• Journal of Microbiology
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• 제35권3호
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• pp.159-164
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• 1997

The phylogenetic study of Penicilium chrysogenum was performed based on amino acid sequence comparison of chitin synthase. Phylogenetic trees were constructed with the deduced amino acid sequences of the highly conserved region of chitin synthease gene fragments amplified by PCR. The BlasP similarity searcch and the bootstrap analysis of the deduced amino acid sequences of chitin synthase from P. chrysogenum with those form other fungi showed a close evolutionary relationship of Penicillium to ascomycetous fungi, especially to genus Aspergilus. The result from bootstrap analysis of the deduced amino acid sequences of the Class II chitin synthase from ascomyceteous fungi supported the usefulness of the Class II chitin synthease for phylogenetic study of filamentous fungi.

• Journal of Microbiology
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• 제38권3호
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• pp.122-131
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• 2000

Phylogenetic classification of the Aphyllophorales was conducted based on the analysis of nuclear small subunit ribosomal RNA (nuc SSU rDNA) sequence. Based on phylogenetic groupings and taxonomic characters, 16 families were recognized and discussed. Although many of the characters had more or less homoplasies, miroscopic characters such ad the mitic system and clamp, spore amyloidity and rot type appeared to be important in the classification of the Aphyllophorales. Phylogenetically significant families were newly defined to improve the classification of the order Aphyllophorales.

• 한국균학회지
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• 제52권1호
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• pp.13-18
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• 2024

We isolated endophytic fungal strains from twigs of Larix gmelinii var. olgensis. These strains were identified based on their morphological characteristics and phylogenetic analyses including internal transcribed spacers and large subunit rDNA. We confirmed the presence of a previously unrecorded fungal species in Korea, Aequabiliella effusa. This study presents the morphological characteristics and phylogenetic analysis of A. effusa.

• 한국자원식물학회지
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• 제32권6호
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• pp.644-668
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• 2019

Dysphania ambrosioides (L.) Mosyakin & Clemants which belongs to Chenopodiaceae/Amaranthaceae sensu in APG system has been known as a useful plant in various fields as well as an invasive species spreading all over the world. To understand its phylogenetic relationship with neighbour species, we completed chloroplast genome of D. ambrosioides collected in Korea. Its length is 151,689 bp consisting of four sub-regions: 83,421 bp of large single copy (LSC) and 18,062 bp of small single copy (SSC) regions are separated by 25,103 bp of inverted repeat (IR) regions. 128 genes (84 protein-coding genes, eight rRNAs, and 36 tRNAs) were annotated. The overall GC content of the chloroplast genome is 36.9% and those in the LSC, SSC and IR regions are 34.9%, 30.3%, and 42.7%, respectively. Distribution of simple sequence repeats are similar to those of the other two Dysphania chloroplasts; however, different features can be utilized for population genetics. Nucleotide diversity of Dysphania chloroplast genomes 18 genes including two ribosomal RNAs contains high nucleotide diversity peaks, which may be genus or species-specific manner. Phylogenetic tree presents that D. ambrosioides occupied a basal position in genus Dysphania and phylogenetic relation of tribe level is presented clearly with complete chloroplast genomes.

• Journal of Species Research
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• 제8권3호
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• pp.313-317
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• 2019

Bats influence overall ecosystem health by regulating species diversity and being a major source of zoonotic viruses. Hence, there is a need to elucidate their migration, population structure, and phylogenetic relationship. The complete mitochondrial genome is widely used for studying the genome-level characteristics and phylogenetic relationship of various animals due to its high mutation rate, simple structure, and maternal inheritance. In this study, we determined the complete mitogenome sequence of the bird-like noctule (Nyctalus aviator) by Illumina next-generation sequencing. The sequences obtained were used to reconstruct a phylogenic tree of Vespertilionidae to elucidate the phylogenetic relationship among its members. The mitogenome of N. aviator is 16,863-bp long with a typical vertebrate gene arrangement, consisting of 13 protein-coding genes (PCGs), 22 transfer RNA genes, 2 ribosomal RNA genes, and 1 putative control region. Overall, the nucleotide composition is as follows: 32.3% A, 24.2% C, 14.3% G, and 29.2% T, with a slight AT bias (61.5%). The base composition of the 13 PCGs is as follows: 30.3% A, 13.4% G, 31.0% T, and 25.2% C. The phylogenetic analysis, based on 13 concatenated PCG sequences, infers that N. aviator is closely related to N. noctula with a high bootstrap value (100%).

• 미생물학회지
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• 제38권4호
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• pp.293-298
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• 2002

다양한 농도의 영양배지(nutrient broth, NB; diluted nutrient broth, DNB)를 이용하여 음용 지하수중의 세균수를 계수한 결과, 통상농도의 NB배지에 비해 저영양배지인 DNB배지에서 2～50배 이상 높은 계수치를 나타내었다. 이와 같은 결과로부터 지하수중에는 NB배지에서는 중식이 현저히 저해되고 DNB배지에서만 중식이 가능한 저영양세균(oligotrophic bacteria)이 다수 분포하고 있음이라 판단되어 DNB배지로부터 184균주의 저영양세균을 분리하였다. 본 연구에서는 시판 음용수(CW, CJ )와 광천수(DPG, CJG1)에서 분리된 저영양세균 102 균주의 165 rDNA 염기서열을 결정하여 계통분류학적 특성을 검토한 결과 세 개의 주요한 계통군: Proteobacteria $\alpha$-subdivision (49 균주), $\beta$-subdivision (50 균주), $\gamma$-subdivision (3 균주)으로 분류되었다. Proteobacteria $\alpha$-subdivision에는 Afipia, Blastobacter, Bradyrhizobium, Caulobacter, Phenylobacterium, Rhizobioum, Sphingomonas가 포함되었으며, $\beta$-subdivision에는 Acidovorax, Azonexus, Ferribacterium, Janthinobacterium, Leptothrix, Polaromonas, Variovorax가 포함되었고, $\gamma$-subdivision에는 Rhodanobacter 등 다양한 계통군이 확인되었다.

