reproductive traits, such as inflorescence, aril, stigma, and conspicuous protrusion from pollen aperture, corroborate the molecular phylogeny.

• Weed & Turfgrass Science
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• v.4 no.1
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• pp.26-34
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• 2015

Korean Poaceae includes approximately 80 species of the agricultural weeds. Precise species identification is the first step for more effective weed management in the agricultural fields. However, the identification of species in Poaceae is not easy without the assistance of taxonomists or identification experts although they are relatively easy to distinguish from the plants of the other family by the unique characteristics of caryopsis. Thus, DNA barcode was suggested as an alternative powerful technique for species identification by using short sections of DNA from a specific region of the genome. Two standard barcode markers of vascular plants, chloroplast rbcL and matK, and a supplementary nuclear ribosomal Internal Transcribed Spacer (ITS) region were used for barcode of major Korean Poaceae weeds, 403 individuals of 84 taxa. All the barcode markers revealed a good level of sequencing success with the lowest 73.7% for matK and the highest 88.8% for rbcL. The barcode sequences were deposited to the National Center for Biotechnology Information (NCBI) database for public use. Combined matK and ITS showed very high resolving power with 92.9%. Besides the identification of weeds for weed managment, the generated DNA barcode data could be used for many other applications such as rapid biodiversity assessment and conservation prioritization.

• Horticultural Science & Technology
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• v.29 no.3
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• pp.201-210
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• 2011

This experiment was conducted to investigate physical and chemical characteristics by volume fractions of root media using peatmoss, perlite, and vermiculite, along with effects on the growth of pot chrysanthemums (Dendranthema ${\times}$ grandiflorum 'Vemini') in a C-channel mat irrigation system. To evaluate the physico-chemical properties of 20 root media, the bulk density, particle density, total pore space, pore space, ash content, organic matter, pH, and electrical conductivity were measured and data were analyzed using principal component analysis (PCA). PCA scores revealed that physico-chemical properties changed by the blending of peatmoss, perlite, and vermiculite. The 20 root media were divided into three main groups by hierarchical cluster analysis. At the end of the experiment, the pH and EC of the root media were measured from media divided into four layers. The pH of root media without plants showed a strong linear relationship and the pH of root media with plants increased exponentially. The change of EC in the root medium was indicated as a hyperbolic curve. Plant growth characteristics according to growth in the 20 root media were analyzed by PCA. It was found that the mixing ratios of the root media affected plant growth characteristics. Therefore, mixing ratio is an important factor for pot-plant production in a subirrigation system.

• Korean Journal of Agricultural Science
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• v.5 no.2
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• pp.49-55
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• 1978

In order to get healthy seedling of rice suitable for rice transplanter, the growing characteristics of the seedling grown under different growing days and sowing densities were invesigated and the results obtained were summarized as follows; In the 20 days old seedling, the difference of growing state of seed ling and its characteristics between the two types of nursery bed was not found, but for the 30 days old seedling, both of the crop growth rate and the relative growth rate on the band-type nursery bed appeared higher than those on the mat-type nursery bed. And also, "the dry weight, the content of cardohydrate and the ratio of dry weight to plant height of the seedling grown on the band-type nursery bed were much higher than those on the mat-type nursery bed, however the amount of difference of seedling characteristics between two types of nursery bed was decreased for 40 days old seedling and leaf number was not increased. The amount of the seedling growth was increased with less density of sowing and for the difference between the higher and the less density, the difference getting bigger with the longer nursery days. The maximum density of sowing was approximately 200cc per nursery case on the band-type nursery bed and 250cc per nursery case on the mat-type nursery bed. It was seemed that the growing uniformity of the seedling grown on the mat-type nursery bed was better than that on the band- type nursery bed, As the coefficient of variation of the plant height and the leaf numbers of the seedling grown on the band- type nursery bed was higher than that on the mat-type nursery bed.