Journal of Microbiology

Jung-Hoon Yoon

12 Articles

Tardibacter chloracetimidivorans gen. nov., sp. nov., a novel member of the family Sphingomonadaceae isolated from an agricultural soil from Jeju Island in Republic of Korea: Hyosun Lee , Dong-Uk Kim , Sooyeon Park , Jung-Hoon Yoon , Jae-Hyung Ahn , Jong-Ok Ka; J. Microbiol. 2018;56(5):324-330. Published online May 2, 2018; DOI: https://doi.org/10.1007/s12275-018-7455-2

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A pale yellow bacterial strain, designated JJ-A5T, was isolated form an agricultural soil from Jeju Island in Republic of Korea. Cells of the strain were Gram-stain-negative, motile, flagellated and rod-shaped. The strain grew at 15–30°C, pH 6.0–9.0, and in the presence of 0–1.5% (w/v) NaCl. Growth occurred on R2A, but not on Luria-Bertani agar, nutrient agar, trypticase soy agar and MacConkey agar. The strain utilized alachlor as a sole carbon source for growth. The strain JJ-A5T showed 16S rRNA gene sequence similarities lower than 95.4% with members of the family Sphingomonadaceae. Phylogenetic analysis showed that the strain belongs to the family Sphingomonadaceae and strain JJ-A5T was distinctly separated from established genera of this family. The strain contained Q-10 as dominant ubiquinone and spermidine as major polyamine. The predominant cellular fatty acids were summed feature 8 (C18:1 ω7c and/or C18:1 ω6c), summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), 11-methyl C18:1 ω7c, C16:0 and C14:0 2-OH. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, sphingoglycolipid, and phosphatidylcholine. The DNA G + C content of the strain was 62.7 mol%. On the basis of the phenotypic, genomic and chemotaxonomic characteristics, strain JJ-A5T is considered to represent a novel genus and species within the family Sphingomonadaceae, for which the name Tardibacter chloracetimidivorans gen. nov., sp. nov. is proposed. The type strain of Tardibacter chloracetimidivorans is JJ-A5T (= KACC 19450T = NBRC 113160T).

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Interactive effects of maize straw incorporation and improved irrigation on soil physicochemical properties and microbial community structure in saline–alkaline soil
Wenbo Chai, Hanyuan Xu, Chao Yuan, Shufen Li, Hongtao Li, Qing Zhu, Wei Ji, Ming Chi, Jun Wang, Chongxing Xin
Frontiers in Microbiology.2026;[Epub] CrossRef
Removal of alachlor from the water/soil environments: The significance of microbial remediation and its biochemical mechanisms
Zeren Li, Mengyi Chen, Wen-Juan Chen, Mingqiu Liu, Guiling Si, Xixian Zhu, Kalpana Bhatt, Sandhya Mishra, Mohamed A. Ghorab, Shaohua Chen
Journal of Water Process Engineering.2024; 68: 106387. CrossRef
Processes governing the environmental fates of alachlor in soil and aqueous media: a critical review
M. U. Ghani, H. N. Asghar, H. Nadeem, M. Shahid, M. A. Zeshan, A. Niaz, S. Hussain, S. Hussain
International Journal of Environmental Science and Technology.2022; 19(8): 8043. CrossRef
New Associations of Aerobic Bacteria that Actively Decompose Lindane
E. A. Nazarova, D. O. Egorova, L. N. Anan’ina, E. S. Korsakova, E. G. Plotnikova
Applied Biochemistry and Microbiology.2021; 57(5): 643. CrossRef

Spirosoma metallicus sp. nov., isolated from an automobile air conditioning system: Hyosun Lee , Dong-Uk Kim , Suyeon Lee , Sooyeon Park , Jung-Hoon Yoon , So Yoon Park , Jong-Ok Ka; J. Microbiol. 2017;55(9):673-677. Published online August 5, 2017; DOI: https://doi.org/10.1007/s12275-017-7162-4

