A report of 156 unrecorded bacterial species of Republic of Korea belonging to the phyla Acidobacteriota, Deinococcota, Actinomycetota, Bacillota, Bacteroidota, and Pseudomonadota isolated in 2022

KISEONG JOH,Wonyong Kim,김명겸,김승범,Chang-Jun Cha,Wan-Taek Im,서태근,전체옥,Jung-Hoon Yoon 국립생물자원관 2023 Journal of species research Vol.12 No.4

As part of a comprehensive investigation of indigenous prokaryotic species in Republic of Korea in 2022, 156 bacterial strains were isolated from diverse environmental habitats. These strains were assigned to six phyla, namely Acidobacteriota, Deinococcota, Actinomycetota, Bacillota, Bacteroidota, and Pseudomonadota. Each strain was identified based on 16S rRNA gene sequence similarity (>98.7%) and the formation of robust phylogenetic clades with their closest reported species. Among isolates, there is one species belonging to the phylum Acidobacteriota, one species belonging to the phylum Deinococcota, 28 species belonging to the phylum Actinomycetota, 19 species belonging to the phylum Bacillota, 19 species belonging to the phylum Bacteroidota, and 88 species belonging to the phylum Pseudomonadota (comprising 34 species of the class Alphaproteobacteria, 20 species of the class Betaproteobacteria, and 34 species of the class Gammaproteobacteria). Based on 16S rRNA gene sequence analysis, each strain was assigned to independent and predefined bacterial species. Since there were no published or official reports regarding these 156 isolates in Republic of Korea, they are reported as unrecorded species in Republic of Korea. The Gram stain, colony and cell morphology, basic biochemical characteristic, isolation source, and strain ID of each species are described in the species descriptions

A report of 26 unrecorded bacterial species in Korea, belonging to the Bacteroidetes and Firmicutes

KISEONG JOH,Haneul Kim,Jung-Hoon Yoon,CHANG-JUN CHA,성치남,임완택,Kwang-Yeop Jahng,Che Ok Jeon,김승범 국립생물자원관 2016 Journal of species research Vol.5 No.1

An outcome of the study to discover indigenous prokaryotic species in Korea, a total of 26 bacterial species assigned to the classes Bacteroidetes and Firmicutes were isolated from diverse environmental samples collected from soil, tidal flat, freshwater, seawater, wetland, plant roots, and fermented foods. From the high 16S rRNA gene sequence similarity (>99.0%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that these 26 species have been described in Korea; therefore 14 strains for the order Flavobacteriales and two strains for the order Cytophagales were assigned to the class Bacteroidetes, and 8 strains for the order Bacillales and 4 strains for the order Lactobacillales were assigned to the class Firmicutes are reported for new bacterial species found in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are also described in the species description section.

호소 생태계 및 용인 캠퍼스내 명수당등으로부터 분리한 DNase 생성세균의 효소 활성에 관한 연구

장한별,조기성 한국외국어대학교 외국학종합연구센터 부설 기초과학연구소 1996 기초과학연구 Vol.4 No.-

춘계 및 하계에 걸쳐 10 일 간격으로 소양호 수역에서 DNA의 농도, DNase의 활성, 총인, 무기인, 총유기탄소 및 용존유기탄소를 측정하였다. 이 시기에서의 소양호의 평균 DNA 농도는 90μg/ℓ를 나타내었다. DNase의 활성도와 다른 요인간의 상관관계를 조사한 결과 효소의 활성은 기질의 농도와는 뚜렷한 상관관계를 나타내지 않았다. 실험실내의 분리균주를 이용한 실험에서는 24시간동안 약 100 mg 의 DNA가 분해되었으며 이는 넣어준 기질농도의 10% 정도에 해당하였다. 단일 균주 및 혼합균주를 선정하여 효소활성을 조사한 결과 일부 혼합균주의 경우에는 뚜렷한 DNA 분해율 증가가 관찰이 균주간의 상호작용 혹은 효소간의 상호작용에 의해 혼합균주에서의 DNase 활성이 증가될 수 있음을 확인하였다. The DNA concentration, DNase activity, TP, DIP, TOC, and DOC were determined through Spring and Summer at 10 days intervals in Lake Soyang. In these seasons, the mean of DNA concentration was 90μg/ℓ in Lake Soyang. The results of correlations of between DNase activity and other factors were not appeared distinct the correation. In vitro experiment using strains isolated in lab, 100 mg DNA was degraded for 24 hours, which appropriated to 10% of added substrate concentration. In the results of investigation that enzyme activities were measured with selected single strain and mixed strains, distinct increase of DNA decomposing rate were examined in a part of mixed strains, so we confirmed that DNase activities of mixed strains can be increased by interaction of among strains or enzymes.

