• 한국환경농학회지
• /
• 제34권2호
• /
• pp.149-154
• /
• 2015

효모의 유용 기능을 탐색하기 위해서 참나리에 정착하는 효모 군집을 분석하였다. 본 연구에서는 잎에서 총 82 균주, 줄기에서 총 94 균주, 꽃에서는 총 97 균주를 분리하였다. 분리된 균주를 ITS 1과 4 primer를 사용하여 ITS 영역 염기서열의 계통분석을 실시한 결과, 참나리 잎에서는 Pseudozyma가 31 균주, Aureobasidium pullulans가 28 균주, Cryptococcus가 11 균주, 줄기에서는 A. pullulans가 40 균주, Cryptococcus가 23균주, Candida 11 균주, 꽃에서는 A. pullulans가 95 균주, Rhodotorula 1 균주, Metschnikowia 1 균주가 분포하였다. 특히, 참나리 잎과 줄기, 꽃 모든 시료에서 A. pullulans가 우점하였으며, 꽃에서는 97 균주 중에서 95 균주의 A. pullulans가 검출되어 한 종이 절대적으로 우점함을 알 수가 있었다. 참나리 잎에서는 82 균주 중에서 Pseudozyma가 31 균주로 가장 우점함을 보였으며, 참나리 줄기에서는 94 분리 균주 중에서 Cryptococcus가 23 균주로 두번째로 우점함을 보였다. 참나리의 부위별로 분포양상이 다름을 확인하였다. 향후 이들 효모 균주들의 바이오테크놀로지 분야에 응용을 기대해본다.

• 한국환경농학회지
• /
• 제32권3호
• /
• pp.240-243
• /
• 2013

효모의 유용 기능을 탐색하기 위해서는 효모만을 스크리닝 하는 방법의 정립이 요구되는데 이를 위해서 알로에에 정착하는 효모 군집을 분석하였다. 본 연구에서는 알로에 베라(Aloe vera)와 알로에 사포나리아 (Aloe saponaria)의 잎을 파쇄하여 세균을 억제하기 위해서 항생제 chloramphenicol과 streptomycin과 곰팡이 생장을 억제하기 위해서 Triton X-100과 L-sorbose를 포함한 4가지 선택 배지(DOB with CS, GPY, YM, SCG)에 도말 하였고, A. vera에서 총 67균주, A. saponaria에서 총 42균주를 분리해 내었다. 분리된 균주를 ITS 1, 4 primer를 사용하여 sequence의 계통분석을 실시한 결과, A. vera에서는 Meyerozyma 가 56균주, Rhodotorula 가 1균주, Sporobolomyces 가 1균주, Cryptococcus 가 9균주, A. saponaria에서는 Rhodosporidium 가 41균주, Sporobolomyces가 1균주로 분포 되었다. 계통분석한 모든 분리 균주가 효모로 밝혀졌으며, 특히 대형 플레이트를 도입하여 신속하고 간편하게 대량의 효모를 발굴할 수 있음을 보였다.

• Parasites, Hosts and Diseases
• /
• 제58권1호
• /
• pp.73-79
• /
• 2020

Echinostoma revolutum is a zoonotic food-borne intestinal trematode that can cause intestinal bleeding, enteritis, and diarrhea in human and birds. To identify a suspected E. revolutum trematode from a red-crowned crane (Grus japonensis) and to reveal the genetic characteristics of its mitochondrial (mt) genome, the internal transcribed spacer (ITS) and complete mt genome sequence of this trematode were amplified. The results identified the trematode as E. revolutum. Its entire mt genome sequence was 15,714 bp in length, including 12 protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes and one non-coding region (NCR), with 61.73% A+T base content and a significant AT preference. The length of the 22 tRNA genes ranged from 59 bp to 70 bp, and their secondary structure showed the typical cloverleaf and D-loop structure. The length of the large subunit of rRNA (rrnL) and the small subunit of rRNA (rrnS) gene was 1,011 bp and 742 bp, respectively. Phylogenetic trees showed that E. revolutum and E. miyagawai clustered together, belonging to Echinostomatidae with Hypoderaeum conoideum. This study may enrich the mitochondrial gene database of Echinostoma trematodes and provide valuable data for studying the molecular identification and phylogeny of some digenean trematodes.