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A Gram-stain-negative and orangish yellow-pigmented bacterial strain, designated PR1014KT, was isolated from an automobile evaporator core collected in Korea. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain PR1014KT was related with the members of the genus Spirosoma (94.7–90.2%) and closely related with Spirosoma lacussanchae CPCC 100624T (94.7%), Spirosoma knui 15J8- 12T (94.3%), and Spirosoma soli MIMBbqt12T (93.3%). The strain grew at 15–40°C (optimum, 25°C), pH 6.5–7.0 (optimum, 6.5) and 0–1% (w/v) NaCl (optimum, 0%). The predominant fatty acids were summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C16:0, iso-C15:0, C16:1 ω5c, and iso-C17:0 3-OH. The major menaquinone was MK-7. The polar lipid profile of the strain indicated that the presence of one phosphatidylethanolamine, one unidentified aminolipid, two unidentified aminophospholipids, and three unidentified lipids. The DNA G+C content of the strain was 47.4 mol%. On the basis of the phenotypic, genotypic and chemotaxonomic characteristics, strain PR1014KT represents a novel species in the genus Spirosoma, for which the name Spirosoma metallicus sp. nov. (=KACC 17940T =NBRC 110792T) is proposed.

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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
Spirosoma taeanense sp. nov., a radiation resistant bacterium isolated from a coastal sand dune
Ji Hee Lee, Jong-Hyun Jung, Min-Kyu Kim, Han Na Choe, Chi Nam Seong, Sangyong Lim
Antonie van Leeuwenhoek.2021; 114(2): 151. 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 M. Garrity
International Journal of Systematic and Evolutionary Microbiology .2018; 68(3): 693. CrossRef

Jindonia aestuariivivens gen. nov., sp. nov., isolated from a tidal flat on the south-western sea in Republic of Korea: Sooyeon Park , Sun Young Yoon , Min-Ji Ha , Jung-Hoon Yoon; J. Microbiol. 2017;55(6):421-427. Published online March 1, 2017; DOI: https://doi.org/10.1007/s12275-017-6621-2

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A Gram-stain-negative, aerobic, non-flagellated, and coccoid, ovoid or rod-shaped bacterium, designated JDTF-65T, was isolated from a tidal flat on the south-western sea in Republic of Korea. Strain JDTF-65T grew optimally at 25°C, at pH 7.0– 8.0 and in the presence of 2.0% (w/v) NaCl. Strain JDTF-65T exhibited 16S rRNA gene sequence similarities of 97.1–97.6% to the type strains of ‘Aliisedimentitalea scapharcae’, Phaeo-bacter gallaeciensis, Phaeobacter inhibens, Leisingera aqui-marina, Tropicibacter litoreus, Sulfitobacter pseudonitzschiae, and Pseudoseohaeicola caenipelagi. Phylogenetic trees based on 16S rRNA gene sequences showed that strain JDTF-65T forms an independent lineage within the radiation enclosed by the family Rhodobacteraceae. Strain JDTF-65T contained Q-10 as the predominant ubiquinone and C18:1 ω7c as the major fatty acid. The major polar lipids of strain JDTF-65T were phosphatidylcholine, phosphatidylethanolamine, phos-phatidylglycerol, one unidentified aminolipid, and one un-identified lipid. The DNA G+C content of strain JDTF-65T was 56.8 mol% and its DNA-DNA relatedness values with the type strains of the phylogenetically related species were 13– 27%. Differential phenotypic properties revealed that strain JDTF-65T is separated from representatives of some phylo-genetically related taxa. On the basis of the data presented, strain JDTF-65T represents a new genus and species within the family Rhodobacteraceae, for which the name Jindonia aestuariivivens gen. nov., sp. nov. is proposed. The type strain of Jindonia aestuariivivens is JDTF-65T (=KCTC 52564T =NBRC 112534T).

