Journal of Microbiology

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Mucilaginibacter hankyongensis sp. nov., isolated from soil of ginseng field Baekdu Mountain: Qingmei Liu , Muhammad Zubair Siddiqi , Mi-Sun Kim , Sang Yong Kim , Wan-Taek Im; J. Microbiol. 2017;55(7):525-530. Published online June 30, 2017; DOI: https://doi.org/10.1007/s12275-017-7180-2

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A Gram-negative, non-motile, aerobic, and rod-shaped bacterial strain designated as BR5-28T was isolated from the soil of a ginseng field at Baekdu Mountain Korea, and its taxonomic position was investigated using a polyphasic approach. Strain BR5-28T grew at 10–42°C (optimum temperature, 30°C) and pH 5.5–8.5 (optimum pH, 7.0) on R2A agar medium without additional NaCl supplementation. Strain BR5- 28T exhibited β-glucosidase activity, which was responsible for its ability to transform the ginsenosides Rb1 and Rd (the two dominant active components of ginseng) to compound-K. Based on 16S rRNA gene phylogeny, the novel strain showed a new branch within the genus Mucilaginibacter of the family Sphingobacteriaceae, and formed clusters with Mucilaginibacter frigoritolerans FT22T (95.8%) and Mucilaginibacter gotjawali SA3-7T (95.7%). The G+C content of the genomic DNA was 45.1%. The predominant respiratory quinone was MK-7 and the major fatty acids were summed feature 3 (comprising C16:1 ω6c and/or C16:1 ω7c), iso-C15:0 and anteiso-C15:0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Strain BR5- 28T was differentiated genotypically and phenotypically from the recognized species of the genus Mucilaginibacter. The isolate therefore represents a novel species, for which the name Mucilaginibacter hankyongensis sp. nov. is proposed, with the type strain BR5-28T (=KCTC 22274T =DSM 21151T).

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Identification of Mucilaginibacter conchicola sp. nov., Mucilaginibacter achroorhodeus sp. nov. and Mucilaginibacter pallidiroseus sp. nov. and emended description of the genus Mucilaginibacter
Jiyoun Kim, Byungjo Lee, Geeta Chhetri, Inhyup Kim, Yoonseop So, Wonhee Jang, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef
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Mucilaginibacter panaciglaebae sp. nov., isolated from soil of a ginseng field
Soon Youl Lee, Muhammad Zubair Siddiqi, Sang Yong Kim, Hong Shan Yu, Jae Hak Lee, Wan-Taek Im
International Journal of Systematic and Evolutionary Microbiology.2018; 68(1): 149. CrossRef
Terrabacter ginsengisoli sp. nov., isolated from ginseng cultivating soil
Mei-Fang Jin, Xiao-Tian Quan, Muhammad Zubair Siddiqi, Qing-Zhen Liu, Hong-Shan Yu, Wan-Taek Im
Journal of Microbiology.2018; 56(5): 331. CrossRef
Genomic Islands Confer Heavy Metal Resistance in Mucilaginibacter kameinonensis and Mucilaginibacter rubeus Isolated from a Gold/Copper Mine
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Research Support, Non-U.S. Gov'ts

Niabella ginsenosidivorans sp. nov., isolated from compost: Kwon-Jung Yi , Wan-Taek Im , Dong-Woon Kim , Qing Mei Liu , Soo-Ki Kim; J. Microbiol. 2015;53(11):762-766. Published online October 28, 2015; DOI: https://doi.org/10.1007/s12275-015-5463-z

