• 미생물학회지
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• 제37권2호
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• pp.137-144
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• 2001

순천만 갯벌의 세균 군집의 다양성을 조사하기 위해 16S rDNA의 다양성을 조사하였다. 갯벌로부터 전체 핵산을 분리한 후, 세균에 상보적인 universal primer로 증폭된 16S rDNA로부터 클론 라이브러리를 만들었다. 총 111개의 클론으로부터 HaeIII를 이용하여 amplified rDNA restriction analysis (ARDRA)를 수행하고, Gelcompar II 프로그램을 이용하여 pattern을 clustering하였다. 111개의 클론 중 100가지의 서로 다른 RFLP type이 조사되었고, 이들 중 전체 클론 라이브러리를 대표할 수 있는 20개의 클론을 선별하여 부분적인 염기서열을 분석하여 세균 다양성을 분석하였다. 20개의 클론중에는 RDP와 GenBank에서 제공하는 small subunit RNA database와 동일한 클론은 존재하지 않았으며, 이미 알려진 배양 가능한 세균의 16S rRNA 염기서열과 비교 하였을때 77∼96.8%의 유사도를 보였다. 또한 이들 20개의 클론은 alpha-, delta-, gamma-Proteobacteria, low G+C Gram positive bacteria, high G+C Gram positive bacteria, Sphingobacteria (Cytophaga); Cyanobacteria (Chloroplast)등 주요한 7개 lineage에 속했으며, 클론들 중 Proteobacteria가 우점종을 차지하고 있었다.

• 대한의생명과학회지
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• 제18권3호
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• pp.324-327
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• 2012

Acanthamoeba is a free-living amoeba that causes human infections, and recently the incidence of amoebic keratitis has increased among contact lens wearers. In order to investigate Acanthamoeba contamination of contact lens storage cases, a short survey was performed on 57 contact lens wearers, and Acanthamoeba was found in one contact lens storage case. To diagnose Acanthamoeba, the 18s small subunit ribosomal DNA (18s rDNA) gene was amplified by polymerase chain reaction (PCR), and subsequently, the isolate was identified as A. lugdunensis. This species was originally isolated from a freshwater pool in France, and was reported recently to be a cause of amoebic keratitis. This observation indicates the need for a large survey to investigate the extent of Acanthamoeba contamination, and suggests that contact lens wearers be aware of the importance of hygiene and of the implications of Acanthamoeba infection.

• 한국생물공학회:학술대회논문집
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• 한국생물공학회 2000년도 춘계학술발표대회
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• pp.219-222
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• 2000

Physiological changes of Escherichia coli during the fed-batch fermentation process were characterized in this study. Overall cellular protein samples prepared at the different stage of fermentation were separated by 2-dimensional gel electrophoresis (2-DE), and differently expressed 15 proteins, Phosphotransferase enzyme I, GroEL, Trigger factor, ${\beta}$ subunit of ATP synthase, Transcriptional regulator KDGR, Phosphoglycerate mutase 1, Inorganic pyrophosphatase, Serine Hydroxymethyl-transferase, ${\alpha}$ subunit of RNA polymerase, Elongation factor Tu, Elongation factor Ts, Tyrosine-tRNA ligase, DnaK suppressor protein, Transcriptional elongation factor, 30S ribosomal protein S6 were identified using matrix-assisted laser desorption / ionization time-of-flight mass spectrometry (MALDI-TOF MS). When bacterial cells grow to high cell density, and IPTG-inducible heterologous protein is produced, expression level of overall cellular proteins was decreased. According to their functions in the cell, identified proteins were classified into three groups, proteins involved in transport process, small-molecule metabolism, and synthesis and modification of macromolecules.

• Mycobiology
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• 제50권3호
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• pp.155-165
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• 2022

Penicillium vietnamense sp. nov. was isolated from Nha Trang Bay, Vietnam in June 2017. It is phylogenetically distinct from the sister species of Penicillium section Charlesia series Indica based on multi-locus sequence typing results using internal transcribed spacer, large subunit ribosomal RNA, b-tubulin, calmodulin, and RNA polymerase II second largest subunit regions. It showed strong growth on Czapek yeast autolysate agar at 37 ℃, a strong acid production on Creatine sucrose agar, and produced short stipes, small vesicles, and subglobose to globose conidia delicately roughened with very short ridges. As the first novel marine fungi species described from Vietnam and discovered in a unique environment, the data could be significant for understanding the taxonomy and geographical distribution of marine fungi in tropical coastal systems such as Vietnam.