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Description of Polaribacter batillariae sp. nov., Polaribacter cellanae sp. nov., and Polaribacter pectinis sp. nov., novel bacteria isolated from the gut of three types of South Korean shellfish
Su-Won Jeong, Jeong Eun Han, June-Young Lee, Ji-Ho Yoo, Do-Yeon Kim, In Chul Jeong, Jee-Won Choi, Yun-Seok Jeong, Jae-Yun Lee, So-Yeon Lee, Euon Jung Tak, Hojun Sung, Hyun Sik Kim, Pil Soo Kim, Dong-Wook Hyun, Jin-Woo Bae
Journal of Microbiology.2022; 60(6): 576. CrossRef
Kangsaoukella pontilimi gen. nov., sp. nov., a new member of the family Rhodobacteraceae isolated from a tidal mudflat
Soon Dong Lee, Hanna Choe, Ji-Sun Kim, In Seop Kim
International Journal of Systematic and Evolutionary Microbiology .2020; 70(10): 5235. CrossRef
Kandeliimicrobium roseum gen. nov., sp. nov., a new member of the family Rhodobacteraceae isolated from mangrove rhizosphere soil
Kai-Ling Wang, Zhi-Man Song, Cu-Huang Rong, Ling-Yun Hao, Qi-Liang Lai, Shuang-Fei Li, Ying Xu
International Journal of Systematic and Evolutionary Microbiology .2018; 68(7): 2158. CrossRef
Pseudopontivivens aestuariicola gen. nov., sp. nov., a Novel Bacterium of the Class Alphaproteobacteria Isolated from a Tidal Flat
Sooyeon Park, Jeehyun Choi, Ji-Min Park, Jung-Hoon Yoon
Current Microbiology.2018; 75(11): 1516. CrossRef

Arcobacter acticola sp. nov., isolated from seawater on the East Sea in South Korea: Sooyeon Park , Yong-Taek Jung , Sona Kim , Jung-Hoon Yoon; J. Microbiol. 2016;54(10):655-659. Published online September 30, 2016; DOI: https://doi.org/10.1007/s12275-016-6268-4

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A Gram-stain-negative, facultative aerobic, non-flagellated, and rod-shaped bacterium, designated AR-13T, was isolated from a seawater on the East Sea in South Korea, and subjected to a polyphasic taxonomic study. Strain AR-13T grew optimally at 30°C, at pH 7.0–8.0 and in the presence of 0–0.5% (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences showed that strain AR-13T fell within the clade comprising the type strains of Arcobacter species, clustering coherently with the type strain of Arcobacter venerupis. Strain AR-13T exhibited 16S rRNA gene sequence similarity values of 98.1% to the type strain of A. venerupis and of 93.2–96.9% to the type strains of the other Arcobacter species. Strain AR-13T contained MK-6 as the only menaquinone and summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C16:0, C18:1 ω7c, and summed feature 2 (iso-C16:1 I and/or C14:0 3-OH) as the major fatty acids. The major polar lipids detected in strain AR-13T were phosphatidylethanolamine, phosphatidylglycerol, and one unidentified aminophospholipid. The DNA G+C content was 28.3 mol% and its mean DNA-DNA relatedness value with the type strain of A. venerupis was 21%. Differential phenotypic properties, together with its phylogenetic and genetic distinctiveness, revealed that strain AR-13T is separated from recognized Arcobacter species. On the basis of the data presented, strain AR-13T is considered to represent a novel species of the genus Arcobacter, for which the name Arcobacter acticola sp. nov. is proposed. The type strain is AR-13T (=KCTC 52212T =NBRC 112272T).

