• 대한두경부종양학회지
• /
• 제12권2호
• /
• pp.169-176
• /
• 1996

결핵의 진단은 특징적 병리조직양상, 항산균 염색에 의한 균 증명과 M. tuberculosis균 배양으로 이루어지나 형태적으로는 결핵이 의심되더라도 항산균이 조직표본이나 도말에서 검출되지 않거나 M. tuberculosis가 배양되지 않아 정확한 원인적 진단이 불가능할 경우가 많다. 이에 저자들은 경부 결핵성 임파선염으로 적출되어 보내어진 경부 임파선 조직의 신선한 조직이나 통상적으로 처리되어 제작된 파라핀 블록을 이용하여 M. tuberculosis에 특수한 반복성 DNA sequence인 IS986를 표적으로 한 primers을 사용하여 nested PCR방법을 이용하여 예민도가 높은 M. tuberculosis 검출로 빠른 시간 내에 결핵을 진단하고자 본 연구를 실시하였다. 최근 유전자 기술의 진보로 M. tuberculosis의 여러 항원들의 유전자가 클론화되고 그 염기 배열이 밝혀졌으며 이에 저자들은 결핵의 확진을 위하여 파라핀 포매조직을 대상으로 nested PCR에 의한 188bp의 DNA를 증폭한후 증폭한 DNA분절의 염기 배열을 결정한 후 Bst UI와 Hha I 효소를 이용한 소화과정을 거친 후 restriction fragment length polymorphism(RFLP)을 은염색에 의해 그 패턴에 의해 M. tuberculosis를 확인하고 또한 다른 종의 Mycobacteria를 배제시킬 수 있었다. 본 방법은 1$\sim$2일에 끝나며, 방사선물질을 사용하지 않으면서도 감도 및 특이성이 우수하여 일반 병리실힘실에서도 M. tuberculosis를 포함한 각종 항산균의 신속한 검출법으로 손쉽게 사용할 수 있다고 생각되어 이에 보고하였다.

• Mycobiology
• /
• 제51권6호
• /
• pp.452-462
• /
• 2023

Opportunistic infections due to Cryptococcus neoformans and C. gattii species complexes continue to rise unabated among HIV/AIDS patients, despite improved antifungal therapies. Here, we collected a total of 20 environmental and 25 presumptive clinical cryptococcal isolates from cerebrospinal fluid (CSF) samples of 175 patients enrolled in an ongoing clinical trial Ambition 1 Project (Botswana-Harvard Partnership). Identity confirmation of the isolates was done using MALDI-TOF MS and PCR. We describe the diversity of the isolates by PCR fingerprinting and sequencing (Oxford Nanopore Technology) of the intergenic spacer region. Mating types of the isolates were determined by amplification of the MAT locus. We report an unusual prevalence of 42.1% of C. neoformans × C. deneoformans hybrids Serotype AD (n = 16), followed by 39.5% of C. neoformans Serotype A (n = 15), 5.3% of C. deneoformans, Serotype D (n = 2), 7.9% of C. gattii (n = 3), and 5.3% of C. tetragattii (n = 2) in 38 representative isolates that have been characterized. Mating type-specific PCR performed on 38 representative environmental and clinical isolates revealed that 16 (42.1%) were MATa/MAT𝛼 hybrids, 17 (44.7%) were MAT𝛼, and five (13.2%) possessed MATa mating type. We used conventional and NGS platforms to demonstrate a potential link between environmental and clinical isolates and lay a foundation to further describe mating patterns/history in Botswana.

• 한국어업기술학회:학술대회논문집
• /
• 한국어업기술학회 2001년도 춘계 수산관련학회 공동학술대회발표요지집
• /
• pp.334-335
• /
• 2001

Common carp (Cyprinus carpio) and Israeli carp(C. carpio) samples were obtained from a aquaculture facility in the Kunsan National University, Korea. Genomic DNA was isolated from the common carp and Israeli carp representing genetic characteristics and genomic polymorphisms by polymerase chain reaction amplification of DNA as arbitrary primers. There were observed a total of 90 species-specific genetic markers within Israeli carp. On average, each random RAPD primer produced amplified 7.9 products from 1 to 17 bands. An average genetic similarity within Israeli carp showed -.60$\pm$0.05. The average level of bandsharing was some 0.57$\pm$0.03 between common carp and Israeli carp. Accordingly, two carp species were genetically a little distant. The electrophoretic analysis of PCR-RAPD proudcts showed high levels of variation between two fish species. The RAPD polymorphism generated by primer may be used as a genetic marker for species or lines identification in important aquacultural carp.

