• Asian-Australasian Journal of Animal Sciences
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• 제15권3호
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• pp.309-314
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• 2002

Random Amplified Polymorphic DNA (RAPD) assay was conducted to identify polymorphic markers in Amrithmahal, Krishna Valley, Hallikar, Deoni, Khillari, Ongole and Malnad Gidda breeds of South Indian cattle using twenty six primers. Of the 93 RAPD markers obtained, 53 were present in all breeds, 22 were individual specific and 18 were polymorphic for different breeds. Dual purpose breeds viz., Krishna Valley and Ongole showed less genetic divergence between them as compared to their genetic divergence from draft breeds viz., Amrithmahal, Hallikar and Khillari. Malnad Gidda was found to be a distinctly different from others studied.

• International Journal of Industrial Entomology and Biomaterials
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• 제29권2호
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• pp.169-178
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• 2014

In this study, we investigated genetic diversity of 22 microsporidian isolates infecting tropical tasar silkworm, Antheraea mylitta collected from various geographical forest locations in the state of Jharkhand, India, using polymerase chain reaction (PCR)-based marker assay: random amplified polymorphic DNA (RAPD). A type species, NIK-1s_mys was used as control for comparison. The shape of mature microsporidians was found to be oval to elongate, measuring 3.80 to $5.10{\mu}m$ in length and 2.56 to $3.30{\mu}m$ in width. Of the 20 RAPD primers screened, 16 primers generated reproducible profiles with 298 polymorphic fragments displaying high degree of polymorphism (97%). A total of 14 RAPD primers produced 45 unique putative genetic markers, which were used to differentiate the microsporidians. Calculation of genetic distance coefficients based on dice coefficient method and clustering with un-weighted pair group method using arithmetic average (UPGMA) analysis was conducted to unravel the genetic diversity of microsporidians infecting tasar silkworm. The similarity coefficients varied from 0.059 to 0.980. UPGMA analysis generated a dendrogram with four microsporidian groups, which appear to be different from each other as well as from NIK-1s_mys. Two-dimensional distribution based on Euclidean distance matrix also revealed considerable variability among different microsporidians identified from the tasar silkworms. Clustering of few microsporidian isolates was in accordance with the geographic origin. The results indicate that the RAPD profiles and specific/unique genetic markers can be used for differentiating as well as to identify different microsporidians with considerable accuracy.

• International Journal of Industrial Entomology and Biomaterials
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• 제30권1호
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• pp.6-16
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• 2015

This study established the genetic characterisation of 10 microsporidian isolates infecting non-mulberry silkworms (Antheraea assamensis and Samia cynthia ricini) collected from biogeographical forest locations in the State of Assam, India, using PCR-based markers assays: inter simple sequence repeat (ISSR) and random amplified polymorphic DNA (RAPD). A Nosema type species (NIK-1s_mys) was used as control for comparison. The shape of mature microsporidian spores were observed oval to elongated, measuring 3.80 to $4.90{\mu}m$ in length and 2.60 to $3.05{\mu}m$ in width. Fourteen ISSR primers generated reproducible profiles and yielded 178 fragments, of which 175 were polymorphic (98%), while 16 RAPD primers generated reproducible profiles with 198 amplified fragments displaying 95% of polymorphism. Estimation of genetic distance coefficients based on dice coefficients method and clustering with un-weighted pair group method using arithmetic average (UPGMA) analysis was done to unravel the genetic diversity of microsporidians infecting Indian muga and eri silkworm. The similarity coefficients varied from 0.385 to 0.941 in ISSR and 0.083 to 0.938 in RAPD data. UPGMA analysis generated dendrograms with two microsporidian groups, which appear to be different from each other. Based on Euclidean distance matrix method, 2-dimensional distribution also revealed considerable variability among different identified microsporidians. Clustering of these microsporidian isolates was in accordance with their host and biogeographic origin. Both techniques represent a useful and efficient tool for taxonomical grouping as well as for phylogenetic classification of different microsporidians in general and genotyping of these pathogens in particular.

