• Ocean and Polar Research
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• 제32권3호
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• pp.309-319
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• 2010

To assess community structure and diversity of archaea, a clone sequencing analysis based on an archaeal 16S rRNA gene was conducted at three sediment depths of the continental slope and Ulleung Basin in the East Sea. A total of 311 and 342 clones were sequenced at the slope and basin sites, respectively. Marine Group I, which is known as the ammonia oxidizers, appeared to predominate in the surface sediment of both sites (97.3% at slope, 88.5% at basin). In the anoxic subsurface sediment of the slope and basin, the predominant archaeal group differed noticeably. Marine Benthic Group B dominated in the subsurface sediment of the slope. Marine Benthic Group D and Miscellaneous Crenarchaeotal Group were the second largest archaeal group at 8-9 cm and 18-19 cm depth, respectively. Marine Benthic Group C of Crenarchaeota occupied the highest proportion by accounting for more than 60% of total clones in the subsurface sediments of the basin site. While archaeal groups that use metal oxide as an electron acceptor were relatively more abundant at the basin sites with manganese (Mn) oxide-enriched surface sediment, archaeal groups related to the sulfur cycle were more abundant in the sulfidogenic sediments of the slope. Overall results indicate that archaeal communities in the Ulleung Basin show clear spatial variation with depth and sites according to geochemical properties the sediment. Archaeal communities also seem to play a significant role in the biogeochemical carbon (C), nitrogen (N), sulfur (S), and metal cycles at each site.

• 한국미생물·생명공학회지
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• 제32권2호
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• pp.195-198
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• 2004

Molec-ular analysis was performed on the microflora found In the necrotic pulpal tissue collected from 5 infected root canals that were diagnosed as a periapical abscess. 16S rRNA coding gene (rDNA) library construction and sequencing were performed in order to identify the microflora, The 16S rDNA sequences from 278 clones were identified by a comparison with the database sequence in GenBank. Three phylum and 31 species, which were related to the oral microflora, were identified from the 3 samples (No. 87, 105, and 115). Dialister invisus (5.6％), Peptostreptococcus micron (18.3％), and Veillonella sp. (3.3％) were the organism present in all tee samples. Lac-tobacillusfementum (2.8％),Eubacterumsp./E. infirmum (6.7％), Shuttleworthiasatelles (3.9％), Psudorarnihacfer alactoiyticus (13.3％), Bulleidia moorei (2.8％), and Prevotella denticola (1.1％) were found in two samples. Two phylum and low species of environmental microflora were identified from 2 samples (No.95 and 101). The reason for this might be contamination of the samples with dental water. These results showed that molecular analysis could reveal more diverse microflora that are associated with endodontic infections than that revealed by conventional cultural methods. In addition, these results may of for the basic data to epidemiological studies related with endodontic infection.

• 한국토양비료학회지
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• 제39권4호
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• pp.185-194
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• 2006

몇 년동안 게껍질이 풍부하게 있었던 밭토양에서 강한 키틴분해능력을 가진 Trichoderma 곰팡이를 분리하였다. 분리된 곰팡이의 5.8S rRNA, partial 18S, 28S rRNA genes, ITS1, ITS2 sequence 분석과 형태학적 특징을 살펴본 결과 Trichoderma asperellum으로 동정되었고, 이를 Trichoderma asperellum T-5 (TaT-5)로 명명하였다. 이 곰팡이는 chitianse와 ${\beta}$-1,3-glucanase같은 lytic enzyme을 분비하며, 키틴배지 상에서 6가지의 항 곰팡이성 물질을 생산했다. R. solani가 원인인 오이의 모잘록병에 대해 TaT 5의 방제효과를 보기 위해서 TaT-5 배양액(TA), chitin medium(CM), 증류수(DW)를 씨를 심은 후 10일 째에 각 pot에 관주했다. 그리고 관주 1주일 후에 R. solani의 균사를 갈아서 각 pot에 주었다. 실험기간 동안에 오이의 지상부와 지하부 생체중은 다른 처리구에 비하여 TA 처리구가 더 많이 증가하였다. 오이 잎에서 PR-protein (chitianse, ${\beta}$-1,3-glucanase) 활성은 R. solani 감염 후 CM과 DW에서 증가를 보였고, TA 처리구에서는 증가하다가 감소하는 경향을 보였다. 뿌리에서는 모든 처리구가 감소하는 경향을 보였지만 TA 처리구가 CM과 DW 처리구보다 감소하는 정도가 적었다. 오이의 잎과 뿌리에서 lignification related enzyme(POD, PPO, PAL)활성은 R. solani 감염 초기에는 증가하다가 점점 감소하는 경향을 보였다. 이러한 결과들은 TaT-5에 의하여 생산된 lytic enzymes와 항 곰팡이성 물질들이 오이에 R. solani의 공격을 줄여준다고 생각된다.