• 한국균학회소식:학술대회논문집
• /
• 한국균학회 2015년도 추계학술대회 및 정기총회
• /
• pp.41-41
• /
• 2015

Oomycetes belong to the kingdom Straminipila, a remarkably diverse group which includes brown algae and planktonic diatoms, although they have previously been classified under the kingdom Fungi. These organisms have evolved both saprophytic and pathogenic lifestyles, and more than 60% of the known species are pathogens on plants, the majority of which are classified into the order Peronosporales (includes downy mildews, Phytophthora, and Pythium). Recent phylogenetic investigations based on DNA sequences have revealed that the diversity of oomycetes has been largely underestimated. Although morphology is the most valuable criterion for their identification and diversity, morphological species identification is time-consuming and in some groups very difficult, especially for non-taxonomists. DNA barcoding is a fast and reliable tool for identification of species, enabling us to unravel the diversity and distribution of oomycetes. Accurate species determination of plant pathogens is a prerequisite for their control and quarantine, and further for assessing their potential threat to crops. The mitochondrial cox2 gene has been widely used for identification, taxonomy and phylogeny of various oomycete groups. However, recently the cox1 gene was proposed as a DNA barcode marker instead, together with ITS rDNA. To determine which out of cox1 or cox2 is best suited as universal oomycete barcode, we compared these two genes in terms of (1) PCR efficiency for 31 representative genera, as well as for historic herbarium specimens, and (2) in terms of sequence polymorphism, intra- and interspecific divergence. The primer sets for cox2 successfully amplified all oomycete genera tested, while cox1 failed to amplify three genera. In addition, cox2 exhibited higher PCR efficiency for historic herbarium specimens, providing easier access to barcoding type material. In addition, cox2 yielded higher species identification success, with higher interspecific and lower intraspecific divergences than cox1. Therefore, cox2 is suggested as a partner DNA barcode along with ITS rDNA instead of cox1. Including the two barcoding markers, ITS rDNA and cox2 mtDNA, the multi-locus phylogenetic analyses were performed to resolve two complex clades, Bremia lactucae (lettuce downy mildew) and Peronospora effuse (spinach downy mildew) at the species level and to infer evolutionary relationships within them. The approaches discriminated all currently accepted species and revealed several previously unrecognized lineages, which are specific to a host genus or species. The sequence polymorphisms were useful to develop a real-time quantitative PCR (qPCR) assay for detection of airborne inoculum of B. lactucae and P. effusa. Specificity tests revealed that the qPCR assay is specific for detection of each species. This assay is sensitive, enabling detection of very low levels of inoculum that may be present in the field. Early detection of the pathogen, coupled with knowledge of other factors that favor downy mildew outbreaks, may enable disease forecasting for judicious timing of fungicide applications.

• 식물분류학회지
• /
• 제42권1호
• /
• pp.50-63
• /
• 2012

개나리족(Abeliophyllum: 1 sp., Forsythia: 12 spp.)과 향선나무족(Fontanesia: 2 spp.) 및 근연분류군인 Myxopyreae족(Myxopyrum: 5 spp.)을 포함한 총 20분류군의 엽병의 해부학적인 형질을 검토하고자 광학현미경(LM)을 이용하여 연구하였다. 모든 해부학적 형질은 엽병의 횡단면을 단부, 중앙부, 기부로 나누어 관찰하였고, 측정된 정량적 형질과 정성적 형질에 대해 자세히 비교하고 기재하였다. 세 가지 유형(침상, 프리즘형, 선정체)의 결정체가 Fontanesia속과 Myxopyrum속에서만 확인되었다. 미선나무속과 개나리속의 일부 분류군(Forsythia europaea, F. giraldiana, F. japonica)에서만 단세포성 비선모(uni-cellular non-glandular trichome)가 관찰되었다. 본 연구 결과에서는 엽병의 유관속 패턴을 크게 두 타입으로 구분하여 기재하였다. Type 1A: 결정체가 존재하지 않는 단순호형(Abeliophyllum, Forsythia), 1B: 결정체가 존재하는 단순호형(Myxopyrum), Type 2: 결정체가 존재하는 함입호형(Fontanesia). 또한 세부적인 해부학적 형질에 대해 자세히 기재하였고, 분류학적 중요성에 대해 논의하였다. 결론적으로 일부 엽병 해부학적 형질(예, 주유관속 패턴, 결정체의 유무)은 진단형질로서 유용할 뿐 아니라 최근의 분자계통학적 결과를 지지하였다.