• Asian-Australasian Journal of Animal Sciences
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• 제19권11호
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• pp.1519-1523
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• 2006

Through a screening and selection approach method, decamer random markers were used in a technique called random amplified polymorphic DNA (RAPD) assay with 252 genomic DNAs isolated from four major Haimen chicken populations: Rugao (62), Jiangchun (62), Wan-Nan (63) and Cshiqishi (65). A total of 3-score decamer random primers (S241-S260, S1081-S1100 and S1341-S1360) were employed in the preliminary RAPD-polymerase chain reaction (RAPD-PCR) assay with 50 random template DNA samples from all the populations. Four (6.67%) of the primers that produced obvious polymorphic patterns, interpretable and reproducible bands were selected and used with both the individual DNAs from each population and with pooled DNA samples of the four populations in subsequent analyses. The selected primers produced a total of 131 fragments with molecular size ranging from 835 to 4,972 base pairs (bp) when used with the individual DNAs; 105 (80.15%) of these fragments were polymorphic. With the pooled DNAs, 47 stable and characteristic bands with molecular size ranging from 840 to 4,983 bp, of which 23 (48.94%) polymorphic, were also generated. The band-sharing coefficient (BSC) calculated for the individuals in the population and among populations of bulked samples was between 0.8247 (Rugao) and 0.9500 (Cshiqishi); for pairwise populations, it was between 0.7273 (Rugao vs. Wan-Nan) and 0.9367 (Jiangchun vs. Cshiqishi) chicken populations. Using the BSC for individual and pairwise populations, the Nei's standard genetic distances between the chicken populations were determined and ranged from 0.0043 (Jiangchun vs. Cshiqishi) to 0.1375 (Rugao vs. Cshiqishi). The reconstructed dendrogram linked the Jiangchun and Cshiqishi chickens as closely related populations, followed by Wan-Nan, while the Rugao was the most genetically distant among the populations.

• 한국미생물·생명공학회지
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• 제49권2호
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• pp.239-248
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• 2021

The emergence of multidrug-resistant Acinetobacter baumannii has partly increased treatment failure and patient mortality. Class D β-lactamases is an important mechanism of resistance to beta-lactam antibiotics in this species. This study aimed to investigate the relationship between the presence oxacillinase gene and genetic fingerprints of A. baumannii isolates from the intensive care unit of an Egyptian tertiary care hospital. One hundred and twenty A. baumannii clinical isolates were collected. Multiplex PCR was performed to detect genes encoding oxacillinases (OXA-23, OXA-24, OXA-51, OXA-58 and OXA-143). Molecular typing of all collected isolates was performed using random amplified polymorphic DNA (RAPD)-PCR assay. Out of 120 examined isolates, 92, 88 and 84% were resistant to ertapenem, imipenem and meropenem, respectively. The species-specific, commonly present OXA-51 gene was found in all isolates while OXA-23 showed a high prevalence of 88% of isolates. OXA-24 and OXA-143 genes were detected in 3% and 1% of isolates, respectively. No OXA-58 gene was detected. Five clusters consisting of 19 genotypes were detected using RAPD-PCR. Genotype A was the most prevalent, it was observed in 62% of the isolates followed by genotype B (12%). These results revealed that genotypes A and B are common in the hospital. Results also demonstrate that RAPD-PCR is a rapid and reliable method for studying the clonal similarity among A. baumannii isolated from different clinical specimens.

• 한국생물공학회:학술대회논문집
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• 한국생물공학회 2005년도 생물공학의 동향(XVII)
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• pp.899-903
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• 2005

Two infectious species of Streptococcosis pathogens were detected by multiplex PCR assay. Detection rates of Streptococcus iniae and S. parauberis could reach 44.9% and 55.1% respectively for one year during 2004 to 2005 in Jeju island. These findings showed that S. parauberis strains were important pathogen with streptococcosis of olive flounder in Jeju island. These findings showed that S. parauberis strains were important pathogen with streptococcosis of olive flounder in Jeiu island. In the present study we have investigated the interspecific relationship of all Jeju area of S. parauberis by RAPD analysis. Represent strains divided to four groups by RAPD fingerprints. The important differences observed between the olive flounder isolates suggest that they could constitute a well-differentiated group or a separate clonal line within this bacterial species. Though, serological research of S. parauberis strains in Jeju island not exist yet. These strains doing the serological evolution.

