• Journal of Periodontal and Implant Science
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• 제28권4호
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• pp.691-703
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• 1998

The 16S rRNA analyzing method is a bacterial identification method that is useful in identifying bacteria which is difficult to do by other means. The following 7 types of bacteria which are Treponema, A. actinomycetemcomitans, P. gingivalis, Fusobacterium, B. forsythus, P. intermedia, P. micros were evaluated in order to study their distribution among patients with adult periodontitis. The 16S rRNA analyzing method was used to compare bacterial distribution among 3 groups. Subgingival plaque acquired from the affected sites(pocket depth ${\geq}6mm$) of 29 patients with adult periodontitis were grouped as the experimental group while plaque from the non-affected sites(pocket depth ${\leq}3mm$) were grouped as control 2 and finally plaque acquired from students with healthy periodontal tissues were grouped as control 1. The results are as follows ; 1. The distribution of Treponema was 12.5% for control 1, 21.4% for control 2 and 75.4% for the experimental group. For A. actinomycetemcomitans the distribution was 0.5%, 19.0%, 44.4% in respect to the order of groups mentioned above. P.gingivalis showed 10.5%, 43.1%, 94.0% distribution, Fusobacterium 33.0%, 48.3%, 81.0% distribution, B. forsythus 9.5%, 17.2%, 65.9% distribution, P. intermedia 1.0%, 12.1%, 26.3% distribution and finally P. micros 5.0%, 19.0%, 48.7% respectively. In all 7 types of bacteria, the experimental group showed higher bacterial distribution compared to the other two groups with statistically significant difference. 2. In the case of Treponema, A. actinomycetemcomitans, gingivalis,Fusobacterium, B. forsythus, P. intermedia, P. micros showed significant difference between control 1 and 2. These results suggest that the 16S rRNA analyzing method which was applied on Koreans for the first time could be utilized and useful in finding potential pathogens of periodontal disease.

• 한국패류학회지
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• 제27권4호
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• pp.395-400
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• 2011

Phylogenetic analyses on the Phylum Mollusks has so far been conducted by many researchers in the world. However, there was no report on taxonomic analysis on Acila divaricata vigila which is belonging to Class Bivalvia, Subclass Protobranchia. In this study, we performed molecular phylogenetic analysis on Acila divaricata vigila using 16S rRNA sequence through maximum likelihood method. As a result, it is clearly divided into the legion of mollusk classification unit (when you zoom in order) and represented to support the current classification in the Phylum Mollusca belong to Class Bivalvia, Subclass Protobranchia, Subclass Pteriomorphia, Subclass Paleoheterodonta, Subclass Heterodonta and Subclass Anomalodesmacea. To our knowledge, this is the first report of molecular phylogenetic analysis on Acila divaricata vigila using 16S rRNA gene and these data suggests that 16S rRNA gene will be useful for analyzing the phylogenetic relationship of Subclass Protobranchia.

• BMB Reports
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• 제37권3호
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• pp.351-355
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• 2004

Separate protocols are commonly used to prepare plasmid DNA, chromosomal DNA, or total RNA from E. coli cells. Various methods for the rapid preparation of plasmid DNA have been developed previously, but the preparation of the chromosomal DNA and total RNA are usually laborious. We report here a simple, fast, reliable, and cost-effective method to extract total nucleic acids from E. coli by direct lysis of the cells with phenol. Five distinct and sharp bands, which correspond to chromosomal DNA, plasmid DNA, 23S rRNA, 16S rRNA, and a mixture of small RNA, were observed when analyzing the prepared total nucleic acids on a regular 1-2% agarose gel. The simple and high-quality preparation of the total nucleic acids in a singe tube allowed us to rapidly screen the recombinant plasmid, as well as to simultaneously monitor the change of the plasmid copy number and rRNA levels during the growth of E. coli in the liquid medium.

• 한국응용곤충학회지
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• 제37권1호
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• pp.23-30
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• 1998

DNA의 제한요소단편 다형현상(RFLP)이 유전변이 연구에 널리 이용되고 있다. 본 연구는 파밤나방(Spodoptera exigua(H bner)) 미토콘드리아 DNA(mtDNA)의 RFLP방법을 개발하기 위해 게놈 크기 측정 및 PCR primer들을 선발하였다. 파밤나방의 mtDNA 전체크기는 약 16kb였다. 대부분 곤충 mtDNA에 적합하게 구성된 (Simon et al., 1994)29개 promer들중 21개가 파밤나방의 mtDNA증폭에 적합했다. 이들 primer들을 이용하여 여러 유전자 영역(CO-I, CO-II, Cyt-B, ND-1, 12S rRNA, 16S rRNA 및 일부 tRNA)의 일분 또는 전체를 포함하는 유전자 절편을 증폭시켰다. 일반적으로 다형을 보이는 primer조합을 중심으로 4염기 제한부위를 인식하는 8종의 제한 효소를 통해 분석된 PCR-RFLP는 서로 다은 지역(안동, 경산, 순천) 집단들간에 제한부위에 있어서 차이가 없었으나 일부 영역에서는 길이 차이를 보여 유용한 유전지표로서의 가능성을 제시했다.

