Journal of Microbiology

Dae Sung Lee

4 Articles

Spirosoma migulaei sp. nov., isolated from soil: Joseph Okiria , Leonid N. Ten , Su-Jin Park , Seung-Yeol Lee , Dong Hoon Lee , In-Kyu Kang , Dae Sung Lee , Hee-Young Jung; J. Microbiol. 2017;55(12):927-932. Published online December 7, 2017; DOI: https://doi.org/10.1007/s12275-017-7377-4

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A Gram-stain-negative, non-motile, non-spore-forming, rodshaped, aerobic bacterium, designated 15J9-8T, was isolated from soil on Jeju Island, Republic of Korea. The isolate was able to grow between 10 and 30°C, pH 6.5–8.5, and in presence of 0–1% (w/v) NaCl. The results of comparative 16S rRNA gene sequence analysis indicated that strain 15J9-8T represented a member of the family Cytophagaceae, phylum Bacteroidetes, and was most closely related to Spirosoma aerophilum 5516J-17T (96.1% similarity), Spirosoma pulveris JSH5-14T (95.6%), and Spirosoma linguale DSM 74T (95.2%). The G + C content of the genomic DNA of the isolate was 47.0 mol%. Strain 15J9-8T contained summed feature 3 (C16:1 ω7c/C16:1 ω6c), C16:1 ω5c, and iso-C15:0 as the major fatty acids, phosphatidylethanolamine and an unidentified aminophospholipid as the main polar lipids, and menaquinone MK-7 as the predominant respiratory quinone. On the basis of its phenotypic and genotypic properties, and phylogenetic distinctiveness, strain 15J9-8T should be classified as a representative of a novel species of the genus Spirosoma, for which the name Spirosoma migulaei sp. nov. is proposed. The type strain is 15J9-8T (=KCTC 52028T =JCM 31996T).

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Isolation of Spirosoma foliorum sp. nov. from the fallen leaf of Acer palmatum by a novel cultivation technique
Ho Le Han, Dian Alfian Nurcahyanto, Neak Muhammad, Yong-Jae Lee, Tra T. H. Nguyen, Song-Gun Kim, Sook Sin Chan, Kuan Shiong Khoo, Kit Wayne Chew, Pau Loke Show, Thi Ngoc Thu Tran, Thi Dong Phuong Nguyen, Chen Yaw Chiu
Scientific Reports.2023;[Epub] CrossRef
Spirosoma rhododendri sp. nov., isolated from a flower of royal azalea (Rhododendron schlippenbachii)
Miyoung Won, Seung-Beom Hong, Byeong-Hak Han, Soon-Wo Kwon
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef
Fibrivirga algicola gen. nov., sp. nov., an algicidal bacterium isolated from a freshwater river
Sanghwa Park, Ja Young Cho, Dong-Hyun Jung, Seok Won Jang, Jung Hye Eom, Seung Won Nam, Dae Ryul Kwon, Jaewon Ryu, Keug Tae Kim
Antonie van Leeuwenhoek.2022; 115(7): 899. CrossRef
Spirosoma telluris sp. nov. and Spirosoma arboris sp. nov. isolated from soil and tree bark, respectively
Heeyoung Kang, Inseong Cha, Haneul Kim, Kiseong Joh
International Journal of Systematic and Evolutionary Microbiology .2020; 70(10): 5355. CrossRef
Complete Genome Sequence of Spirosoma sp. Strain KCTC 42546, Isolated from a Reservoir in South Korea
Pokchut Kusolkumbot, Song-Gun Kim, Chatrudee Suwannachart, Kenneth M. Stedman
Microbiology Resource Announcements.2020;[Epub] CrossRef
Spirosoma sordidisoli sp. nov., a propanil-degrading bacterium isolated from a herbicide-contaminated soil
Long Zhang, Xi-Yi Zhou, Xiao-Jing Su, Qiang Hu, Jian-Dong Jiang
Antonie van Leeuwenhoek.2019; 112(10): 1523. CrossRef
Spirosoma utsteinense sp. nov. isolated from Antarctic ice-free soils from the Utsteinen region, East Antarctica
Guillaume Tahon, Liesbeth Lebbe, Anne Willems
International Journal of Systematic and Evolutionary Microbiology .2019;[Epub] CrossRef
List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George Garrity
International Journal of Systematic and Evolutionary Microbiology.2018; 68(5): 1411. CrossRef

Spirosoma flavus sp. nov., a novel bacterium from soil of Jeju Island: Nabil Elderiny , Seung-Yeol Lee , Sangkyu Park , In-Kyu Kang , Myung Kyum Kim , Dae Sung Lee , Leonid N. Ten , Hee-Young Jung; J. Microbiol. 2017;55(11):850-855. Published online October 27, 2017; DOI: https://doi.org/10.1007/s12275-017-7360-0