Pedobacter yonginense sp. nov., Isolated from a Mesotrophic Artificial Lake in Korea

정요찬,Hanuel Kim,Kiseong Joh 한국미생물학회 2010 The journal of microbiology Vol.48 No.4

A non-motile red-pigmented bacterium, designated strain HMD1002T, was isolated from an artificial lake located on the campus of Hankuk University of Foreign Studies, South Korea. The major fatty acids were iso-C15:0 (29.6%), Summed Feature 3 (comprising C16:1 ω7c and/or iso-C15:0 2-OH; 17.5%) and iso-C17:0 3-OH (12.5%). The major isoprenoid quinone was menaquinone-7 (MK-7). The DNA G+C content was 41.0 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HMD1002T formed a lineage in the genus Pedobacer and was closely related to Pedobacer terrae (96.3%) and Pedobacer suwonensis (95.8%) in sequence similarity. On the basis of the evidence presented in this study, strain HMD1002T represents a novel species of the genus Pedobacter, for which the name Pedobacter yonginense sp.nov. is proposed. The type strain is HMD1002T (=KCTC 22721T =CECT 7544T).

Twenty-five unrecorded bacterial species of the Republic of Korea belonging to the phylum Actinomycetota discovered during surveys in 2021

김인협,Wan-Taek Im,Kiseong Joh,김명겸,Jung-Hoon Yoon,Won Yong Kim,서태건 국립생물자원관 2023 Journal of species research Vol.12 No.3

We isolated and identified 25 unrecorded bacterial species belonging to the phylum Actinomycetota found in the Republic of Korea. Sequence comparison of 16S rRNA was performed using the NCBI BLAST and EzBioCloud database to identify 25 species, which had a 16S rRNA gene sequence similarity of >98.8% and were allocated as unrecorded species in the Republic of Korea. Among the 25 unrecorded bacterial strains, Streptomyces was the most common with nine species, followed by Leifsonia with two species. Isoptericola, Nocardioides, Dermacoccus, Sinomonas, Patulibacter, Marmoricola, Allobranchiibius, Aldersonia, Actinokineospora, Agromyces, Aeromicrobium, Cellulomonas, and Gordonia with one species each were also found. Twenty-five unrecorded species were excavated in various environments, such as tidal flats, ferns, soil, pine cones, moss, mud, wetlands, and plants. These isolates were characterized on the basis of their phylogenetic, biochemical properties, and morphological data, and species descriptions were provided.

Mesonia maritimus sp. nov., isolated from seawater of the South Sea of Korea

Sung, Hye-Ri,Joh, Kiseong,Shin, Kee-Sun Microbiology Society 2017 International journal of systematic and evolutiona Vol.67 No.8