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Abstract

A Gram-reaction negative, strictly aerobic, non-motile, orange colored, and rod-shaped bacterium (designated BS26T) isolated from compost, was characterized by a polyphasic approach to clarify its taxonomic position. Strain BS26T was observed to grow optimally at 25–30°C and at pH 7.0 on R2A and nutrient media. Strain BS26T showed β-glucosidase activity that was responsible for its ability to transform ginsenoside Rb1 (one of the active components of ginseng) to ginsenoside compound-K (C-K). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain BS26T belongs to the genus Niabella of family Chitinophagaceae and was most closely related to Niabella soli DSM 19437T (94.5% similarity), N. yanshanensis CCBAU 05354T (94.3%), and N. aurantiaca DSM 17617T (93.8%). The G+C content of genomic DNA was 47.3 mol%. Chemotaxonomic data [predominant isoprenoid quinone-MK-7, major fatty acids–iso-C15:0, iso-C15:1 G, iso-C17:0 3-OH, and summed feature 3 (comprising C16:1 ω7c and/or C16:1 ω6c)] supported the affiliation of strain BS26T to the genus Niabella. However, strain BS26T could be differentiated genotypically and phenotypically from the recognized species of the genus Niabella. The novel isolate therefore represents a novel species, for which the name Niabella ginsenosidivorans sp. nov. is proposed, with the type strain BS26T (=KACC 16620T =JCM 18199T).

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Niabella digestorum sp. nov., a High Cell-Surface Hydrophobic Bacterium Isolated from Waste Digestion System
Ling Zhang, Chuansheng Geng, Xingjuan Chen, Letian Chen, Tongchu Deng, Meiying Xu
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Sheng-Zhi Guo, Tong Wu, Hai-Zhen Zhu, Lei Yan, Zhi-Pei Liu, De-Feng Li, Cheng-Ying Jiang, Shuang-Jiang Liu, Xi-Hui Shen
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Niabella hibiscisoli sp. nov., isolated from soil of a Rose of Sharon garden
Hien T. T. Ngo, Huan Trinh, Zheng-Fei Yan, Gabriela Moya, MooChang Kook, Tae-Hoo Yi
International Journal of Systematic and Evolutionary Microbiology.2017; 67(4): 784. CrossRef
Niabella aquatica sp. nov., isolated from lake water
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Sphingosinicella ginsenosidimutans sp. nov., with ginsenoside converting activity: Jin-Kwang Kim , Myung-Suk Kang , Sung Chul Park , Kyeng-Min Kim , Kangduk Choi , Min-Ho Yoon , Wan-Taek Im; J. Microbiol. 2015;53(7):435-441. Published online June 27, 2015; DOI: https://doi.org/10.1007/s12275-015-5087-3

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Abstract

The Gram-reaction-negative, strictly aerobic, non-motile, nonspore- forming, and rod-shaped bacterial strain designated BS11T was isolated from the compost and its taxonomic position was investigated by using a polyphasic approach. Strain BS11T grew optimally at 30?7캜 and at pH 7.0 in the absence of NaCl on nutrient agar. Strain BS11T displayed ?glucosidase activity that was responsible for its ability to transform ginsenoside Rb1 (one of the dominant active components of ginseng) to Rd. On the basis of 16S rRNA gene sequence similarity, strain BS11T was shown to belong to the family Sphingomonadaceae and was related to Sphingosinicella vermicomposti YC7378T (96.3% sequence similarity), S. xenopeptidilytica 3-2W4T (96.2%), S. microcystinivorans Y2T (96.1%), and S. soli KSL-125 T (95.9%). The G+C content of the genomic DNA was 64.9%. The major menaquinone was Q-10 and the major fatty acids were summed feature 7 (comprising C18:1 ?c/?t/?2t; 40.6%), C16:0 (22.5%), C17:1 ?c (13.7%) and C17:0 (9.1%). DNA and chemotaxonomic data supported the affiliation of strain BS11T to the genus Sphingosinicella. Strain BS11T could be differentiated genotypically and phenotypically from the recognized species of the genus Sphingosinicella. The novel isolate therefore represents a novel species, for which the name Sphingosinicella ginsenosidimutans sp. nov. is proposed, with the type strain BS11T (=KACC 16619T =JCM 18201T).