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Arcobacter pernae sp. nov. and Arcobacter rhizosphaerae sp. nov., two novel bacterial species isolated from the seagrass bed
Suyun Fang, Jun Min, Haikun Zhang, Yan Li, Yanyan Huang, Xiaoke Hu
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Arcobacter iocasae sp. nov., a bacterium isolated from the gill homogenate of the mussel Gigantidas platifrons in a cold seep
Huan Zhang, Shi Jin, Hao Wang, Fei Li, Zhaoshan Zhong, Yang Guo, Jia Luo, Ziyun Ye, Chao Lian, Minxiao Wang, Chaolun Li
International Journal of Systematic and Evolutionary Microbiology .2025;[Epub] CrossRef
Authigenic carbonate and native sulfur formation in Messinian (upper Miocene) marine sediments: Sedimentological, petrographical and geochemical constraints
M. Natalicchio, D. Birgel, S. Giunti, L. Guibourdenche, L. Pellegrino, G. Aloisi, J. Peckmann, F. Dela Pierre
Marine and Petroleum Geology.2024; 165: 106889. CrossRef
Arcobacter roscoffensis sp. nov., a marine bacterium isolated from coastal seawater
Javier Pascual, Cendrella Lepleux, Anika Methner, Cathrin Spröer, Boyke Bunk, Jörg Overmann
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List of new names and new combinations previously effectively, but not validly, published
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Aliisedimentitalea scapharcae gen. nov., sp. nov., isolated from ark shell Scapharca broughtonii: Young-Ok Kim , Sooyeon Park , Bo-Hye Nam , Dong-Gyun Kim , Sung-Min Won , Ji-Min Park , Jung-Hoon Yoon; J. Microbiol. 2015;53(8):495-502. Published online July 31, 2015; DOI: https://doi.org/10.1007/s12275-015-5075-7

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A Gram-negative, aerobic, non-spore-forming, motile and ovoid or rod-shaped bacterial strain, designated MA2-16T, was isolated from ark shell (Scapharca broughtonii) collected from the South Sea, South Korea. Strain MA2-16T was found to grow optimally at 30캜, at pH 7.0?.0 and in the presence of 2.0% (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences revealed that strain MA2-16T clustered with the type strain of Sedimentitalea nanhaiensis. The novel strain exhibited a 16S rRNA gene sequence similarity value of 97.1% to the type strain of S. nanhaiensis. In the neighbour- joining phylogenetic tree based on gyrB sequences, strain MA2-16T formed an evolutionary lineage independent of those of other taxa. Strain MA2-16T contained Q-10 as the predominant ubiquinone and C18:1 ?c and 11-methyl C18:1 ?c as the major fatty acids. The major polar lipids of strain MA2-16T were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid and an unidentified lipid. The DNA G+C content of strain MA2- 16T was 57.7 mol% and its DNA-DNA relatedness values with the type strains of S. nanhaiensis and some phylogenetically related species of the genera Leisingera and Phaeobacter were 13?4%. On the basis of the data presented, strain MA2-16T is considered to represent a novel genus and novel species within the family Rhodobacteraceae, for which the name Aliisedimentitalea scapharcae gen. nov., sp. nov. is proposed. The type strain is MA2-16T (=KCTC 42119T =CECT 8598T).

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Validation List no. 226: valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2025;[Epub] CrossRef
Genomic profiling of biosynthetic potentials of medicinal secondary metabolites for ‘Aliisedimentitalea scapharcae’ KCTC 42119T, isolated from ark shell
Jin-Cheng Rong, Lin-Lin Cui, Na Li, Mao-Li Yi, Bo-Tao Huang, Qi Zhao
Marine Genomics.2024; 76: 101124. CrossRef
Jindonia aestuariivivens gen. nov., sp. nov., isolated from a tidal flat on the south-western sea in Republic of Korea
Sooyeon Park, Sun Young Yoon, Min-Ji Ha, Jung-Hoon Yoon
Journal of Microbiology.2017; 55(6): 421. CrossRef
Litorisediminivivens gilvus gen. nov., sp. nov., isolated from a tidal flat
Sooyeon Park, Min-Ji Ha, Yong-Taek Jung, Jung-Hoon Yoon
International Journal of Systematic and Evolutionary Microbiology.2016; 66(11): 4681. CrossRef

Shewanella upenei sp. nov., a Lipolytic Bacterium Isolated from Bensasi Goatfish Upeneus bensasi: Kyung-Kil Kim , Young-Ok Kim , Sooyeon Park , So-Jung Kang , Bo-Hye Nam , Doo Nam Kim , Tae-Kwang Oh , Jung-Hoon Yoon; J. Microbiol. 2011;49(3):381-386. Published online June 30, 2011; DOI: https://doi.org/10.1007/s12275-011-0175-5

