• The Plant Pathology Journal
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• 제30권1호
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• pp.10-24
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• 2014

Genetic diversity and differentiation of 50 Colletotrichum spp. isolates from legume crops studied through multigene loci, RAPD and ISSR analysis. DNA sequence comparisons by six genes (ITS, ACT, Tub2, CHS-1, GAPDH, and HIS3) verified species identity of C. truncatum, C. dematium and C. gloeosporiodes and identity C. capsici as a synonym of C. truncatum. Based on the matrix distance analysis of multigene sequences, the Colletotrichum species showed diverse degrees of intera and interspecific divergence (0.0 to 1.4%) and (15.5-19.9), respectively. A multilocus molecular phylogenetic analysis clustered Colletotrichum spp. isolates into 3 well-defined clades, representing three distinct species; C. truncatum, C. dematium and C. gloeosporioides. The ISSR and RAPD and cluster analysis exhibited a high degree of variability among different isolates and permitted the grouping of isolates of Colletotrichum spp. into three distinct clusters. Distinct populations of Colletotrichum spp. isolates were genetically in accordance with host specificity and inconsistent with geographical origins. The large population of C. truncatum showed greater amounts of genetic diversity than smaller populations of C. dematium and C. gloeosporioides species. Results of ISSR and RAPD markers were congruent, but the effective maker ratio and the number of private alleles were greater in ISSR markers.

• ALGAE
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• 제28권1호
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• pp.53-62
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• 2013

Actinotrichia is a calcified galaxauracean red algal genus with temperate and tropical distributions in the Indian and Pacific Oceans. Morphological characteristics, along with rbcL and cox1 sequences, were analyzed from specimens collected in the western Pacific and the Indian Oceans. Both rbcL and cox1 data confirmed the occurrence of A. fragilis, A. robusta, and Actinotrichia sp. in this region. The presence of A. fragilis was verified in tropical Indo-Pacific and temperate northeast Asian waters and was characterized by high genetic diversity. Although A. robusta commonly occurs in the East China Sea, we confirmed its presence on rocks and crustose algae in the subtidal zone of three islands in the Andaman Sea. Actinotrichia sp. was similar to A. calcea in morphology and distribution, but with sufficiently different sequences, thus, additional sampling over the range will enable a more realistic evaluation of its taxonomic status.

• Asian-Australasian Journal of Animal Sciences
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• 제18권7호
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• pp.915-921
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• 2005

Genetic variation at 25 microsatellite loci, population structure, and genetic bottleneck hypothesis were examined for Ankleshwar poultry population found in Gujrat, India. The estimates of genetic variability such as effective number of alleles and gene diversities revealed substantial genetic variation frequently displayed by microsatellite markers. The average polymorphism across the studied loci and the expected gene diversity in the population were 6.44 and 0.670${\pm}$0.144, respectively. The population was observed to be significantly differentiated into different groups, and showed fairly high level of inbreeding (f = 0.240${\pm}$0.052) and global heterozygote deficit. The bottleneck analysis indicated the absence of genetic bottleneck in the past. The study revealed that the Ankleshwar poultry breed needs appropriate genetic management for its conservation and improvement. The information generated in this study may further be utilized for studying differentiation and relationships among different Indian poultry breeds.

• 한국자원식물학회지
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• 제19권6호
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• pp.716-720
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• 2006

The genetic diversity among the genus Viola was evaluated using the random amplified polymorphic DNA (RAPD) method. A total of 142 distinct amplification fragments by 18 random primers were scored to perform the cluster analysis with UPGMA. Viola species from the subsection Patellares were clustered into group I to IV. The groups from I to IV were consistent with its morphological taxonomy, series Pinnatae, Chinensis, Variegatae, and Patellares in the subsection Patellares, respectively. Even though V. albida and V. albida var. takahasii were classified in Chinensis, they were assigned into group I. The cluster analysis separated other subsections from Patellares in the section Nomimium. Interestingly, V. verecunda and V. grypoceras in subsections Biobatae and Trigonocarpae, respectively, were clustered into group C with a high similarity coefficient. Therefore, RAPD analysis can be used for providing an alternative classification system to identify genotypes and morphological characters of Viola species.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2018년도 춘계학술발표회
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• pp.105-105
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• 2018

Finger millet, Eleusine coracana Gaertn., is more nutritious than other cereals and millets and widely cultivate in tropical regions of the world. However, status of its genetic diversity remained concealed due to lack of research work in this species. In recent years, microsatellites have become the most used markers for studying population genetic diversity. In present study, genetic diversity and structure of different populations of finger millet from Africa and South Asia was examined at molecular level using newly developed EST-Simple Sequence Repeat (EST-SSR) markers using a total of 1,927 ESTs of Eleusine coracana available in the NCBI database. In total, 46 primers produced 292 alleles in a size range of 100-500 bp and mean Polymorphism Information Content (PIC) and Marker Index (MI) were 0.372 and 1.04, respectively. 46 primers showed polymorphism and 21 primers were identified as having a PIC value above 0.5. Principal coordinates analysis and the dendrogram constructed out of combined data of both markers showed grouping of finger millet accessions to their respective area of collection. The 156 accessions was classified into four groups, such as three groups of Africa collection and one group of Asia. Results of present study can be useful in identifying diverse accessions and management of this plant resource. Moreover, the novel SSR markers developed can be utilized for various genetic analyses in this species in future.