• Parasites, Hosts and Diseases
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• 제34권2호
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• pp.127-134
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• 1996

형태학적으로 카스텔라니가시아메바 혹은 대식가시아메바로 동정된 12 분리주들과 쿨버트손가시 아메바. 힐리가시아메바(Aconthomoeba hedwi) 팔레스타인가시아메바(A. plestinenis) 별가시아메바의 small subunitribosomal RNA유전자(ssu rDNA) 중 conserved region을 PCRR 증폭하여 제한효노절단부위를 비교하떴다. 별가시아메바의 PCR증폭 산물의 크기는 1.170 bp였고 나머지 분기주들의 것은 910-930 bp 사이였다 카스텔라너가시아메바로 분류건 여섯 주간의 추정 염기치찬율의 평근은 9.BPg였고. 대식가시아떼바로 분류된 분리주간의 그 평근은 9 6U였다. 카스텔 라니가시아메바로 분류된 여섯 분리주들 사이의 최대 염기치환율은 Chang주와 Ma주 사이의 (7 3%)였고 대식가시아메바로 분류된 여섯 분리주간의 최대 염기치환율은 1A/S3주와 KA/S7주 사이의 (16.1%)였다. 이들 종내 최대 염기치환율은 Castellani주 혹은 CCAP 1501/12g주와 KA/S3 주 사이에거 나타난 카스텔라니가시아메바와 대식가시아떼바간의 종간 최소 염기치환율(2.6%)보 다 횔씬 컸나. 쿨버트손가시아메바. 힐리가시아메바 팔레스타인가시아메바 및 별가시아메바의 PCR-RFLP 양상은 카스텔라니가시아메바 또는 대식가시아메바로 동정된 분리주들의 것들과 그리 고 강호간에서도 높은 염기치환율(평균 23 6%)을 보였다. 이상의 성적으로 미루어 보아 가시아메바속의 분류는 재평가 해 보아야 할 건으로 생각된다 A. healyi와 A. palestinensis의 우리말 이름을 각각 힐리가시아메바와 팔레스타인가시아메바로 제안한다.

• 식물병연구
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• 제11권1호
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• pp.56-65
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• 2005

이 연구는 Alternaria속 균류 중에서 분생포자의 형태가 유사하여 분류, 동정이 매우 어려운 소형의 포자를 형성하는 11종의 Alternaria의 종간 유연관계와 분류체계를 확립하기 위하여 공시균들의 ribosomal DNA의 ITS 및 미토콘드리아 small submit 영역의 염기서열 분석, 그리고 URP primer에 의한 핵산지문분석을 실시하였다. 소형의 포자를 형성하는 11종 Alternaria속의 rDNA internal transcribed spacer(ITS) 영역과 미토콘드리아 small submit rDNA 의 염기서열을 분석하였던 바 A. infectoria를 제외한 10종의 Alternaria에서 100%의 상동성을 나타내었다. 이는 공시한 10종의 Alternaria가 유전적으로 매우 근연의 관계에 있음을 나타내며, 이 marker는 공시균들의 종구분에 이용할 수 없음을 나타내는 것이다. URP primer 10종을 공시하여 소형의 포자를 형성하는 Alternaria 균류의 핵산지문분석을 실시한 결과, 개개의 primer 로는 종간의 구분이 불가능하였으나 여러개의 primer를 종합하여 UPGMA분석을 실시할 경우 비록 종간 유사도는 높았디만 각각의 종은 독립된 cluster를 형성하여 종간 구별이 가능하였다. 자리공에서 분리한 Alternaria sp.는 URP-PCR 핵산지문 분석 결과 다른 Alternaria 종들과 차이가 인정됨으로 이 균은 미기록인 신종의 Alternaria로 사료되었다. A.infectoria는 다른 Alternaria 종들과 ITS 분석 및 URP-PCR 핵산지문분석에서 큰 차이를 보임으로서 뚜렷이 구별되는 종으로 판단되었다.

• Parasites, Hosts and Diseases
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• 제40권1호
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• pp.25-31
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• 2002

We describe a riboprinting scheme for identification of unknown Acanthamoeba isolates at the species level. It involved the use of PCR-RFLP of small subunit ribosomal RNA gene (riboprint) of 24 reference strains by 4 kinds of restriction enzymes. Seven strains in morphological group I and III were identified at species level with their unique sizes of PCR product and riboprint type by Rsa 1. Unique RFCP of 17 strains in group II by Dde I. Taq I and Hae III were classified into: (1) four taxa that were identifiable at the species level. (2) a subgroup of 4 taxa and a pair of 2 taxi that were identical with each other. and (3) a species complex of 7 taxa assigned to A. castellanii complex that were closely related. These results were consistent with those obtained by 18s rDNA sequence analysis. This approach provides an alternative to the rDNA sequencing for rapid identification of a new clinical isolate or a large number of environmental isolates of Acanthamoeba.

