• The Plant Pathology Journal
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• 제34권6호
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• pp.490-498
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• 2018

Panicle blight and seed rot disease caused mainly by Burkholderia glumae and Burkholderia gladioli is threatening rice cultivation worldwide. The bacteria have been reported as seed-borne pathogens from rice. Accurate detection of both pathogens on the seeds is very important for limiting the disease dissemination. Novel primer pairs targeting specific molecular markers were developed for the robust detection of B. glumae and B. gladioli. The designed primers were specific in detecting the target species with no apparent cross-reactions with other related Burkholderia species at the expected product size. Both primer pairs displayed a high degree of sensitivity for detection of B. glumae and B. gladioli separately in monoplex PCR or simultaneously in duplex PCR from both extracted gDNA and directly preheated bacterial cell suspensions. Limit of detection was as low as 0.1 ng of gDNA of both species and $3.86{\times}10^2cells$ for B. glumae and $5.85{\times}10^2cells$ for B. gladioli. On inoculated rice seeds, the designed primers could separately or simultaneously detect B. glumae and B. gladioli with a detection limit as low as $1.86{\times}10^3cells$ per rice seed for B. glumae and $1.04{\times}10^4cells$ per rice seed of B. gladioli. The novel primers maybe valuable as a more sensitive, specific, and robust tool for the efficient simultaneous detection of B. glumae and B. gladioli on rice seeds, which is important in combating rice panicle blight and seed rot by early detection and confirmation of the dissemination of pathogen-free rice seeds.

• 한국미생물·생명공학회지
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• 제39권1호
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• pp.70-76
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• 2011

Weissella 속 유산균 검출의 차이를 이용한 한국산 및 중국산 김치 판별의 가능성 검토를 위하여 Weissella 속 9종 균주의 PCR 검출법을 개발하였다. 종(species) 수준에서의 Weissella 속 균주의 특이적 PCR 검출을 위한 primer는 recN 유전자의 염기서열을 이용하여 선정하였으며, 김치로부터 W. cibaria, W. confusa, W. koreensis, W. soli를 모두 검출하기 위해서는 20 ng template DNA가 필요한 것으로 나타났다. 한국산 김치시료로부터는 W. cibaria, W. confusa, W. koreensis가 높은 빈도로 검출되었지만, W. soli는 검출되지 않았다. 한편 중국산 김치시료로부터는 이들 4종의 Weissella 속 균주들이 모두 검출되었다. 본 연구자들이 개발한 W. soli 특이적 PCR 검출은 현시점에서 중국산 김치의 원산지 판별법으로 적용되기에는 한계점을 가지고 있지만, 미생물 군집의 차이를 이용한 새로운 과학적 검증법이 제시되어 그 가능성이 검토되었다는 점에서 의의를 가지고 있다.

• 동아시아식생활학회지
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• 제18권5호
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• pp.753-759
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• 2008

본 연구는 식품 샘플에서 단시간 내에 간단한 방법으로 Campylobacter jejuni를 검출하기 위하여 10가지의 Campylobacter genus-specific primer와 C. jejuni species-specific oligonucleotide를 제작하였고, amplification efficiency test를 통하여 4종으로 축소한 후 다시 specificity, sensitivity analysis를 통하여 최종적으로 CB4, CJ1 2종의 oligonucleotide primer를 선별하였다. 선별된 oligonucleotide primer는 각각 Campylobacter genus specific, Campylobacter jejuni에 대한 species specific한 특성을 지닌다. 또한, sensitivity analysis를 통하여 isolated colony에서 reaction tube당 $10^0{\sim}10^1$까지의 detection limit을 확보하였다. 육류 시료에서는 Sensitivity가 $10^1{\sim}10^2$으로 떨어지는 양상을 보였으며, 이는 쇠고기나 돼지고기에 존재하는 hemoglobin이나 immunoglobulin 등의 PCR inhibitor의 영향에 의한 것으로 추정된다.

• Asian Pacific Journal of Cancer Prevention
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• 제15권11호
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• pp.4465-4466
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• 2014

HPV type-specific detection may promote cervical screening program and vaccination development worldwide. We conduct a study comparing HPV Hybrid capture II (HC II) Test and Hybribio GenoArray test, a newly developed HPV type-specific assay, in patients with cervical epithelial neoplasm. Results showed a good concordance in cervical HPV detection between two tests (kappa value 0.80, p<0.05, McNemar test). Our study may promote utilization of type-specific HPV detection that is helpful for cervical cancer screening and vaccination.

