• The Plant Pathology Journal
• /
• v.26 no.1
• /
• pp.70-79
• /
• 2010

Rice blast is one of the serious devastating diseases. This study was carried out to determine the genetic diversities of blast resistance (R) genes form 86 accessions of aromatic rice with eight SNP markers, z4792, zt4792, z60510, zt6057, k6415, k6411, k39575 and t256, which showed the close-set linkage to 6 major genes, Piz, Piz-t, Pik, Pik-m, Pik-p, and Pit. Four accessions of indica type, Mayataung, Yekywin Yinkya Hmwe, Basmati9-93, and Basmati5854, showed the positive amplicons of six major genes. Among 86 accessions, 83 accessions were detected both or one of Piz and Piz-t genes. Seventy three accessions contained the Piz gene with z4792 marker. In addition, 30 and 71 accessions possessed Piz-t gene with zt4792 and zt6057 markers, respectively. Ten accessions showed the positive bands for the Piz-t gene with both zt4792 and zt6057 markers. Only one accession, Khau Nua Keo, was not amplified for both Piz and Piz-t gene. But japonica type, Gerdeh, possessed only Piz gene between Piz and Piz-t. Fifty two accessions showed the three of Pik multiple genes and Pit gene. Four accessions, Iari7447, Daebunhyangdo2, Shiyayuuine, and Basmati 6129 possessed a Pik-p gene. Especially, Pit gene on chromosome 1 was detected with t256 marker in all of 83 accessions, exception of A-2, one accession of japonica type.

• Proceedings of the Korean Society of Crop Science Conference
• /
• 2017.06a
• /
• pp.188-188
• /
• 2017

Rice (Oryza sativa L.) is one of the major crops that is seriously impacted by global soil salinization. Rice is among those crops where most of the high-yielding cultivars are highly sensitive to salinity. The key to a plant survival under NaCl salt stress is by maintaining a high $K^+/Na^+$ ratio in its cells. Selection for salinity tolerance genotypes of rice based on phenotypic performance alone is less reliable and will delay in progress in breeding. Recent advent of molecular markers, microsatellites or simple sequence repeats (SSRs) were used to find out salt tolerant rice genotypes. In the current experiment phenotyping and genotyping studies were correlated to differentiate different rice accessions for salinity tolerance. Eight rice accessions along with check plant Dongjin were screened by physiological studies using Yoshida solution with 50mM NaCl stress condition. The physiology studies identified four tolerant and four susceptible accessions based on their potassium concentration, sodium concentration, $K^+/Na^+$ ratio and biomass. 17 SSR markers were used to evaluate these rice accessions for salt tolerance out of which five molecular markers were able to discriminate tolerant accessions from the susceptible accessions. Banding pattern of the accessions was scored comparing to the banding pattern of Dongjin. The study identifies accessions based on their association of $K^+/Na^+$ ratio with molecular markers which is very reliable. These markers identified can play a significant role in screening large set of rice accessions for salt tolerance; these markers can be utilized to improve salt tolerance of commercial rice varieties with marker-assisted selection (MAS) approach.

• Plant Resources
• /
• v.6 no.3
• /
• pp.195-204
• /
• 2003

Genetic diversity of 45 tea accessions from Korea, Japan, China and Taiwan was investigated by using RAPD analysis. Out of the eighty primers screened, twenty primers generated 99 polymorphic bands with a polymorphic rate 87.0%. The size of the amplified fragments ranged from about 3,138 bp to 520 bp. By cluster analysis, all of the 45 accessions can be grouped into five groups. Over 90% of the 32 Korean accessions belonged to group II, III, IV and V. Moreover, newly developed Korean cultivars (accession no. 13, 14 and 15) belonged to very different group compared with any other Korean accessions. Among the Korean accessions, the minimum genetic similarity 0.500 was obtained between accession no. 17 and 37 and the largest genetic similarity 0.912 between no. 20 and 21.

• KOREAN JOURNAL OF CROP SCIENCE
• /
• v.56 no.4
• /
• pp.329-341
• /
• 2011

The objective of this study was to determine the genetic diversities of major rice blast resistance genes among 84 accessions of aromatic rice germplasm. Eighty four accessions were characterized by a dominant 11 set of PCR-based SNP and CAPS marker, which showed the broad spectrum resistance and closest linkage to seven major rice blast resistance (R) genes, Pia, Pib, Pii, Pi5 (Pi3), Pita (Pita-2), and Pi9 (t). The allele specific PCR markers assay genotype of SCAR and STS markers was applied to estimate the presence or absence of PCR amplicons detected with a pair of PCR markers. One indica accession, Basmati (IT211194), showed the positive amplicons of five major rice blast resistance genes, Pia, Pi5 (Pi3), Pib, Pi-ta (Pi-ta2), and Pik-5 (Pish). Among 48 accessions of the PCR amplicons detected with yca72 marker, only five accessions were identified to Pia gene on chromosome 11. The Pib gene was estimated with the NSb marker and was detected in 65 of 84 accessions. This study showed that nine of 84 accessions contained the Pii gene and owned Pi5 (Pi3) in 42 of 84 accessions by JJ817 and JJ113-T markers, which is coclosest with Pii on chromosome 9. Only six accessions were detected two alleles of the Pita or Pita-2 genes. Three of accessions were identified as the Pi9 (t) gene locus.