• Mycobiology
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• 제32권4호
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• pp.179-185
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• 2004

Arbuscular mycorrhizal fungi were observed in Botrychium ternatum native in Korea. The partial small subunit(SSU) of ribosomal DNA gene from the fern roots was amplified with primers AM1/NS31. Nucleotides sequence analysis of the clones revealed that two fragments were close to Glomus proliferum and G. sinuosum. The other three DNA fragments were close to those of G. proliferum with the relatively low similarities($92{\sim}95%$) and speculated to be originated from three different species of Glomus(GLA006, GLA016, and GLA032). Five different nucleotide sequences close to three AM fungal species were found in the roots of B. ternatum native in Korea.

• ALGAE
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• 제31권3호
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• pp.205-217
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• 2016

Freshwater red tides due to dinoflagellates have caused spectacular and regular “summer reddening” in recent years in Baishihai Lake, a temperate, meromictic, meso- or oligotrophic, high-altitude, landslide-dammed, deep lake located at the eastern edge of Tibetan Plateau in China. Based on morphological and molecular analyses, the causative organism has been identified as a new woloszynskioid dinoflagellate, Tovellia diexiensis Q. Zhang et G. X. Liu sp. nov. The vegetative cells are 20-32 μm long and 16-24 μm wide. They have a hemispherical episome and a broadly rounded hyposome with a short characteristic antapical spine. Usually cells are bright red due to the presence of numerous red-pigmented bodies, which often masked the yellowish green discoid chloroplasts. The amphiesma of motile cells comprise mainly quadrilateral, pentagonal or hexagonal thin plates, arranged in 4-5 latitudinal series on the episome, 1 in the cingulum and 4 on the hyposome. Molecular phylogenies based on small subunit ribosomal DNA and large subunit ribosomal DNA (LSU) indicate T. diexiensis from Baishihai Lake to belong to the family Tovelliaceae, which was monophyletic in our LSU phylogenies. During the bloom-forming period in 2005, cell density of T. diexiensis reached 9.15 × 10⁵ cells L⁻¹. Astaxanthin and its diester were found to be the major pigments in T. diexiensis, resulting in a characteristic blood-red color of the water in Baishihai Lake.

• Journal of the korean society of oceanography
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• 제39권3호
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• pp.172-185
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• 2004

LSU rDNA D1-D2 and SSU rDNA genes of 23 strains in seven Alexandrium (Halim) species, A. tamarense (Lebour) Balech, A. catenella (Whedon et Kofoid), A. fraterculus (Balech) Balech, A. affine (Inoue et Fukuyo) Balech, A. insuetum Balech, A. pseudogonyaulax (Biecheler) Horiguchi ex Yuki et Fukuyo and A. tamiyavanichii Balech, were sequenced and the data were used for molecular phylogenetic analysis. The sequence data revealed 11 and 7 ribotypes in the LSU rDNA D1-D2 region and 4 and 17 ribotypes in the SSU rDNA region of A. catenella and A. tamarense, respectively. Other Alexandrium species had also 1 to 5 ribotypes in the two regions. With the exception of CMC2 and CMC3 of A. catenella, all A. tamarense and A. catenella strains had a common ribotype, a functionally expressed rRNA gene (here termed type A), in both gene regions. In addition to the functionally expressed gene, several pseudogenes were obtained that were found to be good tools to analyze the population designation of regional isolates by grouping them according to shared ribotypes. From the phylogenetic analysis of the sequence data determined in this study and retrieved from GenBank, the genus Alexandrium was divided into 14 groups: 1) A. tamarense, 2) A. excavatum, 3) A. catenella, 4) Tasmanian A. tamarense, 5) A. affine (and/or A. concavum), 6) Thai A. tamarense, 7) A. tamiyavanichii, 8) A. fraterculus, 9) A. margalefii, 10) A. andersonii, 11) A. ostenfeldii, 12) A. minutum (or A. lusitanicum), 13) A. insuetum, and 14) A. pseudogonyaulax. The SSU rDNA gene sequence of A. fundyense was so similar to those of A. tamarense used in this study that the two species were difficult to discriminate each other. A. tamiyavanichii was closest to the A. tamarense strain isolated in Thailand and close to the long chain-forming species of A. affine and A. fraterculus. The phylogenetic tree showed that A. margalefii, A. andersonii, A. ostenfeldii, A. minutum and A. insuetum constituted the basal relative complex, and that A. pseudogonyaulax is an ancestral taxon in the genus Alexandrium.