• The Plant Pathology Journal
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• 제29권4호
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• pp.357-363
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• 2013

The fungus Venturia nashicola is the causal agent of scab on Asian pears. For the rapid and reliable identification as well as sensitive detection of V. nashicola, a PCR-based technique was developed. DNA fingerprints of three closely related species, V. nashicola, V. pirina, and V. inaequalis, were obtained by random amplified polymorphic DNA (RAPD) analysis. Two RAPD markers specific to V. nashicola were identified by PCR, after which two pairs of sequence characterized amplified region (SCAR) primers were designed from the nucleotide sequences of the markers. The SCAR primer pairs, designated as D12F/D12R and E11F/E11R, amplified 535-bp and 525-bp DNA fragments, respectively, only from genomic DNA of V. nashicola. The specificity of the primer sets was tested on strains representing three species of Venturia and 20 fungal plant pathogens. The nested PCR primer pair specific to V. nashicola was developed based on the sequence of the species-specific 525-bp DNA fragment amplified by primer set E11F/E11R. The internal primer pair Na11F/Na11R amplified a 235-bp fragment from V. nashicola, but not from any other fungal species tested. The nested PCR assay was sensitive enough to detect the specific fragment in 50 fg of V. nashicola DNA.

• 아시안잔디학회지
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• 제20권1호
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• pp.65-76
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• 2006

난지형 잔디인 한국 안양잔디에서 달라스팟의 병원균인 Sclerotinia honoeocarpa의 isolate, Scz1이 최근 새롭게 동정되었다. Scz1은 한지형 잔디인 크리핑 벤트그래스에서 분리된 표준 균주인 Scb1과는 다른 균사의 색상, 균사간의 친밀도 그리고 병 기주 특이성을 가지는 것으로 알려졌다. 본 연구에서는, Scz1, Scz2(난지형 잔디에서 분리한 또 다른 달라스팟 병원균) 그리고 Scb1을 분자생물학적인 연구, internal transcribed spacer(ITS) 와 random amplified polymorphic DNA(RAPD) assays를 이용하여 동정 및 유전자적 차이를 알아보았다. ITS 실험의 결과, 3개의 isolates가 ITS 부분적 염기 서열 비교 BLAST에 등록되어 있는 S. homoeocarpa의 ITS 염기 서열과 $94{\sim}97%$의 동일성을 지니는 것으로 밝혀졌다. RAPD 실험 결과로는, Scz1과 Scb1의 similarity matrix 범위는 0.167이였고, Scz2와 Scb1은 0.139 그리고, Scz1과 Scz2은 0.713이였다. 계통수(系統樹) 결과는 Scb1과는 달리 Scz1과 Scz2는 유전적으로 높은 동일성을 지니고 있어, 같은 분류에 속한다는 것을 알 수 있었다. 달라스팟 병원균 억제에 효과적인 농약인 프로피코나졸에 대한 $EC_{50}$은 Scz1은 0.012 ${\mu}g/ml$, Scz2은 0.003 ${\mu}g/ml$ 그리고 Scb1은 0.030 ${\mu}g/ml$이었다. 상기 결과로, 동일 병원 기주성과 유사한 유전적 친밀성을 보인 Scz1과 Scz2는 S. homoeocarpa의 동일 그룹에 속하였으나 농약 민감도에서는 차이점을 보였다는 것을 알 수 있었다. 향후, 보다 더 많은 한지형과 난지형 잔디에서 분리된 병원균들을 이용하여 유전적 다양성을 밝히는 연구가 진행되어야 할 것이다.

