• Journal of Microbiology and Biotechnology
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• 제5권4호
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• pp.194-199
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• 1995

A portion (7.4 kb) of ribosomal DNA tandem repeat unit from a genome of the mushroom T. matsutake has been cloned. A 1.75 kb EcoRI fragment was cloned first using S. cerevisiae 255 rRNA gene as a probe, and this was then used for further cloning. A chromosomal walking experiment was carried out and the upstream region of the 1.75 kb fragment was cloned using SmaI/BamHI enzyme, the size was estimated to be 5.2 kb in length. Part of the downstream region of the 1.75 kb fragment was also cloned using XbaI/BamHI enzymes. Restriction enzyme maps of three cloned DNA fragments were constructed. Northern hybridization, using total RNA of T. matsutake, and the restriction fragments of three cloned DNAs as probes, revealed that all four ribosomal RNA genes (large subunit[LSU], small subunit [SSU], 5.85 and 5S rRNA genes) are present in the cloned region. The gene organization of the rDNA are regarded as an intergenic spacer [IGS]2 (partial) - SSU rRNA - internal transcribed spacer [ITS]1 - 5.8S rRNA - ITS2 - LSU rRNA - IGS1 -5S rRNA - IG52 (partial).

• 대한의생명과학회지
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• 제8권1호
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• pp.29-37
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• 2002

Listeria monocytogenes poses an increasing health risk, which in part is due to increasing health risk, consumption of ready-to-eat food products and the introduction of increasing numbers of food products from regions with different dietary habits. L. monocytogenes can be present in meat, shellfish, vegetables, unpasteurised milk and soft cheese and poses a risk if food containing these products is stored at refrigeration temperature and is not properly heated before consumption, as L. monocytogenes is psychrophilic. Amplified-fragment length polymorphism (AFLP) analysis is the method of genotypic techinique in which adaptor oligonucleotides are ligated to restriction enzyme fragments and then used as target sites for primers in a PCR amplification. The amplified fragments are electrophoretically separated to give strain-specific band profiles. Single-enzyme approach that did not require costly equipment or reagents for the fingerprinting of strains of Listeria monocytogenes was developed. Single-enzyme amplified fragment length polymorphism (SE-AFLP) analysis was used to perform species and strain identification of Salmonella, Shigella, Yersinia and E. coli. By careful selection of AFLP primers, it was possible to obtain reproducible and sensitive identification to strain level. The AFLP patterns of L. monocytogenes are divided by the kinds of specimens in which were isolated. SE-AFLP fragments can be analyzed using standard gel electrophoresis, and can be easily scored by visual inspection, due to the low complexity of the fingerprint obtained by this method. These features make SE-AFLP suitable for use in either field or laboratory applications.

• Asian-Australasian Journal of Animal Sciences
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• 제30권8호
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• pp.1099-1104
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• 2017

Objective: This work was to find the correlation of alcohol dehydrogenase 1C (ADH1C) genotype with vitamin A reduction and carcass traits during the vitamin A restriction period. Methods: In study 1, 60 Korean native steers were fed a diet (890 IU/kg) with 8,000 IU and 0 IU of supplemental premix vitamin A/kg of dry matter (DM) for control and treatment group, respectively. The levels of serum vitamin A were analyzed through high preparative performance liquid chromatography, and the ADH1C genotype was analyzed based on polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP; 78.1% TT type, 21.9% TC type); however, CC type was not found. Then, the interaction between ADH1C and carcass traits on the vitamin A restriction was investigated in study 2. A total of 136 Korean native steers were fed a diet that included 930 IU/kg vitamin A of DM. Results: Serum vitamin A in treatment was reduced to 112.4 IU/dL in steers with TT type of ADH1C, while for steers with TC type the concentration of serum vitamin A was dropped to 79.5 IU/dL (p<0.1) in study 1. This showed that TC type had the potential to lower serum vitamin A concentration during vitamin A restriction compared to TT type. In study 2 we found that eye muscle area, marbling and carcass weight in Korean native steers with TC type were higher than in steers with TT type (p<0.05). Conclusion: The interaction between vitamin A restriction and TC type of ADH1C gene could have the potential of increasing the marbling in Korean native steers. These results indicated that steers with TC type of the ADH1C gene were more sensitive to the change of serum vitamin A than TT types. Furthermore, this finding has the potential to enable a higher marbling score under the condition of vitamin A restriction in Korean native steers.

