• Mycobiology
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• 제50권1호
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• pp.66-78
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• 2022

The identification of oleaginous yeast species capable of simultaneously utilizing xylose and glucose as substrates to generate value-added biological products is an area of key economic interest. We have previously demonstrated that the Cutaneotrichosporon dermatis NICC30027 yeast strain is capable of simultaneously assimilating both xylose and glucose, resulting in considerable lipid accumulation. However, as no high-quality genome sequencing data or associated annotations for this strain are available at present, it remains challenging to study the metabolic mechanisms underlying this phenotype. Herein, we report a 39,305,439 bp draft genome assembly for C. dermatis NICC30027 comprised of 37 scaffolds, with 60.15% GC content. Within this genome, we identified 524 tRNAs, 142 sRNAs, 53 miRNAs, 28 snRNAs, and eight rRNA clusters. Moreover, repeat sequences totaling 1,032,129 bp in length were identified (2.63% of the genome), as were 14,238 unigenes that were 1,789.35 bp in length on average (64.82% of the genome). The NCBI non-redundant protein sequences (NR) database was employed to successfully annotate 11,795 of these unigenes, while 3,621 and 11,902 were annotated with the Swiss-Prot and TrEMBL databases, respectively. Unigenes were additionally subjected to pathway enrichment analyses using the Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Cluster of Orthologous Groups of proteins (COG), Clusters of orthologous groups for eukaryotic complete genomes (KOG), and Non-supervised Orthologous Groups (eggNOG) databases. Together, these results provide a foundation for future studies aimed at clarifying the mechanistic basis for the ability of C. dermatis NICC30027 to simultaneously utilize glucose and xylose to synthesize lipids.

• 미생물학회지
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• 제54권4호
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• pp.448-452
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• 2018

제주도 성산리 앞 바다 속 해면체로부터 분리한 Bacillus safensis KCTC 12796BP의 유전체를 분석하였다. 그 결과 3,935,874 bp의 환형 염색체와 36,690 bp의 plasmid 염기 서열을 확인하였다. 염색체는 G + C 함량이 41.4%로 75개의 위유 전자를 포함한 3,980개의 코딩 서열을, plasmid는 G + C 함량이 37.3%로 36개의 코딩 서열을 포함하고 있었다. 염색체 코딩 서열 중에는 81개의 tRNA 유전자, 24개 rRNA 유전자와 1개의 tmRNA 유전자가 있었다. 또한 포자 생성에 필요한 30개의 유전자, 포자피를 지령하는 16개의 유전자, 그리고 발아에 필요한 20개의 유전자도 발견되었다. 이외에 협막 다당체 생합성에 필요한 유전자와 편모 생합성 및 주화성에 필요한 유전자, 그리고 염 내성에 필요한 glycine-choline betaine 수송체에 관한 유전자도 존재하였다. 무엇보다도 항알러지활성을 보이는 이차대사산물 seongsanamide의 생합성을 지령하는 비리보좀성 펩타이드 합성효소 유전자를 확인할 수 있었다.

• 한국응용곤충학회:학술대회논문집
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• 한국응용곤충학회 2001년도 추계 합동 심포지엄 및 학술발표대회
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• pp.130-130
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• 2001

• 한국식물생명공학회:학술대회논문집
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• 한국식물생명공학회 2005년도 추계학술대회 및 한일 식물생명공학 심포지엄
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• pp.141-141
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• 2005

• 한국응용곤충학회:학술대회논문집
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• 한국응용곤충학회 2005년도 춘계 학술발표회
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• pp.135-135
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• 2005

• Horticulture, Environment, and Biotechnology : HEB
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• 제59권6호
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• pp.889-897
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• 2018

Currently, there is a lack of genetic markers capable of effectively detecting polymorphisms in Clematis. Therefore, we developed new markers to investigate inter- and intraspecific diversity in Clematis. Based on the complete chloroplast genome of Clematis terniflora, simple sequence repeats were explored and primer pairs were designed for all ten adequate repeat regions (cpSSRs), which were tested in 43 individuals of 11 Clematis species. In addition, the nuclear ITS region was sequenced in 11 Clematis species. Seven cpSSR loci were found to be polymorphic in the genus and serve as markers that can distinguish different species and be used in different genetic analyses, including cultivar identification to assist the breeding of new ornamental cultivars.