• 아시안잔디학회지
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• 제11권1호
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• pp.73-85
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• 1997

Although zoysia grass (Zoysia spp.) has a lot of excellent chracteristics as warm-season grass, it have been limited in use due to slow establishment, low seed production, poor shade tolerance and other factors. Breeding trials have been continued from 1900's, much attentions have been paid especially in U.S.A., Korea and Japan recently. In U.S.A., more than 24 varieties had been evaluated at National Turfgrass Evaluation Program(NTEP) from 1991 to 1995 and some were regsistered as commercial. After the 6th International Turfgrass Research Conference at Japan in 1989, Japan Turfgrass In-corporation (JTI) sponsored by private companies and government carried out breeding programs for pest, salt, and shade tolerant and herbicide resistant varieties. JTI also has been trying to im-prove vigor and breed evergreen zoysia Korean breeders collected germplasms since 1960's. After USDA breeders came to Korean penesula in 1982, Korean breeders joined with USDA zoysia breeding project for several years. Many interspecific hybrids and natural selected varieties were breeded that period both in U.S.A and Korea. Breeding objectives were to extend green color period, improve leaf quality and density, and better leaf color at dormant stage. Since 1990's, zoysia grass breeding trials are getting more diverse in many points such as random amplified polymorphic DNA (RAPD) assay for ecotype identification. The objectives of this study are to evaluate germplasms in Korea, and also review the present status and future prospect in zoysia grass breeding in the world.

• 생명과학회지
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• 제17권3호통권83호
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• pp.386-395
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• 2007

본 연구는 1999년에서 2001년도 걸쳐서 3년간 국내에서 분리된 환자유래 장염비브리오 18균주와 일본 후쿠오카 지역에서 2002년도에 환자에서 분리한 장염비브리오 9균주 등 총 27균주에 대하여 toxR 유전자의 검출, 혈청형별 검사, 약제내성의 양상, tdh, trh1 및 trh2 유전자의 보유상태 및 urease 생성성을 살펴보고, 혈청형 O3:K6 균주에 대하여 TDH의 생성성 검사, tdh 양성균주의 RFLP 형별, ORF 8의 분포, PFGE법과 RAPD법을 실시하였으며 결과는 다음과 같다. 1. 한국 및 일본의 환자유래 균주 대부분에서 urease음성이었으며, toxR 유전자로 확인 동정하였고 혈청형의 분포는 국내 분리 주의 O3:K6, O4:K9, O6:K46, O3:K57, O5:Kl5와 일본 분리주의 O3:K6, O1:K38, O4:K68, O4:Kl2의 혈청형으로 나타났다. 2. 항생제 감수성 시험에서는 vancomycin과 oxacillin은 27균주 (100%), penicillin은 26균주 (96.3%)로 높은 내성을 나타내었고, 14균주 (51.9%)가 4가지 이상의 항생제에 다제내성을 나타내었다. 항생제의 내성양상은 6종류로 혈청형에 관계없이 vancomycin, oxacillin, penicillin에 내성을 나타내는 V형이 15균주 (55.6%)로 가장 많이 나타났다. 3. tdh 유전자는 26균주가 PCR법과 DNA probe hybridization법의 결과에서 양성으로 나타났으며, urease양성이었던 일본 환자유래 혈청형 O3:K6 1균주만이 tdh유전자 음성, trh2 유전자 양성을 나타냈다. 혈청형 O3:K6의 TDH 생성성역가는 전 균주가 256배에서 2,048배 정도로 나타났으며, RFLP 양상은 모든 균주가 11.5 kb와 4.3 kb에 tdh 유전자를 보유하고 있었다. 또한 혈청형 O3:K6 균주들은 RAPD법과 PFGE법으로 유전자형별을 비교 검토한 결과 8형으로 거의동일한 유전자형별의 결과를 나타내었다. 4. ORF 8의 분포는 혈청형 O3:K6 전 균주에서 양성이었고, 특히 혈청형 O6:K46 4균주 모두에서 ORF 8 양성을 나타내어 새롭게 나타난 유행균주일 가능성을 시사 하였다. 따라서 ORF 8 유전자의 검출은 범세계적으로 유행하는 균주들을 동정하는데 있어 genetic marker로서 매우 유용한 것으로 사료된다.