다양한 중금속에서 mer operon의 발현

정요찬,김혜원,조기성 한국외국어대학교 기초과학연구소 2001 기초과학연구 Vol.11 No.-

mer gene product는 수은에 의해서 발현되어 수은의 독성을 제거하는 데 관련된 gene으로 알려져 있다. 우리는 mer gene에 reporter로써 GFP를 사용하여 수은과 여러 가지 중금속에 의해 mer gene의 발현을 알아 보고자 하여 새로운 plasmid를 제작하였다. 이 plasmid는 GFP가 mer operon의 promter뒤에 위치하여 수은에 의해 GFP가 유도될 수 있었다. 결국 plasmid는 수은이 존재하면 GFP를 발현하므로 수은의 존재 유무를 확인할 수 있었다. 또 여러가지 중금속 (Co2+, Cd2+, Zn2+ etc.)에서도 수은과 같이 GFP의 발현을 확인하였다. 그 중에서 다른 중금속에 비해 가장 많은 GFP를 발현한 중금속은 Cobalt였으며, 다른 중금속도 대부분 수은과 비교하면 같은 수준의 GFP를 발현함을 확인하였다. 이러한 결과는 분리한 mer operon은 수은에 의해서만 유도되는 것이 아니라 여러가지 중금속에 의해서도 조절 받고 있음을 나타내었다. mer gene reported that Hg2+ was removed mercury toxin effect by mer gene product. New plasmid for the determination of reducible mercury compound was constructed. It utilized GFP gene as a reporter under the control of the mercury-inducible mer promoter and merRTP sequence in mer operon. Using new plasmid, the GFP-based assay was evaluated for selectivity of the detection of mercury. Using new vector, GFP-based assay measured for other heavy metals (Co2+, Cd2+, Zn2+etc.). Expression level of mer operon was highest induction of cobalt than other heavy metals. These observations established that mer operon is regulated to variours heavy metals.

Improved PCR assay for the specific detection and quantitation of Escherichia coli serotype O157 in water

Cho, Min Seok,Joh, Kiseong,Ahn, Tae-Young,Park, Dong Suk Springer-Verlag 2014 Applied microbiology and biotechnology Vol.98 No.18

<P>Escherichia coli serotype O157 is still a major global healthcare problem. However, only limited information is now available on the molecular and serological detection of pathogenic bacteria. Therefore, the development of appropriate strategies for their rapid identification and monitoring is still needed. In general, the sequence analysis based on stx, slt, eae, hlyA, rfb, and fliCh7 genes is widely employed for the identification of E. coli serotype O157; but there have been critical defects in the diagnosis and identification of E. coli serotype O157, in that they are also present in other E. coli serogroups. In this study, NCBI-BLAST searches using the nucleotide sequences of the putative regulatory protein gene from E. coli O157:H7 str. Sakai found sequence difference at the serotype level. The specific primers from the putative regulatory protein gene were designed and investigated for their sensitivity and specificity for detecting the pathogen in environment water samples. The specificity of the primer set was evaluated using genomic DNA from 8 isolates of E. coli serotype O157 and 32 other reference strains. In addition, the sensitivity and specificity of this assay were confirmed by successful identification of E. coli serotype O157 in environmental water samples. In conclusion, this study showed that the newly developed quantitative serotype-specific PCR method is a highly specific and efficient tool for the surveillance and rapid detection of high-risk E. coli serotype O157.</P>

Molecular Cloning, Purification, and Characterization of an Extracellular Nuclease from Aeromonas hydrophila ATCC14715

NAM, IN-YOUNG,MYUNG, HEEJOON,JOH, KISEONG 한국미생물 · 생명공학회 2004 Journal of microbiology and biotechnology Vol.14 No.1

A gene encoding an extracellular nuclease was cloned from Aeromonas hydrophila strain ATCC147 15. The gene was overexpressed and the enzyme was purified by fusing to maltose binding protein. It was shown that the protein possessed DNase activity on both single-stranded and double-stranded DNAs. It exhibited both endo- and exonuclease activities. It was also shown that the protein had an RNase activity. Possible roles of this extracellular enzyme in the A. hydrophila life cycle are discussed.

A Novel Marker for the Species-Specific Detection and Quantitation of Shigella sonnei by Targeting a Methylase Gene

( Cho Min Seok ),( Tae Young Ahn ),( Kiseong Joh ),( Oh Sang Kwon ),( Won Hwa Jheong ),( Dong Suk Park ) 한국미생물 · 생명공학회 2012 Journal of microbiology and biotechnology Vol.22 No.8

Shigella sonnei is a causal agent of fever, nausea, stomach cramps, vomiting, and diarrheal disease. The present study describes a quantitative polymerase chain reaction (qPCR) assay for the specific detection of S. sonnei using a primer pair based on the methylase gene for the amplification of a 325 bp DNA fragment. The qPCR primer set for the accurate diagnosis of Shigella sonnei was developed from publically available genome sequences. This quantitative PCR-based method will potentially simplify and facilitate the diagnosis of this pathogen and guide disease management.