• 디지털산업정보학회논문지
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• 제6권4호
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• pp.161-170
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• 2010

This paper provides a novel approach for a user oriented system for face detection system for application developers. Even though there are many open source or commercial libraries to solve the problem of face detection, they are still hard to use because they require specific knowledge on detail algorithmic techniques. The purpose of this paper is to come up with a high-level system for face detection with which users can develop systems easily and even without specific knowledge on face detection theories and algorithms. Important conditions are firstly considered to categorize the large problem space of face detection. The conditions identified here are then represented as expressions so that application developers can use them to express various problems. Once the conditions are expressed by developers, the interpreter proposed take the role to interpret the conditions, find and organize the optimal algorithms to solve the represented problem with corresponding conditions. A proof-of-concept is implemented and some example problems are tested and analyzed to show the ease of use and usability.

• Journal of Microbiology and Biotechnology
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• 제26권1호
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• pp.38-43
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• 2016

Novel and specific recognition elements are of central importance in the development of a pathogen detection method. Here, we describe a simple method for identifying the cell-wall binding domain (CBD) from a sequenced bacterial genome employing homology search for phage lysin genes. A putative CBD (CPF369_CBD) was identified from a genome of Clostridium perfringens type strain ATCC 13124, and its function was studied with the CBD-GFP fusion protein recombinantly expressed in Escherichia coli. Fluorescence microscopy showed the specific binding of the fusion protein to C. perfringens cells, which demonstrates the potential of this method for the identification of novel bioprobes for specific detection of pathogenic bacteria.

• 한국수정란이식학회지
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• 제11권2호
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• pp.145-150
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• 1996

This study was conducted to detect the Y-specific DNA in the blood of the female calf in bovine heterosexual production. Genomic DNAs of the freemartin were isolated from the blood and amplified with Y-chromosome specific DNA primer(l4lbp). In order to estimate the lower limit for the detection of XY cells, blood from a hull was diluted in cow blood to 0.01%. DNA sequencing on the PCR products was shown the same sequences as Y chromosome DNA of the normal cows. The Y specific DNA hand by PCR was detected all blood of female calf suspected to have bovine freemar tin syndrom and the karyotyping with freemartin blood was identified as XX / XY chimerism. Therefore, the PGR methods used in this study was very useful technique for the detection of freemartin in Ranwoo and Holstein.

• Steel and Composite Structures
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• 제53권1호
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• pp.45-59
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• 2024

This paper aims to investigate the impact of interfacial debonding on modal dynamic properties such as frequencies and vibration mode shapes. Furthermore, it seeks to identify the specific locations of debonding in rectangular concrete-filled steel tubular (CFST) columns during the subsequent stage of the study. In this study, debonding is defined as a reduction in the elasticity modulus of concrete by a depth of 3 mm at the connection point with the steel tube. Debonding leads to a lack of correlation between primary and secondary shapes of vibration modes and causes a reduction in the natural frequency in all modes. However, directly comparing changes in vibration responses does not allow for the identification of debonding locations. In this study, a novel irregularity detection index (IDI) is proposed based on modal signal processing via the 2D wavelet transform. The suggested index effectively reveals relative irregularity peaks in the form of elevations at the debonding locations. As the severity of damage increases at a specific debonding location, the relative irregularity peaks would increase only at that specific point; in other words, the detection or non-detection of a debonding location using IDI has minimal effects on the identification of other debonding locations.

• Journal of Microbiology and Biotechnology
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• 제16권5호
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• pp.740-747
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• 2006

Amplification by universal consensus sequences in pathogenic bacterial DNA would allow rapid identification of pathogenic bacteria, and amplification of genus-specific and species-specific sequences of pathogenic bacterial DNA might be used for genotyping at the genus and species levels. For design of probes for molecular diagnostics, several tools are available as stand-alone programs or as Web application. However, since most programs can design only a few probe sets at one time, they are not suitable for large-scale and automatic probes design. Therefore, for high-throughput design of specific probes in diagnostic array development, an automated design tool is necessary. Thus, we developed a Web-based automatic system for design of genus-specific and species-specific probes for pathogen detection. The system is available at http://www.miprobe.com.

• The Plant Pathology Journal
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• 제31권3호
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• pp.212-218
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• 2015

In this study, we developed a species-specific PCR assay for rapid and accurate detection of three Xanthomonas species, X. axonopodis pv. poinsettiicola (XAP), X. hyacinthi (XH) and X. campestris pv. zantedeschiae (XCZ), based on their draft genome sequences. XAP, XH and XCZ genomes consist of single chromosomes that contain 5,221, 4,395 and 7,986 protein coding genes, respectively. Species-specific primers were designed from variable regions of the draft genome sequence data and assessed by a PCR-based detection method. These primers were also tested for specificity against 17 allied Xanthomonas species as well as against the host DNA and the microbial community of the host surface. Three primer sets were found to be very specific and no amplification product was obtained with the host DNA and the microbial community of the host surface. In addition, a detection limit of $1pg/{\mu}l$ per PCR reaction was detected when these primer sets were used to amplify corresponding bacterial DNAs. Therefore, these primer sets and the developed species-specific PCR assay represent a valuable, sensitive, and rapid diagnostic tool that can be used to detect three specific pathogens at early stages of infection and may help control diseases.