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A Gram-staining-negative, motile, non-spore-forming and rod-shaped bacterial strain, 20-23RT, was isolated from intestine of bensasi goatfish, Upeneus bensasi, and its taxonomic position was investigated by using a polyphasic study. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain 20-23RT belonged to the genus Shewanella. Strain 20-23RT exhibited 16S rRNA gene sequence similarity values of 99.5, 99.2, and 97.5% to Shewanella algae ATCC 51192T, Shewanella haliotis DW01T, and Shewanella chilikensis JC5T, respectively. Strain 20-23RT exhibited 93.1-96.0% 16S rRNA gene sequence similarity to the other Shewanella species. It also exhibited 98.3-98.4% gyrB sequence similarity to the type strains of S. algae and S. haliotis. Strain 20-23RT contained simultaneously both menaquinones and ubiquinones; the predominant menaquinone was MK-7 and the predominant ubiquinones were Q-8 and Q-7. The fatty acid profiles of strain 20-23RT, S. algae KCTC 22552T and S. haliotis KCTC 12896T were similar; major components were iso-C15:0, C16:0, C16:1 ω7c and/or iso-C15:0 2-OH and C17:1 ω8c. The DNA G+C content of strain 20-23RT was 53.9 mol%. Differential phenotypic properties and genetic distinctiveness of strain 20-23RT, together with the phylogenetic distinctiveness, revealed that this strain is distinguishable from recognized Shewanella species. On the basis of the data presented, strain 20-23RT represents a novel species of the genus Shewanella, for which the name Shewanella upenei sp. nov. is proposed. The type strain is 20-23RT (=KCTC 22806T =CCUG 58400T).

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Henriciella marina gen. nov., sp. nov., a Novel Member of the Family Hyphomonadaceae Isolated from the East Sea: Zhe-Xue Quan , Dan-Ning Zeng , Yi-Ping Xiao , Seong Woon Roh , Young-Do Nam , Ho-Won Chang , Jung-Hoon Yoon , Hee-Mock Oh , Jin-Woo Bae; J. Microbiol. 2009;47(2):156-161. Published online May 2, 2009; DOI: https://doi.org/10.1007/s12275-008-0290-0

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A bacterial strain, designated Iso4T, was isolated from the East Sea of Korea and was subjected to a polyphasic taxonomy study including phenotypic and chemotaxonomic characteristics as well as 16S rRNA gene sequence analysis. Cells of the strain were Gram-negative, motile, non-budding, non-stalked, and strictly aerobic. Strain Iso4T grew optimally at 20°C in the presence of 1~2% (w/v) NaCl and at pH 6.9~7.6. The major respiratory quinone was Q-10 and the major cellular fatty acids were C18:1 ω7c (53.5%), C17:1 ω5c (11.7%), C17:1 ω6c (8.1%), C16:0 (7.8%), C17:0 (4.8%), C15:0 (2.9%), and C16:1 ω5c (2.2%). The DNA G+C content of strain Iso4T was 56.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Iso4T formed a monophyletic clade in the family Hyphomonadaceae, supported by high bootstrap value and was most closely related to the genus Hyphomonas (92~94%), a member of marine bacteria in the family. The phenotypic, genotypic, and chemotaxonomic evidences also suggest strain Iso4T represents a novel genus and species in the family Hyphomonadaceae, for which the name Henriciella gen. nov., sp. nov. is proposed. The type strain is Iso4T (=KCTC 12513T =DSM 19595T =JCM 15116T).