• The Plant Pathology Journal
• /
• 제38권5호
• /
• pp.541-549
• /
• 2022

Potato late blight caused by Phytophthora infestans is a destructive disease in Korea. To elucidate the genomic variation of the mitochondrial (mt) genome, we assembled its complete mt genome and compared its sequence among different haplotypes. The mt genome sequences of four Korean P. infestans isolates were revealed by Illumina HiSeq. The size of the circular mt genome of the four major genotypes, KR_1_A1, KR_2_A2, SIB-1, and US-11, was 39,872, 39,836, 39,872, and 39,840 bp, respectively. All genotypes contained the same 61 genes in the same order, comprising two RNA-encoding genes, 16 ribosomal genes, 25 transfer RNA, 17 genes encoding electron transport and ATP synthesis, 11 open reading frames of unknown function, and one protein import-related gene, tatC. The coding region comprised 91% of the genome, and GC content was 22.3%. The haplotypes were further analyzed based on sequence polymorphism at two hypervariable regions (HVRi), carrying a 2 kb insertion/deletion sequence, and HVRii, carrying 36 bp variable number tandem repeats (VNTRs). All four genotypes carried the 2 kb insertion/deletion sequence in HVRi, whereas HVRii had two VNTRs in KR_1_A1 and SIB-1 but three VNTRs in US-11 and KR_2_A2. Minimal spanning network and phylogenetic analysis based on 5,814 bp of mtDNA sequences from five loci, KR_1_A1 and SIB-1 were classified as IIa-6 haplotype, and isolates KR_1_A2 and US-11 as haplotypes IIa-5 and IIb-2, respectively. mtDNA sequences of KR_1_A1 and SIB-1 shared 100% sequence identity, and both were 99.9% similar to those of KR_2_A2 and US-11.

• 식물분류학회지
• /
• 제53권1호
• /
• pp.32-37
• /
• 2023

Spiraea prunifolia f. simpliciflora Nakai is a perennial shrub widely used for horticultural and medicinal purposes. We simultaneously obtained the complete plastid genome (plastome) and nuclear ribosomal gene transcription units, 45S nuclear ribosomal DNA (nrDNA) and 5S nrDNA of S. prunifolia f. simpliciflora, using Illumina short-read data. The plastome is 155,984 bp in length with a canonical quadripartite structure consisting of 84,417 bp of a large single-copy region, 18,887 bp of a short single-copy region, and 26,340 bp of two inverted repeat regions. Overall, a total of 113 genes (79 protein-coding genes, 30 tRNAs, and four rRNAs) were annotated in the plastome. The 45S nrDNA transcription unit is 5,848 bp in length: 1,809 bp, 161 bp, and 3,397 bp for 18S, 5.8S, and 26S, respectively, and 261 bp and 220 bp for internal transcribed spacer (ITS) 1 and ITS 2 regions, respectively. The 5S nrDNA unit is 512 bp, including 121 bp of 5S rRNA and 391 bp of intergenic spacer regions. Phylogenetic analyses showed that the genus Spiraea was monophyletic and sister to the clade of Sibiraea angustata, Petrophytum caespitosum and Kelseya uniflora. Within the genus Spiraea, the sections Calospira and Spiraea were monophyletic, but the sect. Glomerati was nested within the sect. Chamaedryon. In the sect. Glomerati, S. prunifolia f. simpliciflora formed a subclade with S. media, and the subclade was sister to S. thunbergii and S. mongolica. The close relationship between S. prunifolia f. simpliciflora and S. media was also supported by the nrDNA phylogeny, indicating that the plastome and nrDNA sequences assembled in this study belong to the genus Spiraea. The newly reported complete plastome and nrDNA transcription unit sequences of S. prunifolia f. simpliciflora provide useful information for further phylogenetic and evolutionary studies of the genus Spiraea, as well as the family Rosaceae.