• International Journal of Oral Biology
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• 제31권3호
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• pp.107-112
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• 2006

Aldehyde dehydrogenase (ALDH) plays an important role in alcohol metabolism; ALDH is responsible for the oxidation of acetaldehyde generated during alcohol oxidation. ALDH is also known to oxidize various other endogenous and exogenous aldehydes. Cytochrome P-450 2E1 (CYP2E1), a liver microsomal enzyme, also metabolizes acetaldehyde and ethanol and can be induced by other inducers including acetone and ethanol. We examined single nucleotide polymorphisms (SNP) of ALDH and CYP2E1 genotypes in Korean. Restriction fragment length polymorphism (RFLP) method was used to determine ALDH and CYP2E1 SNP. Mutation in ALDH was 60% (heterozygote 46.7% and homozygote 13.3%) among 15 cases. CYP2E1 mutation was 52.7% (heterozygote 47.4% and homozygote 5.3%) among 19 cases.

• 미생물학회지
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• 제37권1호
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• pp.72-79
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• 2001

폐수 처리장의 방류수에 페놀을 첨가한 후 terminal restriction fragment length polymorphism (T-RFLP) 방법을 이용하여 세균군집의 구조와 변화를 조사하였다. 시료로부터 얻은 16S rRNA gene은 eubacterial primer로 증폭하였으며, 한 primer는 5'말단에 biotin을 부착하였다. 증폭된 product는 HaeIII와 AluI으로 각각 절단하였고, 절단된 단편 중에서 terminal restriction fragment (T-RF)를 streptavidin paramagnetic particle을 이용하여 분리하였다. 분리된 T-RF는 전기영동과 silver staining을 통하여 확인하였다. 본 실험의 유용성을 검증하기 위하여 표준 균주 10 균주를 대상으로 실험하였고, 균주마다 특징적인 T-RF를 가지는 것과 그 크기가 Ribosomal database project (RDP) 자료로부터 계산된 결과와 일치하는 것을 확인할 수 있었다. 한편, 대조군으로 사용된 페놀을 첨가하지 않은 방류수 시료에서는 Acinetobacter, Bacillus, Pseudomonas 속 등이 우점종을 차지하고 있었고, 페놀 (최종농도 250mg.$l^{-1}$)을 첨가한 방류수 시료에서는 Acinetobacter, Comamonas, Cytophaga, Pseudomonas 속 등이 우점종을 차지함을 알 수 있었다. Gel에서 분리한 Acinetobacter와 Cytophaga에 해당되는 T-RF는 재증폭 및 염기 서열 분석이 가능하였는데, database의 염기서열과 비교한 결과 Acinetobacter junii와 유연관계가 가깝다는 것을 확인하였다.

• Asian-Australasian Journal of Animal Sciences
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• 제28권6호
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• pp.888-895
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• 2015

Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and subsequent sub-cloning and sequencing were used in this study to analyze the molecular phylogenetic diversity and spatial distribution of bacterial communities in different spatial locations during the cooling stage of composted swine manure. Total microbial DNA was extracted, and bacterial near full-length 16S rRNA genes were subsequently amplified, cloned, RFLP-screened, and sequenced. A total of 420 positive clones were classified by RFLP and near-full-length 16S rDNA sequences. Approximately 48 operational taxonomic units (OTUs) were found among 139 positive clones from the superstratum sample; 26 among 149 were from the middle-level sample and 35 among 132 were from the substrate sample. Thermobifida fusca was common in the superstratum layer of the pile. Some Bacillus spp. were remarkable in the middle-level layer, and Clostridium sp. was dominant in the substrate layer. Among 109 OTUs, 99 displayed homology with those in the GenBank database. Ten OTUs were not closely related to any known species. The superstratum sample had the highest microbial diversity, and different and distinct bacterial communities were detected in the three different layers. This study demonstrated the spatial characteristics of the microbial community distribution in the cooling stage of swine manure compost.

• 한국수산과학회지
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• 제25권6호
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• pp.474-484
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• 1992

황해서식 참조기(Pseudosciaena polyactis)에 대한 계군을 분석하기 위한 연구의 일환으로 우선 황해의 목포 연근해에서 채집된 참조기의 난자와 근육으로부터 mt-DNA와 근육 actin을 추출하였다. 난자의 경우 mt-DNA를 추출한 뒤 제한효소로 처리하여 절편다형현상을 관찰하였으며 근육 actin의 경우 단백질 분해효소(Staphylococcus aureus $V_8$ protease)로 처리하여 N-terminal 절편의 다형현상을 각각 관찰하였다. Mt-DNA의 genome 크기는 약 $\16\pm0.2$ Kb였고 전체 절편수는 37개였으며 사용된 20개의 제한효소 중 8개의 제한효소만이 3개 정도의 절편을 보이므로써 유의성을 관찰할 수 있었다 한편 근육 actin을 Staphylococcus aureus $V_8$단백질 분해효소로 처리하였을 때 N-terminal 부위에서 26 KDa 및 16 KDa의 분자량을 갖는 특이절편을 관찰할 수 있었다.