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Aliihoeflea aestuarii gen. nov., sp. nov., a Novel Bacterium Isolated from Tidal Flat Sediment: Seong Woon Roh , Kyoung-Ho Kim , Young-Do Nam , Ho-Won Chang , Min-Soo Kim , Kee-Sun Shin , Jung-Hoon Yoon , Hee-Mock Oh , Jin-Woo Bae; J. Microbiol. 2008;46(5):594-598. Published online October 31, 2008; DOI: https://doi.org/10.1007/s12275-008-0196-x

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A novel Gram-negative and rod-shaped bacterium, designated N8T, was isolated from tidal flat sediment. Phylogenetic analysis based on 16S rRNA gene sequences showed that N8T strain is associated with the family Phyllobacteriaceae: two uncultured clones (98.4 and 99.8% 16S rRNA gene sequence similarity) and the genus Mesorhizobium (≤97.0%). The novel strain formed a separate clade with uncultured clones in the phylogenetic tree based on 16S rRNA gene sequences. Cellular fatty acid profiles predominately comprised C18:1 ω7c and C19:0 cyclo ω8c. The major isoprenoid quinone is ubiquinone-10 and genomic DNA G+C content is 53.4 mol%. The polyphasic taxonomic study indicates that the novel strain N8T represents a novel species of the new genus in the family Phyllobacteriaceae, named Aliihoeflea aestuarii. The type strain is N8T (= KCTC 22052T= JCM 15118T= DSM 19536T).

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Luteimonas aestuarii sp. nov., Isolated from Tidal Flat Sediment: Seong Woon Roh , Kyoung-Ho Kim , Young-Do Nam , Ho-Won Chang , Min-Soo Kim , Jung-Hoon Yoon , Hee-Mock Oh , Jin-Woo Bae; J. Microbiol. 2008;46(5):525-529. Published online October 31, 2008; DOI: https://doi.org/10.1007/s12275-008-0189-9

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A novel bacterium B9T was isolated from tidal flat sediment. Its morphology, physiology, biochemical features, and 16S rRNA gene sequence were characterized. Colonies of this strain are yellow and the cells are Gram-negative, rod-shaped, and do not require NaCl for growth. The 16S rRNA gene sequence similarity indicated that strain B9T is associated with the genus Lysobacter (≤ 97.2%), Xanthomonas (≤ 96.8%), Pseudomonas (≤ 96.7%), and Luteimonas (≤ 96.0%). However, within the phylogenetic tree, this novel strain shares a branching point with the species Luteimonas composti CC-YY255T (96.0%). The DNA-DNA hybridization experiments showed a DNA-DNA homology of 23.0% between strain B9T and Luteimonas mephitis B1953/27.1T. The G+C content of genomic DNA of the type strain is 64.7 mol% (SD, 1.1). The predominant fatty acids are iso-C11:0, iso-C15:0, iso-C16:0, iso-C17:0, iso-C17:1 ω9c, and iso-C11:0 3-OH. Combined analysis of the 16S rRNA gene sequences, fatty acid profile, and results from physiological and biochemical tests indicated that there is genotypic and phenotypic differentiation of the isolate from other Luteimonas species. For these reasons, strain B9T was proposed as a novel species, named Luteimonas aestuarii. The type strain of the new species is B9T (= KCTC 22048T, DSM 19680T).

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Bacterial, Archaeal, and Eukaryal Diversity in the Intestines of Korean People: Young-Do Nam , Ho-Won Chang , Kyoung-Ho Kim , Seong Woon Roh , Min-Soo Kim , Mi-Ja Jung , Si-Woo Lee , Jong-Yeol Kim , Jung-Hoon Yoon , Jin-Woo Bae; J. Microbiol. 2008;46(5):491-501. Published online October 31, 2008; DOI: https://doi.org/10.1007/s12275-008-0199-7

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The bacterial, archaeal, and eukaryal diversity in fecal samples from ten Koreans were analyzed and compared by using the PCR-fingerprinting method, denaturing gradient gel electrophoresis (DGGE). The bacteria all belonged to the Firmicutes and Bacteroidetes phyla, which were known to be the dominant bacterial species in the human intestine. Most of the archaeal sequences belonged to the methane-producing archaea but several halophilic archarea-related sequences were also detected unexpectedly. While a small number of eukaryal sequences were also detected upon DGGE analysis, these sequences were related to fungi and stramenopiles (Blastocystis hominis). With regard to the bacterial and archaeal DGGE analysis, all ten samples had one and two prominent bands, respectively, but many individual-specific bands were also observed. However, only five of the ten samples had small eukaryal DGGE bands and none of these bands was observed in all five samples. Unweighted pair group method and arithmetic averages clustering algorithm (UPGMA) clustering analysis revealed that the archaeal and bacterial communities in the ten samples had relatively higher relatedness (the average Dice coefficient values were 68.9 and 59.2% for archaea and bacteria, respectively) but the eukaryal community showed low relatedness (39.6%).