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A novel, Gram-staining negative, yellow pigmented bacterial strain, designated 15J11-2T, was isolated from soil sample on Jeju Island, Republic of Korea. The strain was subjected to a taxonomic study using a polyphasic approach. The strain was able to grow at temperature range from 10°C to 30°C, pH 7–8, and in presence of 0–1% (w/v) NaCl. Comparative 16S rRNA gene sequence analysis showed that strain 15J11-2T belongs to the genus Spirosoma and levels of 16S rRNA gene sequence similarity ranged from 91.5% to 89.8%. The genomic DNA G + C content of strain 15J11-2T was 46.0 mol%. The isolate contained phosphatidylethanolamine and an unidentified aminophospholipid as the main polar lipids, menaquinone MK-7 as the predominant respiratory quinone, and summed feature 3 (C16:1 ω6c/C16:1 ω7c; 39.4%), C16:1 ω5c (27.1%), and C16:0 (13.0%) as the major fatty acids, which supported the affiliation of strain 15J11-2T to the genus Spirosoma. The results of physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 15J11-2T from recognized Spirosoma species. On the basis of its phenotypic properties, genotypic distinctiveness, chemotaxonomic features, strain 15J11-2T represents a novel species of the genus Spirosoma, for which the name Spirosoma flavus sp. nov. is proposed. The type strain is 15J11-2T (= KCTC 52026T = JCM 31998T).

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Spirosoma profusum sp. nov., and Spirosoma validum sp. nov., radiation-resistant bacteria isolated from soil in South Korea
Yuna Park, Soohyun Maeng, Tuvshinzaya Damdintogtokh, Jing Zhang, Min-Kyu Kim, Sathiyaraj Srinivasan, Myung Kyum Kim
Antonie van Leeuwenhoek.2021; 114(7): 1155. CrossRef

Hymenobacter daeguensis sp. nov. isolated from river water: Leonid N. Ten , Yeon-Hee Lee , Jae-Jin Lee , Su-Jin Park , Seung-Yeol Lee , Sangkyu Park , Dae Sung Lee , In-Kyu Kang , Hee-Young Jung; J. Microbiol. 2017;55(4):253-259. Published online January 26, 2017; DOI: https://doi.org/10.1007/s12275-017-6524-2

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A Gram-stain-negative, non-motile, non-spore-forming, rod- shaped, aerobic bacterial strain, designated 16F3Y-2T, was isolated from the Han River, South Korea, and was charac-terized taxonomically using a polyphasic approach. Compa-rative 16S rRNA gene sequence analysis showed that strain 16F3Y-2T belonged to the family Cytophagaceae in the phy-lum Bacteroidetes and was most closely related to ‘Hymeno-bacter terrae’ DG7A (98.01%), H. soli PB17T (97.26%), H. glaciei VUG-A130T (96.78%), H. antarcticus VUG-A42aaT (96.72%), H. ruber PB156T (96.61%), and H. saemangeumensis GSR0100T (95.77%). The G+C content of the genomic DNA of strain 16F3Y-2T was 62.9 mol%. The isolate contained MK-7 as the predominant respiratory quinone, and summed fea-ture 3 (C16:1 ω7c/C16:1 ω6c; 35.5%), C15:0 iso (16.9%), C16:1 ω5c (10.9%), and C15:0 anteiso (9.9%) as major fatty acids. The ma-jor polar lipid was phosphatidylethanolamine. Phenotypic and chemotaxonomic data supported the affiliation of strain 16F3Y-2T with the genus Hymenobacter. However, strain 16F3Y-2T exhibited relatively low levels of DNA-DNA related-ness with 'H. terrae' KCTC 32554 (44.1%) and H. soli KCTC 12607T (24.3%), clearly indicating that the isolate constitutes a new genospecies. Strain 16F3Y-2T could be differentiated from its phylogenetic neighbors on the basis of several phe-notypic, genotypic, and chemotaxonomic features. Therefore, strain 16F3Y-2T represents a novel species in the genus Hy-menobacter, for which the name Hymenobacter daeguensis sp. nov. is proposed. The type strain is 16F3Y-2T (=KCTC 52537T =JCM 31654T).