• Asian-Australasian Journal of Animal Sciences
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• 제18권12호
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• pp.1691-1695
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• 2005

The bovine lymphocyte antigen (BoLA)-DRB3 gene encodes cell surface glycoproteins that initiate immune responses by presenting processed antigenic peptides to CD4 T helper cells. DRB3 is the most polymorphic bovine MHC class II gene which encodes the peptide-binding groove. Since different alleles favour the binding of different peptides, DRB3 has been extensively evaluated as a candidate marker for associations with various bovine diseases and immunological traits. For that reason, the genetic diversity of the bovine class II DRB3 locus was investigated by polymerase chain reaction-restriction fragment length polymorphism method (PCR-RFLP). This study describes genetic variability in the BoLA-DRB3 in Iranian Golpayegani Cattle. Iranian Golpayegani Cows (n = 50) were genotyped for bovine lymphocyte antigen (BoLA)-DRB3.2 allele by polymerase chain reaction and restriction fragment length polymorphism method. Bovine DNA was isolated from aliquots of whole blood. A two-step polymerase chain reaction followed by digestion with restriction endonucleases RsaI, HaeIII and BstYI was conducted on the DNA from Iranian Golpayegani Cattle. In the Iranian Golpayegani herd studied, we identified 19 alleles.DRB3.2${\times}$16 had the highest allelic frequency (14%), followed by DRB3.2${\times}$7 (11%). Six alleles (DRB3.2${\times}$25, ${\times}$24, ${\times}$22, ${\times}$20, ${\times}$15, ${\times}$3) had frequencies = 2%. Although additional studies are required to confirm the present findings, our results indicate that exon 2 of the BoLA-DRB3 gene is highly polymorphic in Iranian Golpayegani Cattle.

• Journal of Microbiology and Biotechnology
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• 제23권8호
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• pp.1154-1158
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• 2013

Ganciclovir resistance of human cytomegalovirus is associated with mutations in the viral UL97 gene and poses severe problems for immunocompromised patients. In this study, PCR-based restriction fragment length polymorphism and sequencing analyses detected the UL97 D605E mutation in all five clinical isolates from patients with ganciclovir-resistant human cytomegalovirus infection during prolonged ganciclovir therapy, whereas the M460V mutation was only present in 1 of 5 isolates. On the other hand, the detection rates of the D605E mutation in the stored available DNA samples from the donor and allogeneic stem cell transplantation recipients were 66.7% and 93.7%, respectively, suggesting that the presence of D605E mutation was not associated with the ganciclovir exposure. Although the D605E mutation may not be related to ganciclovir resistance, we suggest that this mutation could be an important molecular marker of human cytomegalovirus evolution in East Asian countries. Moreover, the restriction fragment length polymorphism method using the restriction enzyme HaeIII, which is generally used to detect the UL97 A591V mutation, could also detect the D605E mutation and may therefore be a useful tool for future research on the investigation of UL97 gene mutations.

• Applied Biological Chemistry
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• 제36권3호
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• pp.139-145
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• 1993

등전점 전기영동법에 의한 동위효소 분석과 제한효소 단편 다형화현상(RFLP) 분석기법을 이용하여 보리 품종 19종의 품종형을 구분하고 근연관계를 검토하였다. 보리 19품종은 동위효소 형태특성 에 따라 esterase는 7가지형으로, phosphoglucose isomerase는 3가지형으로, peroxidase는 4가지형으로, alcohol dehydrogenase는 2가지 형으로 각각 분류되었으며, 그 핵 DNA를 제한효소 EcoRV로 절단하여 DNA probe pMSU 71로 RFLP를 분석한 결과 2가지 품종형으로 구분되었다. 이 4가지 동위효소의 형태특성 및 핵 DNA의 RFLP 특성을 종합하면 보리 19품종을 13가지 품종형으로 구분할 수 있었다. 이렇게 구분된 13가지 품종형들은 Nei's F-statistics의 계산식으로 그 근연관계를 분석하였더니 $97.4{\sim}66.5%$ 범위의 근연관계를 보였다.