• Horticultural Science & Technology
• /
• v.32 no.2
• /
• pp.210-216
• /
• 2014

The distribution of S-haplotypes and genetic relationships were evaluated for 47 accessions of 'Danji' radish (Raphanus sativus L. var. hortensis Baker f. gigantissimus Makino) originating from Jeju Island in South Korea. A total of 22 S-haplotype-specific SCAR markers for the S locus glycoprotein (SLG) and S receptor kinase (SRK) loci were tested, and six primer sets amplified locus-specific PCR fragments from at least one 'Danji' radish accession. S5 and S21 alleles atthe SLG locus were the most frequently distributed, and detected from 87.5% and 64.6% of the accessions, respectively. The frequency of the class-II haplotype at the SLG locus was 75%, more frequent than the class-I haplotype. The S23 allele at the SRK locus was detected from 7 accessions. Grouping of the accessions based on S-allele composition revealed three major groups, while 8 accessions showed a unique allelic composition. The genetic diversity of 47 'Danji' radishes and 1 'Gwandong' radish were also evaluated with 38 RAPD primers. A total of 312 bands were scored, and showed that 138 bands (44.2%) were monomorphic among the accessions, whereas 174 (55.8%) bands were polymorphic. Polymorphism rates ranged from 0.2 to 1.0, indicating significant variations in detecting polymorphism across RAPD primers. The genetic similarity coefficients among all pairs of the 48accessions varied from 0.62 to 0.93, and 42% of the comparisons exhibited values higher than 0.85. All the cultivars could be distinguished based on the DNA fingerprints revealed by RAPD. The comparisons between the dendrograms based on S-haplotypes and RAPDs indicate an unrelated and sporadic distribution for several accessions; however, there was a tendency for accessions with the same S-allelic composition to group into the same cluster.

• The Plant Pathology Journal
• /
• v.26 no.3
• /
• pp.273-279
• /
• 2010

We evaluated 209 Capsicum accessions from the National Agrobiodiversity of RDA, for their reaction against of anthracnose disease caused by Colletotrichum acutatum. Two hundred nine accessions of Capsicum were almost composed with Capsicum annuum var. annuum originated from 37 countries. The percentage of infection due to C. acutatum ranged from 11.1% to 100% on immature and matured pepper fruits at 21 days after inoculation. On immature fruits of pepper, one hundred seventy three accessions of tested pepper were found infected with C. acutatum. Out of the 173 accessions, eighty five accessions were susceptible to anthracnose with dark brown to black lesions and slowly increased in size at 21 days after inoculation. Only thirty six accessions showed resistance against C. acutatum. On mature fruits of pepper, one hundred ninety eight accessions were infected with C. acutatum at 21 days after inoculation. Twenty one accessions showed a resistance reaction against C. acutatum. The results of this work indicated that all of resistance accessions to C. acutatum were have a genetic potential for the resources of resistance can be further used in pepper breeding programme against anthracnose and also demand more detailed investigation in this.

• Horticultural Science & Technology
• /
• v.35 no.1
• /
• pp.108-120
• /
• 2017

Modern watermelon cultivars (Citrullus lanatus [Thunb.] Matsum.& Nakai var. lanatus) have fruits with diverse phenotypes, including fruit shape, rind patterns, and flesh color. Molecular markers enable efficient selection of plants harboring desirable phenotypes. In the present study, publicly available DNA markers tightly linked to fruit shape, rind stripe pattern, and flesh color were evaluated using 85 watermelon accessions with diverse fruit phenotypes. For fruit shape, the dCAPS SUN - Cla011257 marker revealed an 81% of marker - trait match for accessions with elongated or round fruits. For rind stripe pattern, the SCAR wsb6-11marker was effective for selecting Jubilee-type rind pattern from other rind patterns. For flesh color, the Clcyb.600 and Lcyb markers derived from a mutation in the Lycopene ${\beta}$ - cyclase (Lcyb) gene, were effective at selecting red or yellow flesh. Forty-eight accessions possessing diverse fruit - related traits were selected as a reference array and their genetic relationships assessed using 16 SSR markers. At a coefficient of 0.11, the 48 accessions grouped into two major clades: Clade I and Clade II. Clade I subdivided further into subclades I - 1 and I - 2 at a coefficient of 0.39. All accessions with colored flesh were classified into Clade I, whereas those with white - flesh were classified into Clade II. Differences in fruit traits between subclades I - 1 and I - 2 were observed for rind pattern and fruit color; a majority of the accessions with Crimson-type striped or non-striped rind were grouped together in subclade I - 1, while most accessions in subclade I - 2 had a Jubilee - type rind stripe pattern. These results imply that reference array watermelon accessions possess distinguishable genetic structure based on rind stripe pattern. However, no significant grouping pattern was observed based on other fruit-related traits.