• Molecules and Cells
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• 제25권4호
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• pp.510-522
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• 2008

To construct the molecular systematics of the genus Megoura (Hemiptera: Aphididae), DNA based-identification was performed using four mitochondrial and three nuclear DNA regions: partial cytochrome c oxidase I (COI), partial tRNA-leucine + cytochrome c oxidase II (tRNA/COII), cytochrome b (CytB), partial 12S rRNA + tRNA-valine + 16S rRNA (12S/16S), elongation factor-1 alpha ($EF1{\alpha}$), and the internal transcribed spacers 1 and 2 (ITS1, ITS2). Pairwise sequence divergences between taxa were compared, and phylogenetic analyses were performed based on each DNA region separately, and the combined datasets. COI, CytB, $EF1{\alpha}$, ITS1, and ITS2 were relatively effective in determining species and resolving their relationships. By contrast, the sequences of tRNA/COII and 12S/16S were not able to separate the closely related species. CytB and $EF1{\alpha}$ gave better resolution with higher average sequence divergences (4.7% for CytB, 5.2% for $EF1{\alpha}$). The sequence divergence of COI (3.0%) was moderate, and those of the two ITS regions (1.8% for ITS1, 2.0% for ITS2) were very low. Phylogenetic trees were constructed by minimum evolution, maximum parsimony, maximum likelihood, and Bayesian phylogenetic analyses. The results indicated that the phylogenetic relationships between Megoura species were associated with their host preferences. Megoura brevipilosa and M. lespedezae living on Lespedeza were closely related, and M. nigra, monophagous on Vicia venosa, was rather different from M. crassicauda, M. litoralis, and M. viciae, which are oligophagous on Lathyrus and Vicia. The three populations of M. crassicauda formed a clade separated from M. litoralis and M. viciae. Nevertheless M. litoralis and M. viciae, which are morphologically similar, were not separated due to negligible sequence divergence. We discuss the phylogenetic relationships of the Megoura, and the usefulness of the seven DNA regions for determining the species level phylogeny of aphids.

• 한국어류학회지
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• 제25권2호
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• pp.53-58
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• 2013

2011년과 2012년 하계에 제주도 서귀포에서 줄자돔속 어류로 추정되는 치어 7개체(체장 16.1~29.1 mm)가 채집되었다. 그중 5개체(체장 20.8~29.1 mm)는 몸 중앙에 황색의 뚜렷한 가로줄무늬와 가슴지느러미 기저에 작은 검은색 반점이 1개 있고 꼬리지느러미가 노란색을 띠는 점에서 동갈자돔(Abudefduf notatus)과 유사하였다. 그러나, 상대적으로 크기가 작은 2개체(체장 16.1 mm, 17.0 mm)는 다열의 밝은 가로줄무늬가 있고 두부의 앞쪽과 배지느러미를 제외한 모든 지느러미 연조부가 투명한 점에서 앞서 5개체와 차이를 보였다. 미토콘드리아 16S rRNA 영역 578bp를 분석한 결과, 본 개체는 동갈자돔 성어와 95% bootstrap 값으로 일치하였다(genetic distance, d=0.002). 따라서, 본 연구를 통해 동갈자돔 치어 중 20.8 mm 이상 개체는 성어와 유사한 체색을 나타내었으나 그보다 작은 16.1 mm개체에서는 성어와 다른 체색을 보여 본 종은 어린 시기에 체색이 변하는 것을 확인할 수 있었다. 이는 이들이 어린 시기에 포식자로부터 자신을 방어하기 위한 생존전략으로 사료된다

• 한국자원식물학회지
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• 제19권1호
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• pp.161-168
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• 2006

제주도에 자생하는 부채 선인장인 백년초의 기원 규명을 목적으로 ITS primer를 이용하여 685 bp의 ITS 영역을 분리하였다. ITS 영역의 염기서열을 분석한 결과 18S rRNA의 길이는 54 bp, 26S rRNA는 55 bp, ITS1은 193 bp, ITS2는 220 bp로 구성되어 있었다. 백년초 ITS 영역은 기존에 보고된 Cucurbitoideae 식물들의 ITS 영역에 비하여 ITS2 스페이서 영역의 239-254 bp보다는 다소 짧았다. 그러나 이들 스페이서 영역의 GC 함량은 백년초의 경우 ITS1은 66.8%, ITS2의 경우에는 67.7%로 Cucurbitoideae 식물들에서 보다 높은 GC 함량을 나타내었다. 백년초 선인장의 rDNA 영역에 가장 높은 상동성을 나타낸 것은 같은 Opuntioideae에 속하는 Pereskiopsis porteri(L78037)로 95%의 유사도를 나타내었다. 백년초 rDNA Clustal W 프로그램을 이용하여 유연관계를 조사한 결과 같은 Opuntioideae에 속하는 Pereskiopsis porteri(L78037)와 같은 cluster로 분리되었다.