• Animal cells and systems
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• 제16권4호
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• pp.321-328
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• 2012

The oily bittering Acheilognathus koreensis is a freshwater species that is endemic to Korea and is experiencing severe declines in natural populations as a result of habitat fragmentation and water pollution. For the conservation and restoration of this species, it is necessary to assess its genetic diversity at the population level. We developed 13 polymorphic microsatellite loci that were used to analyze the genetic diversity of two populations collected from the Kum River and the Tamjin River in Korea. All loci exhibited Mendelian inheritance patterns when examined in controlled crosses. Both populations revealed high levels of variability, with the number of alleles ranging from 3 to 20 and observed and expected heterozygosities ranging from 0.500 to 0.969 and from 0.529 to 0.938, respectively. None of the loci showed significant deviation from Hardy-Weinberg equilibrium, and one pair of loci showed significant linkage disequilibrium after Bonferroni correction. Pairwise $F_{ST}$ and genetic distance estimation showed significant differences between two populations. These results suggest that the microsatellites developed herein can be used to study the genetic diversity, population structure and conservation measure of A. koreensis.

• 한국육종학회지
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• 제42권4호
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• pp.365-373
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• 2010

TILLING (Targeting Induced Local Lesions IN Genomes) is broadly regarded as an excellent methodology for reverse genetics applications. Approximately 15,000 $M_3$ TILLING lines have been developed via the application of gamma-ray irradiation to rice seeds (cv. Donganbyeo), followed by subsequent selections. In an effort to evaluate the genetic diversity of the TILLING population, we have employed the AFLP multiple dominant marker technique. A total of 96 (0.64%) TILLING lines as well as Donganbyeo were selected randomly and their genetic diversity was assessed based on AFLP marker polymorphisms using 5 primer combinations. An average of 100.4 loci in a range of 97 to 106 was detected using these primer combinations, yielding a total of 158 (31.4%) polymorphic loci between Donganbyeo and each of the 96 lines. A broad range of similarity from 80% to 96% with an average of 89.4% between Donganbyeo and each of the 96 lines was also observed, reflecting the genetic diversity of the TILLING population. Approximately 28 polymorphic loci have been cloned and their sequences were BLAST-searched against rice whole genome sequences, resulting in 20 matches to each of the gene bodies including exon, intron, 1 kb upstream and 1 kb downstream regions. Six polymorphic loci evidenced changes in the coding regions of genes as compared to the rice pseudomolecules, 4 loci of which exhibited missense mutations and 2 loci of which exhibited silent mutations. Therefore, the results of our study show that the TILLING rice population should prove to be a useful genetic material pool for functional genomics as well as mutation breeding applications.

• 농업과학연구
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• 제50권3호
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• pp.321-330
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• 2023

The genetic diversity of three Hanwoo populations was analyzed using 11 microsatellite (MS) markers for the traceability of Hanwoo beef in this study. A total of 1,099 Hanwoo cattle from two populations (694 line-breeding and 405 general Hanwoo) at the Hanwoo Research Institute (HRI) of the National Institute of Animal Science and 1,171 Korean proven bulls (KPNs) were used for the analysis. Specific alleles of four markers (ETH10, INRA23, TGLA122, and TGLA227) were identified only in the line-breeding population, although at a low allele frequency (0.001 - 0.02). The genetic distance (Nei's D) between line-breeding Hanwoo and KPN was the greatest (0.064), whereas general Hanwoo and KPN were relatively close genetically (0.02); the distance between line-breeding and general Hanwoo was found to be 0.054. These results are expected because the HRI has performed closed breeding via selecting its line-breeding sires without utilizing KPN since 2009. Therefore, the line-breeding Hanwoo population of HRI show different genetic diversity from the KPN population, based on the 11 MS markers. The results of this study provide basic data for securing the genetic diversity of Hanwoo cattle and utilizing line-breeding Hanwoo cattle from the HRI.

• International Journal of Industrial Entomology and Biomaterials
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• 제24권2호
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• pp.57-61
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• 2012

The Indian Oak Tasar silkworm, Antheraea proylei J. is a beneficial insect with great economic importance in India for its silk production. In this study, six populations of Antheraea proylei and A. frithi Moore (as an out group) were subjected to inter simple sequence repeat (ISSR) marker analysis in order to assess its genetic diversity. Fifteen ISSR primers produced 91 markers among different breeds of A. proylei and A. frithi of which 89 are polymorphic, generating 97.8% polymorphism. The dendrogram constructed using the Unweighted Pair Group Method with Arithmetic Mean (UPGMA) and cluster analysis made using Nei's genetic distance resulted in the formation of one major group containing four sub-groups separating the breeds. This result suggests that ISSR amplification is potentially useful for molecular characterization of oak tasar silkworm genotypes.

• Weed & Turfgrass Science
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• 제5권3호
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• pp.144-154
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• 2016

Goosegrass [Eleusine indica (L.) Gaertn] has been a nuisance to growers in Malaysia due to its increased resistance to commercial herbicides, rapid growth and dissemination, and interference with agricultural practices. In the course of developing an apt integrated management to control goosegrass, more information of this weed is needed. The aim of this study was to look into variations among the goosegrass ecotypes sampled throughout Malaysia from the aspects of genotype and phenotype. Sequence-related amplified polymorphism (SRAP) markers were employed in investigating the genetic diversity and relationships among the 18 goosegrass ecotypes. Consequently, 5 primer combinations amplified 13 fragments with the polymorphism rate of 69.23%. At 74% similarity, the ecotypes were clustered into 6 groups. Phenotypic variability of the goosegrass ecotypes was assessed by observing their morphology, growth and seed traits. Goosegrass ecotypes were sorted into 3 major groups at the genetic distance (DIST) of 0.37. Concurrences of the evaluated genetic distance, ecotypes with the closest and most distant relationships were assembled together in Group I which showed high variation even among ecotypes in the same group. Results obtained thus implied high molecular and morphological variations of the goosegrass ecotypes in Malaysia.