• 생태와환경
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• 제55권4호
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• pp.368-375
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• 2022

보구치는 어류와 요각류가 공통 먹이원으로 분석되었다. 광양만에서 채집한 보구치가 가장 많이 먹은 먹이원은 단각류로 ASV 빈도가 62.5%로 나타났으며 여수 어시장에서 구입한 보구치는 어류의 ASV 빈도가 16.6%로 가장 많았다. 광양만에서 채집한 참조기의 우점 먹이원은 십각류로 ASV 빈도가가 99.9%로 나타났으며 어시장의 참조기는 어류의 ASV 빈도가 51.2%로 조사되었다. 광양만과 어시장의 자주새우 우점 먹이원은 각각 요각류로 92.6%와 100%로 조사되었다. 광양만에서 채집한 꼴뚜기는 요각류(91.4%)를 가장 많이 먹었으나 어시장에서 구입한 갑오징어는 어류(96.6%)를 가장 많이 섭식하였다. 계층적 군집 분석 결과, 꼴뚜기 및 채집한 자주새우와 구입한 자주새우는 먹이원이 유사하였으며 보구치와 참조기, 갑오징어와는 차이가 있는 것으로 조사되었다. 네트워크 분석 결과, 요각류는 참조기를 제외한 모든 수서 생물과 연결되어 있어 가장 중요한 먹이원인 것으로 조사되었다. 먹이원 폭 분석 결과 광양만에서 채집한 참조기의 먹이원 폭 값은 0.001로 낮았으나 어시장에서 구입한 참조기의 먹이원 폭 값은 0.886으로 먹이원 다양성이 가장 높았다. 영양단계 분석 결과, 어류를 주로 섭식했던 갑오징어가 3.98로 가장 높았으며, 광양만에서 채집한 보구치가 2.0으로 영양단계가 가장 낮은 것으로 조사되었다. 이를 통해 위 내용물의 DNA 메타바코딩을 활용한 먹이원 분석 연구는 육안을 통한 먹이원 분석 사이에서 상호보완하여 섭식생태 연구에 활용할 수 있을 것이다.

• Journal of Microbiology and Biotechnology
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• 제34권7호
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• pp.1530-1543
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• 2024

With an increase in the commercialization of bioplastics, the importance of screening for plastic-degrading strains and microbes has emerged. Conventional methods for screening such strains are time-consuming and labor-intensive. Therefore, we suggest a method for quickly and effectively screening plastic-degrading microbial strains through dual esterase assays for soil and isolated strains, using p-nitrophenyl alkanoates as substrates. To select microbe-abundant soil, the total amount of phospholipid fatty acids (PLFAs) included in each soil sample was analyzed, and esterase assays were performed for each soil sample to compare the esterase activity of each soil. In addition, by analyzing the correlation coefficients and sensitivity between the amount of PLFAs and the degree of esterase activity according to the substrate, it was confirmed that substrate pNP-C2 is the most useful index for soil containing several microbes having esterase activity. In addition, esterase assays of the isolated strains allowed us to select the most active strain as the degrading strain, and 16S rRNA results confirmed that it was Bacillus sp. N04 showed the highest degradation activity for polybutylene succinate (PBS) as measured in liquid culture for 7 days, with a degradation yield of 99%. Furthermore, Bacillus sp. N04 showed degradation activity against various bioplastics. We propose the dual application of p-nitrophenyl alkanoates as an efficient method to first select the appropriate soil and then to screen for plastic-degrading strains in it, and conclude that pNP-C2 in particular, is a useful indicator.

• 농업과학연구
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• 제49권4호
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• pp.1015-1023
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• 2022

Production of high-quality horses is important to make the horse industry grow. Grazing during the growing period can be an important factor affecting the production of high-quality horses. The objective of this study was to determine the effects of grazing on growing horses by analyzing their blood components and intestinal microbiota. Twelve growing horses for evaluating blood components and ten growing horses for evaluating intestinal microbiota were raised for about seven months and separated by two treatments: grazing vs. stable. Complete blood count, blood chemistry, and creatine kinase levels were analyzed as blood components and a 16s rRNA gene sequence analysis was performed to analyze intestinal microbiota. Calcium ions tended to be lower in the group with grazing treatment. Alkaline phosphatase and creatine kinase tended to be higher in the group with grazing treatment. These results indicate that grazing can provide horses with more exercise than staying in stables. At the phylum level, Firmicutes/Bacteroidetes ratios in grazing and stable groups were 4.2 and 6.5, respectively. Because various studies have reported that a. high Firmicutes/Bacteroidetes ratio indicates obesity, the method of raising horses might affect their physical ability. At the species level, rates of Clostridium butyricum in grazing and stable groups were 3.2% and 13.1%, respectively. Some strains of C. butyricum can cause several diseases such as botulism. These results indicate that grazing can positively affect growing horses in terms of blood components and intestinal microbiota. Moreover, grazing can be helpful to make growing horses healthy through proper exercise.