• Journal of Animal Science and Technology
• /
• 제46권3호
• /
• pp.315-324
• /
• 2004

본 연구는 돼지에서 특이적으로 만들어지는 것으로 알려진 19-nortestosterone(nandrolone) 및 여성호르몬(estrogen)의 합성에 관여하는 효소인 Cytochrome P450 aromatase에 대한 유전자의 발현 양상을 밝혀내기 위해 실시되었다. RT-PCR과 최근에 개발된 DHPLC(Denature High Performance Liquid Chromatography 또는 WAVE라고 함) 분석 장치를 이용하여 정소와 난소에서 어떤 isoform의 aromatase 유전자가 발현되는지에 관해 조사하였다. 이러한 방법을 통해 같은 양의 RNA 중에 존재하는 정소내 aromatase mRNA가 난소보다 상대적으로 많이 존재한다는 것이 밝혀졌으며, 이는 돼지의 경우 수컷이 암컷 보다 혈중 여성호르몬이 더 높게 나타난다는 이전의 연구 발표가 돼지에서 여성호르몬을 만드는 aromatase 유전자가 난소에 비해 정소에서 더 많이 만들어지기 때문이라는 사실을 입증하였다. 또한, 정소와 난소에서 발현되는 aromatse 유전자를 PCR를 이용하여 증폭한 후 DHPLC를 이용하여 분석한 결과 type II, III와 다르다는 것을 확인하였다. RT-PCR에 의해 증폭된 aromatase DNA 단편을 plasmid vector에 cloning한 후에 그 염기 서열을 분석한 결과, 정소 및 난소에서 발현되는 aromatse는 모두 type I(난소형)으로 밝혀졌다. 이는 어떻게 정소와 난소의 두 다른 조직에서 같은 aromatase 효소로부터 다른 steroid가 만들어 질 수 있는지에 대한 새로운 의문을 제시하는 연구결과이며, 현재 추가적인 연구가 진행 중이다. 또한, DHPLC 기술을 활용하여 염기서열이 매우 유사한 isoform 유전자들의 발현을 관찰할 수 있다는 사실이 증명되었다.

• 한국식품위생안전성학회지
• /
• 제28권2호
• /
• pp.124-129
• /
• 2013

본 연구에서는 분자생물학적 방법을 통한 알레르기 유발 원재료 확인을 위해 PCR방법의 최적 조건을 구축하였다. 가공식품에서 알레르기 원료성분 확인을 위하여 200bp 내외의 PCR 산물을 생성할 수 있는 종특이 프라이머를 설계하거나 선행연구사업 결과를 활용하였다. 대상 원료로는 국내 식품알레르기 표시대상인 난류, 우유, 메밀, 땅콩, 대두, 밀, 고등어, 게, 새우, 돼지고기, 복숭아 및 토마토와 제외국에서 알레르기 유발 성분으로 규정하고있는 아몬드, 참깨를 포함하여 총 14종을 대상으로 하였다. 특이 프라이머를 사용하여 PCR 한 결과 난류, 우유, 메밀, 땅콩, 대두, 밀, 고등어, 게, 새우, 돼지고기, 복숭아, 토마토, 아몬드 및 참깨로부터 각각 281, 131, 138, 120, 118, 127, 211, 174, 231, 138, 174, 132, 103 및 220bp의 특이 밴드를 확인하였으며 상호간의 비 특이적 밴드는 검출되지 않았다. 본 연구에서 확립한 알레르기 유발 원재료 검출법은 식품의 부정확한 표시나 가공식품의 제조과정 중 알레르기 유발물질의 비의도적 혼입 등으로부터 소비자를 보호하고 향후 수출 제품에 있어서 정확한 알레르기 유발원재료 표기에 활용이 가능할 것으로 판단된다.

• Genomics & Informatics
• /
• 제3권4호
• /
• pp.133-141
• /
• 2005

Most of the endogenous retroviral genes integrated into the primate genome after the split of New World monkeys in the Oligocene era, approximately 33 million years ago. Because they can change the structure of adjacent genes and move between and within chromosomes they may play important roles in evolutionas well as in many kinds of disease and the creation of genetic polymorphism. Comparative analysis of HERVs (human endogenous retroviruses) and their LTR (long terminal repeat) elements in the primate genomes will help us to understand the possible impact of HERV elements in the evolution and phylogeny of primates. For example, HERV-K LTR and SINE-R elements have been identified that have been subject to recent change in the course of primate evolution. They are specific elements to the human genome and could be related to biological function. The HERV-M element is related to the superfamily of HERV-K and is integrated into the periphilin gene as the truncated form, 5'LTR-gag-pol-3'LTR. PCR and RT-PCR approaches indicated that the insertion of various retrotransposable elements in a common ancestor genome may make different transcript variants in different primate species. Examination of the HERV-W elementrevealed that env fragments were detected on human chromosomes 1, 3-7, 12, 14, 17, 20, and X, whilst the pol fragments were detected on human chromosomes 2-8, 10-15, 20, 21, X, and Y. Bioinformatic blast search showed that almost full-length of the HERV-W family was identified on human chromosomes 1-8, 11-15, 17, 18, 21, and X. Expression analysis of HERV-W genes (gag, pol, and env) in human tissues by RT-PCR indicated that gag and pol were expressed in specific tissues, whilst env was constituitively expressed in all tissues examined. DNA sequence based phylogenetic analysis indicated that the gag, pol and env genes have evolved independently during primate evolution. It will thus be of considerable interest to expand the current HERV gene information of various primates and disease tissues.