• 한국균학회소식:학술대회논문집
• /
• 한국균학회 2015년도 춘계학술대회 및 임시총회
• /
• pp.55-55
• /
• 2015

Rust is one of the most destructive diseases on economically important plants such as agricultural and horticultural crops, as well as forest trees [1]. Chemical treatment is the most effective means to control rust, but use of the chemical fungicides involves inevitable risks to human health and environment [2]. Unfortunately, biocontrol is currently impracticable for rust disease management [3]. It is necessary to exploit biocontrol agents to help prevent rust diseases. As a fundamental research for future development of biocontrol agents for rusts, biodiversity of hyperparasites occurring on rust fungi was investigated. During 2006-2010, 197 fungal isolates of the rust hyperparasites were collected and isolated from various combinations of mycohosts and plant hosts in many regions of Korea. Based on morphological and molecular data, they were identified as 8 genera and 12 species. Besides, phylogenetic relationships between the hyperparasites and related taxa were inferred. A total of 114 isolates of Pseudovirgaria were obtained from rust pustules of Phragmidium spp. and Pucciniastrum agrimoniae infecting rosaceous plants. Phylogenetic analysis using multigene sequences revealed a high level of genetic variability among many isolates of Pseudovirgaria and close correlation between the isolates and mycohosts. Only two species of Pseudovirgaria, P. hyperparasitica and P. grisea are often difficult to distinguish by their morphological similarity, but on the molecular basis they were clearly differentiated from each other. There had been no previous record of P. grisea outside Europe, but the present study has proved its presence in Korea. Among six distinct groups (five of P. hyperparasitica and one of P. grisea) within the Pseudovirgaria isolates, each lineage of P. hyperparasitica was closely associated with specific mycohosts and thus might have cospeciated with their mycohosts, which probably led to coevolution. Although P. grisea possesses a host preference for Phragmidium species occurring on Rubus, it was not specific for a mycohost. P. grisea seems to evolve in the direction of having a broad mycohost range. Seventeen isolates of Verticillium-like fungi were isolated from rust sori. Based on morphological data and DNA sequence analysis, the isolates were identified as three Lecanicillium species, viz. L. attenuatum, Lecanicillium sp. 1, Lecanicillium sp. 2, and V. epiphytum. The unidenified two species of Lecanicillium appear to be previously unknown taxa. Sixty-six isolates of miscellaneous hyphomycetes belonging to 6 species of 5 genera were obtained from pustules of rust fungi. On the basis of morphological and molecular analyses, the miscellaneous hyphomycetes growing on rusts were identified as Acrodontium crateriforme, Cladophialophora pucciniophila, Cladosporium cladosporioides, Phacellium vossianum, Ramularia coleosporii, and R. uredinicola.

• 한국버섯학회지
• /
• 제15권4호
• /
• pp.273-278
• /
• 2017

느티만가닥버섯은 맛과 기능성이 풍부한 버섯으로 많이 활용되고 있다. 하지만 긴 재배기간과 낮은 자실체 수확량, 균이 오랜시간 배양되어 오염이 쉽게 발생되는 문제점을 극복할 새로운 품종육성이 필요하다. 이에 따라 육종모본으로 활용되는 느티만가닥 55균주의 종내 유전자원의 정확한 정보를 얻고자 분자유전학적 ISSR 마커분석을 활용하였다. 사용된 마커 중에서 ISSR 13과 15 마커를 사용했을 때 다형성이 분석되었으며 특히 ISSR 15마커 분석으로 다형성이 쉽게 구분되었다. UPGMA분석법으로 계통도를 분석하였을 때, 일부 백색을 가지고 있는 KMC03106, KMC03107, KMC03108 3 균주가 두 마커 모두에서 가까운 유연관계를 가졌으며, ISSR 15는 수집년도에 따라 3개의 그룹으로 구분되는 것을 확인할 수 있었다. 이 결과로 ISSR마커의 다형석 분석은 느티만가닥버섯의 몇몇 균주에서는 갓색의 유연관계 확인과 수집 시기에 따른 유전변이 구분이 가능하며 자원의 유전적 다양성 확인할 수 있어, 느티만가닥버섯의 품종육성을 위한 효율적인 모본 선발이 가능 할 것으로 사료된다.

• Parasites, Hosts and Diseases
• /
• 제51권5호
• /
• pp.511-517
• /
• 2013

Species identification using DNA sequences is the basis for DNA taxonomy. In this study, we sequenced the ribosomal large-subunit RNA gene sequences (3,037-3,061 bp) in length of 13 Chinese Theileria stocks that were infective to cattle and sheep. The complete 28S rRNA gene is relatively difficult to amplify and its conserved region is not important for phylogenetic study. Therefore, we selected the D2-D3 region from the complete 28S rRNA sequences for phylogenetic analysis. Our analyses of 28S rRNA gene sequences showed that the 28S rRNA was useful as a phylogenetic marker for analyzing the relationships among Theileria spp. in ruminants. In addition, the D2-D3 region was a short segment that could be used instead of the whole 28S rRNA sequence during the phylogenetic analysis of Theileria, and it may be an ideal DNA barcode.