• KOREAN JOURNAL OF CROP SCIENCE
• /
• v.65 no.4
• /
• pp.447-456
• /
• 2020

Peanut is an allotetraploid derived from a single recent polyploidization. Polyploidization has been reported to have caused significant loss in genetic diversity during the domestication of cultivated peanuts. Single nucleotide polymorphism (SNP)-based markers such as cleaved amplified polymorphic sequences (CAPS) derived from next-generation sequencing (NGS) have been developed and widely applied for breeding and genetic research in peanuts. This study aimed to identify the genetic diversity and population structure using 30 CAPS markers and 96 peanut accessions from five different origins. High genetic dissimilarities were detected between the accessions from Korea and those from the other three South American origins generally regarded as the origin of peanuts, while the accessions from Brazil and Argentina presented the lowest genetic dissimilarity. Based on the results of the present study, accessions from Korea have unique genetic variation compared to those from other countries, while accessions from the other four origins are closely related. Our study identified the genetic differentiation in 96 peanut accessions from five different origins, and this study also showed the successful application of SNP information derived from re-sequencing based on NGS technology.

• Korean Journal of Plant Resources
• /
• v.36 no.3
• /
• pp.237-255
• /
• 2023

Variations in phenotypic traits are important for onion genetic improvement. The aim of this study was to identify the phenotypic traits of temporary genetic resources and the best accessions for the development of onion breeding programs. Sixteen phenotypic traits of 79 onion accessions were studied. The descriptive statistics of phenotypic traits exhibited a high variation in onion accessions. Among the 79 evaluated accessions, 64.55% had a large bulb neck width and 44.30% had a circular bulb shape. Principal component analysis showed that six principal components (PCs) accounted for 72.65% of the total variation. The main factors contributing to PC1 were bulb weight, equatorial and bulb polar diameters, plant height, and degree of splitting into bulblets, whereas those contributing to PC2 were the bulb color of the epidermal cells of the fleshy scales and color of the dry skin on the bulb. The accessions were classified into three groups-clusters 1, 2, and 3. Cluster 2 accessions were the most suitable for selecting large and circular bulb-shaped onion cultivars. The phenotypic variation observed in this study may help to select potential accessions for breeding new onion cultivars.

• Korean Journal of Weed Science
• /
• v.30 no.2
• /
• pp.68-83
• /
• 2010

Weedy rice (Oryza sativa L.) occurred sympatrically with other weeds and the rice crop in Malaysian rice granaries. We conducted field surveys in 2006-2008 seasons in 7 farm blocks of Selangor's North West Project, Malaysia to enlist the new biotypes of weedy rice (NBWR) and assess their spatio-temporal pattern of distribution based on quantitative and dispersion indices. No less than 16 accessions of NBWR were identified based on their special traits, viz. panicle type, pericarp colour, presence or absence of awn, seed type and degree of grain shattering. The NBWR accessions exhibited a combination of morphological traits from open panicle, grain with awns, red pericarp, short grain type, and degrees of grain shattering. Others mimic commercial rices with close panicle, awnless grains, white pericarp, long or short grain-type. Invariably, the NBWRs mimic and stand as tall as cultivated rice namely MR219, MR220, or MR235 and these NBWR accessions stand among equals morphologically vis-a-vis the commercial rice varieties. Most accessions displayed varying degrees of grain shattering in excess of 50%, except Acc9 and Acc12. The seasonal dynamics of on the prevalence of dominant NBWR accessions were also displaying significant differences among farm blocks. While Bagan Terap farm block, for example, did not record any measurable changes in the dominant NBWR accessions over seasons, the Sungai Leman farm block recorded measurable season-mediated changes in the dominant NBWR accessions. Sungai Leman started with NBWR Acc3, Acc4, Acc5, Acc7, Acc8, and Acc12 in season 1 of 2006/2007, but no measurable records of Acc3 and Acc5 were shown in season 2 of 2007. In season 3 of 2007/2008, only Acc8 and Acc12 prevailed in the farm block. In Sawah Sempadan farm block, season 3 of 2007/2008 showed much reduced prevalence of NBWRs leaving only Acc8 and Acc12. Most accessions registered clump or under-dispersed spatial distribution pattern based on quantitative indices: variance-to-mean ratio (VMR) and Lloyd's patchiness values. The dynamics on the extent of infestation and prevalence of dominant NBWR accessions registered both season- and farm-block mediated differences. Most accessions showed VMR >1 thus indicative of having a clump or clustered spatial distribution, as exemplified by Acc3, Acc4, Acc7, Acc8 and Acc12 in all farm blocks throughout three seasons. Some accessions have either random or uniform distribution in a few farm blocks. The Acc8 has the highest population counts based on important value index, followed by Acc12, and both were the most dominant accession while Sawah Sempadan was the worst farm block infested by NBWR compared to other farm blocks. These results were discussed in relation with the current agronomic and weed management practices, water availability and extension services in the granary.