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Characterization of the Depth-Related Changes in the Microbial Communities in Lake Hovsgol Sediment by 16S rRNA Gene-Based Approaches: Young-Do Nam , Youlboong Sung , Ho-Won Chang , Seong Woon Roh , Kyoung-Ho Kim , Sung-Keun Rhee , Jung-Chan Kim , Joo-Yong Kim , Jung-Hoon Yoon , Jin-Woo Bae; J. Microbiol. 2008;46(2):125-136. Published online June 11, 2008; DOI: https://doi.org/10.1007/s12275-007-0189-1

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Abstract PDF

The undisturbed sediment of Lake Hovsgol (Mongolia) is scientifically important because it represents a record of the environmental changes that took place between the Holocene (the present age) and Pleistocene (the last ice age; 12,000 14C years before present day). Here, we investigated how the current microbial <br>communities change as the depth increases by PCR-denaturing gradient gel electrophoresis (DGGE) analysis of the 16S rRNA genes of the microbial communities. The microbial diversity, as estimated by the Shannon index, decreased as the depth increased. In particular, significant changes in archaeal diversity were observed in the middle depth (at 39~42 cm depth of total 60 cm depth) that marks the border between the Holocene and Pleistocene. Phylotype belonging to Beta- and Gamma-Proteobacteria were the predominant bacteria and most of these persisted throughout the depth examined. However, as the depth increased, some bacteria <br>(some genera belonging to Beta-Proteobacteria, Nitrospira, and OP8-9) were not detectable while others (some genera belonging to Alpha-, Beta-, Gamma-Proteobacteria) newly deteced by DGGE. Crenarchaea were the predominant archaea and only one phylotype belonging to Euryarchaea was found. Both the <br>archaeal and bacterial profiles revealed by the DGGE band patterns could be grouped into four and three subsets, respectively, subsets that were largely divided by the border between the Holocene and Pleistocene. Thus, the diversity of the current microbial communities in Lake Hovsgol sediments decreases with increasing <br>depth. These changes probably relate to the environmental conditions in the sediments, which were shaped by the paleoclimatic events taking place between the Holocene and Pleistocene.

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Arthrobacter soli sp. nov., a Novel Bacterium Isolated from Wastewater Reservoir Sediment: Seong Woon Roh , Youlboong Sung , Young-Do Nam , Ho-Won Chang , Kyoung-Ho Kim , Jung-Hoon Yoon , Che Ok Jeon , Hee-Mock Oh , Jin-Woo Bae; J. Microbiol. 2008;46(1):40-44.; DOI: https://doi.org/10.1007/s12275-007-0239-8

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Abstract PDF

A novel Gram-positive bacterium, designated SYB2T, was isolated from wastewater reservoir sediment, and a polyphasic taxonomic study was conducted based on its morphological, physiological, and biochemical features, as well as the analysis of its 16S rRNA gene sequence. During the phylogenetic analysis of the strain SYB2T, results of a 16S rRNA gene sequence analysis placed this bacterium in the genus Arthrobacter within the family Micrococcaceae. SYB2T and Arthrobacter protophormiae ATCC 19271T, the most closely related species, both exhibited a 16S rRNA gene sequence similarity of 98.99%. The genomic DNA G+C content of the novel strain was found to be 62.0 mol%. The predominant fatty acid composition was anteiso-C15:0, anteiso-C17:0, iso-C16:0, and iso-C15:0. Analysis of 16S rRNA gene sequences and DNA-DNA relatedness, as well as physiological and biochemical tests, showed genotypic and phenotypic differences between strain SYB2T and other Arthrobacter species. The type strain of the novel species was identified as SYB2T (= KCTC 19291T= DSM 19449T).

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