• Animal cells and systems
• /
• 제11권2호
• /
• pp.165-168
• /
• 2007

The nucleotide sequences of a male-specific marker sex determining region Y (SRY) gene and a mitochondrial cytochrome B (CYTB) gene were characterized and analyzed to establish a molecular method for identification of species and sex of Korean roe deer (Capreolus pygargus tianschanicus). Similarity search result of SRY sequences showed very similar result to those reported in Moose (Alces alces) and Reindeer (Rangifer tarandus), both of which had 95.9% similarity in identity. CYTB genes were very similar to those reported in Siberian roe deer (C. pygargus pygargus) which had 98.6% similarity and not to European roe deer (C. capreolus), suggesting that the DNA samples tested were of Siberian roe deer lineage. Polymerase chain reaction (PCR)-based sex typing successfully discriminated between carcasses of male and female roe deer. Males had SRY band on agarose gels and females did not. The result of this molecular sex typing provided similar information with that obtained by genital organ observation. Therefore, this molecular method using male specific marker SRY and mitochondrial CYTB genes would be very useful for identification of the species and sex of the carcass remains of roe deer.

• 한국패류학회지
• /
• 제25권1호
• /
• pp.41-49
• /
• 2009

Random amplified polymorphic DNA (RAPD) marker and sequence analyses of the internal transcribed spacer (ITS) region of ribosomal DNA were used to assess phylogenetic relationships of four Korean oyster species. The average number of species-specific markers identified from five universal rice primers (URPs) by RAPD-PCR was 1.8 for Crassostrea gigas, 3.2 for C. nippona, 3.6 for C. ariakensis, and 4.6 for Ostrea denselamellosa. The length of the ITS (ITS1-5.8S-ITS2) region ranged from 1,001 to 1,206 bp (ITS1, 426-518 bp; 5.8S, 157 bp; and ITS2, 418-536 bp), while the GC content ranged from 55.5-61.1% (ITS1, 56.8-61.8%; 5.8S, 56-57.3%; and ITS2, 54.1-62.2%). A phylogenetic analysis of the oysters based on our RAPD, ITS1, and ITS2 sequence data revealed a close relationship between C. gigas and C. nippona and a distant relationship between the genera Crassostrea and Ostrea. Our results indicated that RAPD and ITS sequence analysis was a useful tool for the elucidation of phylogenetic relationships and for the selection of species-specific markers in Korean oysters.

• Parasites, Hosts and Diseases
• /
• 제55권3호
• /
• pp.279-285
• /
• 2017

The present study was performed to analyze molecularly the phylogenetic positions of human-infecting Trichostrongylus species in Mazandaran Province, Iran, which is an endemic area for trichostrongyliasis. DNA from 7 Trichostrongylus infected stool samples were extracted by using in-house (IH) method. PCR amplification of ITS2-rDNA region was performed, and products were sequenced. Phylogenetic analysis of the nucleotide sequence data was performed using MEGA 5.0 software. Six out of 7 isolates had high similarity with Trichostrongylus colubriformis, while the other one showed high homology with Trichostrongylus axei registered in GenBank reference sequences. Intra-specific variations within isolates of T. colubriformis and T. axei amounted to 0-1.8% and 0-0.6%, respectively. Trichostrongylus species obtained in the present study were in a cluster with the relevant reference sequences from previous studies. BLAST analysis indicated that there was 100% homology among all 6 ITS2 sequences of T. colubriformis in the present study and most previously registered sequences of T. colubriformis from human, sheep, and goat isolates from Iran and also human isolates from Laos, Thailand, and France. The ITS2 sequence of T. axei exhibited 99.4% homology with the human isolate of T. axei from Thailand, sheep isolates from New Zealand and Iran, and cattle isolate from USA.

• Asian-Australasian Journal of Animal Sciences
• /
• 제33권8호
• /
• pp.1233-1241
• /
• 2020

Objective: The present investigation was aimed to explore the potential of lactobacilli for conjugated linoleic acid (CLA) production, isolated from rumen fluid samples of lactating goats. Methods: A total of 64 isolates of lactobacilli were obtained using deMan-Rogosa-Sharpe (MRS) agar from rumen fluid of goats and further subjected to morphological and biochemical characterizations. Isolates found as gram-positive, catalase negative rods were presumptively identified as Lactobacillus species and further confirmed by genus specific polymerase chain reaction (PCR). The phylogenetic tree was constructed from the nucleotide sequences using MEGA6. Results: Out of the 64 isolates, 23 isolates were observed positive for CLA production by linoleate isomerase gene-based amplification and quantitatively by UV-spectrophotometric assay for the conversion of linoleic acid to CLA as well as gas chromatography-based assay. In all Lactobacillus species cis9, trans11 isomer was observed as the most predominant CLA isomer. These positive isolates were identified by 16S rRNA gene-based PCR sequencing and identified to be different species of L. ingluviei (2), L.salivarius (2), L. curvatus (15), and L. sakei (4). Conclusion: The findings of the present study concluded that lactic acid bacteria isolated from ruminal fluid samples of goat have the potential to produce bioactive CLA and may be applied as a direct fed microbial to enhance the nutraceutical value of animal food products.