• Asian-Australasian Journal of Animal Sciences
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• 제15권7호
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• pp.1057-1065
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• 2002

The antagonistic activities of 30 strains of lactobacilli against Helicobacter pylori were determined and Lactobacillus helveticus CU631 has been selected as the strain which possesses the strongest inhibitory effect in the disc diffusion assay showing inhibition zone diameter of $10{\pm}1.5mm$, whereas those of L. plantarum and L. fermentum have been shown to be $4.0{\pm}0.6mm$. H. pylori G88016 revealed the highest vacuolating toxin producing activity among the 8 strains, the inhibitory activity of L. helveticus CU631 in vacuolating toxin producing activity of H. pylori manifested in the co-culture of two strains and in the 5:5 mixture of supernatant of the two strains. Both L. helveticus CU631 and cell free culture supernatant had a strong inhibitory activities in urease and cytotoxin producing activities of H. pylori NCTC11637 and CJH12. An accelerated proteolytic activity of water soluble peptides by L. helveticus CU631 during the refrigeration storage has been manifested in the cream cheese. DNA seqences of 16S-23S ribosomal RNA spacer region showed typical pattern among the various strains of L. helveticus, which could be used in the identification of L. helveticus CU 631.

• ALGAE
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• 제38권1호
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• pp.1-22
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• 2023

An enormous body of research is focused on finding ways to commercialize carotenoids produced by the unicellular green alga, Haematococcus, often without the benefit of a sound phylogenetic assessment. Evidence of cryptic diversity in the genus means that comparing results of pigment studies may be confounded by the absence of a phylogenetic framework. Moreover, previous work has identified unnamed strains that are likely candidates for species status. We reconstructed the phylogeny of an expanded sampling of Haematococcus isolates utilizing data from nuclear ribosomal markers (18S rRNA gene, 26S rRNA gene, internal transcribed spacer [ITS]-1, 5.8S rRNA gene, and ITS-2) and the rbcL gene. In addition, we gathered morphological, ultrastructural and pigment data from key isolates of Haematococcus. Our expanded data and taxon sampling support the concept of a new species, H. privus, found exclusively in North America. Despite overlap in numerous morphological traits, results indicate that ratios of protoplast length to width and akinete diameter may be useful for discriminating Haematococcus lineages. High growth rate and robust astaxanthin yield indicate that H. rubicundus (SAG 34-1c) is worthy of additional scrutiny as a pigment source. With the description of H. privus, the evidence supports the existence of at least five, species-level lineages in the genus. Our phylogenetic assessment provides the tools to frame future pigment investigations of Haematococcus in an updated evolutionary context. In addition, our investigation highlighted open questions regarding polyploidy and sexuality in Haematococcus which demonstrate that much remains to be discovered about this green flagellate.

• Parasites, Hosts and Diseases
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• 제53권1호
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• pp.113-117
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• 2015

Cryptosporidium spp., ubiquitous enteric parasitic protozoa of vertebrates, recently emerged as an important cause of economic loss and zoonosis. The present study aimed to determine the distribution and species of Cryptosporidium in post-weaned and adult pigs in Shaanxi province, northwestern China. A total of 1,337 fresh fecal samples of post-weaned and adult pigs were collected by sterile disposable gloves from 8 areas of Shaanxi province. The samples were examined by Sheather's sugar flotation technique and microscopy at${\times}400$ magnification for Cryptosporidium infection, and the species in positive samples was further identified by PCR amplification of the small subunit (SSU) rRNA gene. A total of 44 fecal samples were successfully amplified by the nested PCR of the partial SSU rRNA, with overall prevalence of 3.3%. The average prevalence of Cryptosporidium infection in each pig farms ranged from 0 to 14.4%. Species identification by sequencing of SSU rRNA gene revealed that 42 (3.1%) samples were Cryptosporidium suis and 2 (0.15%) were Cryptosporidium scrofarum. C. suis had the highest prevalence (7.5%) in growers and the lowest in breeding pigs (0.97%). C. suis was the predominant species in pre-weaned and adult pigs, while C. scrofarum infected pigs older than 3 months only. A season-related difference of C. suis was observed in this study, with the highest prevalence in autumn (5.5%) and the lowest (1.7%) in winter. The present study provided basic information for control of Cryptosporidium infection in pigs and assessment of zoonotic transmission of pigs in Shaanxi province, China.

• 공업화학
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• 제24권4호
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• pp.407-411
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• 2013

부산시 남부하수처리장 혐기성 하수처리 공정 중 채취한 슬러지에서 수소생산 균주 AS12를 분리하였다. 분리된 균주의 16S rRNA 염기서열을 바탕으로 계통학적 분류 결과 Escherichia coli sp.에 속하는 것으로 동정되었다. 수소생산을 위한 최적 온도와 pH는 각각 $35^{\circ}C$와 8.0이었다. 배지내의 탄소원과 질소원의 종류 및 농도가 수소생산에 미치는 영향을 알아보았다. 탄소원은 galactose로 10 g/L가 최적이었고, 질소원은 peptone으로 5 g/L가 최적이었다.