• 미생물학회지
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• 제55권3호
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• pp.309-312
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• 2019

본 연구에서는 폐수처리장의 바이오필터로부터 Comamonas sp. NLF-7-7 균주를 분리하고 유전체서열을 PacBio RS II와 Illumina HiSeqXten 플랫폼을 사용하여 분석하였다. 염색체의 크기는 3,333,437 bp로 G + C 구성 비율은 68.04%, 총 유전자수는 3,197개, rRNA는 9개 및 tRNA는 49개로 구성되었다. 본 유전체는 오염물질분해와 플록형성에 관여하는 황산화 경로 유전자(SoxY, SoxZ, SoxA 및 SoxB)와 플록형성 경로 유전자(EpsG, EpsE, EpsF, EpsG, EpsL 및 glycosyltransferase)를 포함하고 있다. 이러한 Comamonas sp. NLF-7-7 균주는 폐수를 정화하는데 활용될 수 있다.

• 미생물학회지
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• 제54권3호
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• pp.299-301
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• 2018

Microbulbifer agarilyticus GP101은 소라(Turbo cornutus)의 내장에서 분리되었으며 해조류 유래 다당류인 한천, 알긴산, ${\kappa}$-카라기난을 분해하는 특징이 있다. GP101 균주의 유전체는 4,255,625 bp 크기로 3,458개의 코딩 서열을 포함하며 55.4%의 GC 함량을 가진다. BLASTP 분석 결과 7개의 agarase, 5개의 alginate lyase, 10개의 glucanase, 4개의 chitinase, 2개의 xylanases, 1개의 ${\kappa}$-carrageenase, 1개의 laminarinase의 존재를 확인하였다. M. agarilyticus GP101의 유전체 정보는 다당류의 생물전환 공정에 이용할 수 있는 유전 정보를 제공할 수 있을 것이다.

• 한국작물학회:학술대회논문집
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• 한국작물학회 2022년도 추계학술대회
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• pp.210-210
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• 2022

Silybum marianum is an annual or biennial plant from the Asteraceae family. It can grow in low-nutrient soil and drought conditions, making it easy to cultivate. From the seed, a specialized plant metabolite called silymarin (flavonolignan complex) is produced and is known to alleviate the liver from hepatitis and toxins damages. To infer the phylogenetic placement of a Korean milk thistle, we conducted a chloroplast assembly and annotation following by a comparison with existing Chinese reference genome (NC_028027). The chloroplast genome structure was highly similar with an assembly size of 152,642 bp, an 153,202 bp for Korean and Chinese milk thistle respectively. Moreover, there were similarities at the gene level, coding sequence (n = 82), transfer RNA (n = 31) and ribosomal RNA (n = 4). From all coding sequences gene set, the phylogenetic tree inference placed the Korean cultivar into the milk thistle clade; corroborating the expected tree. Moreover, an investigation the tree based only on the ycf1 gene confirmed the same tree; suggesting that ycf1 gene is a potential marker for DNA barcoding and population diversity study in milk thistle genus. Overall, the provided data represents a valuable resource for population genomics and species-centered determination since several species have been reported in the Silybum genus.

• Plant Breeding and Biotechnology
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• 제5권4호
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• pp.334-343
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• 2017

Eclipta prostrata and E. alba are annual herbal medicinal plants and have been used as Chinese medicinal tonics. Both species are widely distributed in tropical and subtropical regions as well as in Korea. Both species have similar morphological features but E. alba has smoother leaf blade margins compared with E. prostrata. Although both species are utilized as oriental medicines, E. prostrata is more widely used than E. alba. Morphological semblances have confounded identification of either species. Here, we report the complete chloroplast genomes of both species to provide an authentication system between the two species and understand their diversity. Both chloroplast genomes were 151,733-151,757 bp long and composed of a large single copy (83,285-83,300 bp), a small single copy (18,283-18,346 bp), and a pair of inverted repeats (25,075-25,063 bp). Gene annotation revealed 80 protein coding genes, 30 tRNA genes and four rRNA genes. A phylogenetic analysis revealed that the genus Eclipta is grouped with Heliantheae tribe species in the Asteraceae family. A comparative analysis verified 29 InDels and 58 SNPs between chloroplast genomes of E. prostrata and E. alba. The low chloroplast genome sequence diversity indicates that both species are really close to each other and are not completely diverged yet. We developed six DNA markers that distinguish E. prostrata and E. alba based on the polymorphisms of chloroplast genomes between E. prostrata and E. alba. The chloroplast genome sequences and the molecular markers generated in this study will be useful for further research of Eclipta species and accurate classification of medicinal herbs.