• 한국어병학회지
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• 제22권3호
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• pp.211-218
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• 2009

경북 울진 지역에서 채집된 양식 강도다리와 충남 태안 및 부산 지역 넙치 시료로부터 분리한 MABV에 대한 유전자 비교를 위해 VP2-NSPhylogenetic VP3 region (432 bp)을 phylogenetic 분석에 이용했다. Sequence 확인 결과 MABV (08-KU)는 일본 방어에서 최초 분리 보고된 YTAV와 98%의 nucleotide 유사성이 나타났으며, 이전 보고된 다 른 여러 strain들과는 76%이상 유사한 것으로 확인되었다. 그리고 MABV (06-KP)와 MABV (08-KC)도 YTAV와 97-98%의 높은 sequence 유사성을 보였다. 또한 다양한 MABV strain들과의 비교를 위해 충남태안 및 부산지역 넙치 시료에서 분리한 MABV (08-KC)와 MABV (06-KP)에 대한 phylogenetic 분석도 실시하였다. 그 결과 분석에 사용된 MABV (08-KU0, MABV (06-KP), MABV (08-KC)는 모두 일본 방어에서 분리된 MABV Y6와 동일한 genogroup VII에 포함 되었다.

• 생명과학회지
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• 제21권7호
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• pp.939-946
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• 2011

미토콘드리아 산화효소(COI) 유전자의 서열을 이용하여 한국 내 육지플라나리아의 분류와 계통관계를 규명하였다. 유전자은행에서 Bipaliidae과의 종에 관한 기 발표된 서열을 계통분석을 위해 포함시켰다. 육지 플라나리아의 서열 배당은 387 bp에서 444 bp로 나타났으며 이런 차이는 염기 삽입에 기인하였다. COI 분석에 근거한 계통학적 분지도는 형태적 형질에 의한 결과와 일치하지 않았다. Bipalium nobile가 나머지 분류군(Bipalium adventitium, Bipalium venosum, Bipalium kewense, Bipalium multilineatum)을 포함하는 관계로 나타났다. 내부 가지의 분지군은 강하게 지지되었다(>91%). The phylogenic tree on COI 분석에 의한 계통도는 잘 분리되었다. 이들은 단계원을 형성하였다. 미토콘드리아 산화효소 유전자는 한국 내 육지 플라나리아 분류군을 동정하는데 유력한 도구가 될 수 있다.

• Journal of Microbiology
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• 제41권3호
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• pp.232-238
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• 2003

Previous phylogenetic studies on human immunodeficiency virus type 1 (HIV-1) isolated from Korean patients suggest that the major subtype of Korean isolate is subtype B. In this subtype, some of the Korean isolates seem to be clustered exclusively of foreign isolates. Presence of this so-called “Korean clade” among Korean isolates is unique but needs verification since the number of Korean isolates used in previous studies was limited. This study aimed to identify the presence of the “Korean clade” by molecular phylogenetic analysis using all the Korean nef gene sequences registered in the NCBI GenBank (N=243) together with 32 reference strains and 77 foreign isolates. Extensive analysis of the nef gene nucleotide sequences by neighbor-joining method revealed the following. Most (83.1 ％) of the Korean isolates belonged to subtype B, and 81.2％ of subtype B were clustered together and excluded foreign isolates (bootstrap value=91.9％ ). Within Korean subtype B cluster, no characteristic subcluster formation was evident since the bootstrap values for the subcluster were very low. Due to limited information, the phylogenetic analysis failed to identify the epidemiological linkage among specific groups such as homosexuals and hemophiliacs within the Korean subtype B cluster. Detailed analysis and epidemiological information are needed to clarify the origin and significance of the Korean subtype B cluster.

• 한국동물위생학회지
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• 제37권3호
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• pp.157-164
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• 2014

Clostridium chauvoei is the etiologic agent of blackleg, a high mortality rated disease infection mainly cattle. In the present study, the partial sequences of 16S rRNA and flagellin gene of C. chauvoei isolated in Jeonbuk, Korea were determined and compared with those of reference strain. Oligonucleotide primers were designed to amplify a 811 bp fragment of 16S rRNA gene and 1229 bp fragment of flagellin gene. Sequencing analysis of 16S rRNA gene showed high homology to the reference strains ranging 82.3% to 100%, while flagellin gene were different from published foreign clostridia, showing 98.7% to 72.0% nucleotide sequence homology. Phylogenetic analysis based on 16S rRNA gene revealed the close phylogenetic relationship of C. chauvoei and C. septicum in cluster I, which includes C. carnis, C. tertium, C. quinii, C. celatum, C. perfringens, C. absonum, C. botulinum B. Phylogentic analysis also revealed that flagellin gene formed a single cluster with C. chauvoei, C. septicum, C. novyi A, C. novyi B, C. tyrobutylicum, C. acetobutylicum. The genetic informations obtained from this study could be useful for the molecular study of C. chauvoei.