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Hymenobacter canadensis sp. nov., isolated from freshwater of the pond in Cambridge Bay, Canada
Woohyun Kim, Seonghan Jang, Namyi Chae, Mincheol Kim, Jung-Yong Yeh, Sanghee Kim, Yung Mi Lee
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Description of Hymenobacter sediminicola sp. nov., isolated from contaminated sediment
Tingting Ren, Chengxiao Zhang, Chun-Zhi Jin, Feng-Jie Jin, Taihua Li, Hee-Mock Oh, Hyung-Gwan Lee, Long Jin
Antonie van Leeuwenhoek.2023; 116(8): 817. CrossRef
Hymenobacter pomorum sp. nov., Isolated from Apple Orchard Soil
Leonid N. Ten, Weilan Li, Seung-Yeol Lee, In-Kyu Kang, Young-Je Cho, Myung Kyum Kim, Hee-Young Jung
Current Microbiology.2019; 76(1): 117. CrossRef
Hymenobacter jeollabukensis sp. nov., isolated from soil
Leonid N. Ten, Young Eun Han, Kyeung Il Park, In-Kyu Kang, Jeung-Sul Han, Hee-Young Jung
Journal of Microbiology.2018; 56(7): 500. CrossRef
Hymenobacter pedocola sp. nov., a novel bacterium isolated from soil
Soo-Jeong Lim, Leonid N. Ten, Byung-Oh Kim, In-Kyu Kang, Hee-Young Jung
International Journal of Systematic and Evolutionary Microbiology .2018; 68(7): 2242. CrossRef
Hymenobacter rufus sp. nov., a bacterium isolated from soil
Jeong-Eun Ohn, Leonid N. Ten, Byung-Oh Kim, Young-Je Cho, Hee-Young Jung
International Journal of Systematic and Evolutionary Microbiology.2018; 68(9): 2983. CrossRef
Description of Hymenobacter daejeonensis sp. nov., isolated from grass soil, based on multilocus sequence analysis of the 16S rRNA gene, gyrB and tuf genes
Long Jin, Xuewen Wu, So-Ra Ko, Feng-Jie Jin, Taihua Li, Chi-Yong Ahn, Hee-Mock Oh, Hyung-Gwan Lee
Antonie van Leeuwenhoek.2018; 111(12): 2283. CrossRef
Hymenobacter segetis sp. nov., isolated from soil
Leonid N. Ten, Soo Jeong Lim, Byung-Oh Kim, In-Kyu Kang, Hee-Young Jung
Archives of Microbiology.2018; 200(8): 1167. CrossRef
Hymenobacter agri sp. nov., a novel bacterium isolated from soil
Jigon Han, Leonid N. Ten, Dong Hoon Lee, In-Kyu Kang, Hee-Young Jung
Antonie van Leeuwenhoek.2018; 111(10): 1815. CrossRef
Hymenobacter terrigena sp. nov., isolated from soil
Jeong-Eun Ohn, Leonid N. Ten, Kyeung Il Park, Byung-Oh Kim, Jeung-Sul Han, Hee-Young Jung
Journal of Microbiology.2018; 56(4): 231. CrossRef
List of novel names and novel combinations previously effectively, but not validly, published
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International Journal of Systematic and Evolutionary Microbiology .2017; 67(7): 2075. CrossRef

Analysis of Microbial Communities Using Culture-dependent and Culture-independent Approaches in an Anaerobic/Aerobic SBR Reactor: Shipeng Lu , Minjeong Park , Hyeon-Su Ro , Dae Sung Lee , Woojun Park , Che Ok Jeon; J. Microbiol. 2006;44(2):155-161.; DOI: https://doi.org/2370 [pii]

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Abstract PDF: Comparative analysis of microbial communities in a sequencing batch reactor which performed enhanced biological phosphorus removal (EBPR) was carried out using a cultivation-based technique and 16S rRNA gene clone libraries. A standard PCR protocol and a modified PCR protocol with low PCR cycle was applied to the two clone libraries of the 16S rRNA gene sequences obtained from EBPR sludge, respectively, and the resulting 424 clones were analyzed using restriction fragment length polymorphisms (RFLPs) on 16S rRNA gene inserts. Comparison of two clone libraries showed that the modified PCR protocol decreased the incidence of distinct fragment patterns from about 63% (137 of 217) in the standard PCR method to about 34% (70 of 207) under the modified protocol, suggesting that just a low level of PCR cycling (5 cycles after 15 cycles) can significantly reduce the formation of chimeric DNA in the final PCR products. Phylogenetic analysis of 81 groups with distinct RFLP patterns that were obtained using the modified PCR method revealed that the clones were affiliated with at least 11 phyla or classes of the domain Bacteria. However, the analyses of 327 colonies, which were grouped into just 41 distinct types by RFLP analysis, showed that they could be classified into five major bacterial lineages: α, β, γ- Proteobacteria, Actinobacteria, and the phylum Bacteroidetes, which indicated that the microbial community yielded from the cultivationbased method was still much simpler than that yielded from the PCR-based molecular method. In this study, the discrepancy observed between the communities obtained from PCR-based and cultivation-based methods seems to result from low culturabilities of bacteria or PCR bias even though modified culture and PCR methods were used. Therefore, continuous development of PCR protocol and cultivation techniques is needed to reduce this discrepancy.

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