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Isolation and characterization of a novel glycoside hydrolase positive bacterial strain named Terrimonas ginsenosidimutans sp. nov. with ginsenoside-converting activity
Muhammad Zubair Siddiqi, Ji Eun Lee, Min Ok Jun, Md. Amdadul Huq, Wan-Taek Im
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Evaluation of agricultural soil health after applying pyraclostrobin in wheat/maize rotation field based on the response of soil microbes
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Agriculture, Ecosystems & Environment.2022; 340: 108186. CrossRef
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Histidinibacterium aquaticum sp. nov., Isolated from Salt-Field Sea Water
Kyu-Hang Lee, Jin-Sook Park
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Isolation, characterisation and genome analysis of a novel ginsenosides hydrolysing bacterium Ginsengibacter hankyongi gen. nov., sp. nov. isolated from soil
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Antonie van Leeuwenhoek.2021; 114(1): 11. CrossRef
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Luteimonas granuli sp. nov., Isolated from Granules of the Wastewater Treatment Plant
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Antonie van Leeuwenhoek.2020; 113(5): 719. CrossRef
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List of new names and new combinations previously effectively, but not validly, published
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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
Journal of Microbiology.2018; 56(5): 324. CrossRef
Aquimarina spongiicola sp. nov., isolated from spongin
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International Journal of Systematic and Evolutionary Microbiology.2018; 68(4): 990. CrossRef
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International Journal of Systematic and Evolutionary Microbiology.2018; 68(8): 2509. CrossRef
Vibrio hannami sp. nov., Isolated from Seawater
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Current Microbiology.2018; 75(3): 278. CrossRef
Ciceribacter azotifigens sp. nov., a nitrogen-fixing bacterium isolated from activated sludge
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Paraburkholderia azotifigens sp. nov., a nitrogen-fixing bacterium isolated from paddy soil
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International Journal of Systematic and Evolutionary Microbiology .2018; 68(5): 1732. CrossRef
Lysobacter spongiae sp. nov., isolated from spongin
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Dhiraj Kumar Chaudhary, Ram Hari Dahal, Jaisoo Kim
Current Microbiology.2018; 75(10): 1299. CrossRef
Brevibacterium hankyongi sp. nov., isolated from compost
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Mucilaginibacter ginsenosidivorans sp. nov., Isolated from Soil of Ginseng Field
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Current Microbiology.2017; 74(12): 1382. CrossRef
Mucilaginibacter hankyongensis sp. nov., isolated from soil of ginseng field Baekdu Mountain
Qingmei Liu, Muhammad Zubair Siddiqi, Mi-Sun Kim, Sang Yong Kim, Wan-Taek Im
Journal of Microbiology.2017; 55(7): 525. CrossRef
Panacibacter ginsenosidivorans gen. nov., sp. nov., with ginsenoside converting activity isolated from soil of a ginseng field
Muhammad Zubair Siddiqi, Siddiqi Muhammad Shafi, Kang Duk Choi, Wan-Taek Im
International Journal of Systematic and Evolutionary Microbiology .2016; 66(10): 4039. CrossRef
Marmoricola ginsengisoli sp. nov. and Marmoricola pocheonensis sp. nov. isolated from a ginseng-cultivating field
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International Journal of Systematic and Evolutionary Microbiology.2016; 66(5): 1996. CrossRef
Pseudobacter ginsenosidimutans gen. nov., sp. nov., isolated from ginseng cultivating soil
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International Journal of Systematic and Evolutionary Microbiology .2016; 66(9): 3449. CrossRef
Anseongella ginsenosidimutans gen. nov., sp. nov., isolated from soil cultivating ginseng
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International Journal of Systematic and Evolutionary Microbiology .2016; 66(3): 1125x. CrossRef
Sphingobacterium jejuense sp. nov., with ginsenoside-converting activity, isolated from compost
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International Journal of Systematic and Evolutionary Microbiology.2016; 66(11): 4433. CrossRef
Compostibacter hankyongensis gen. nov., sp. nov., isolated from compost
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Characterization of Recombinant β-Glucosidase from Arthrobacter chlorophenolicus and Biotransformation of Ginsenosides Rb1, Rb2, Rc, and Rd: Myung Keun Park , Chang-Hao Cui , Sung Chul Park , Seul-Ki Park , Jin-Kwang Kim , Mi-Sun Jung , Suk-Chae Jung , Mi-Sun Jung , Suk-Chae Jung , Sun-Chang Kim , Wan-Taek Im; J. Microbiol. 2014;52(5):399-406. Published online May 9, 2014; DOI: https://doi.org/10.1007/s12275-014-3601-7

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Abstract

The focus of this study was the cloning, expression, and characterization of recombinant ginsenoside hydrolyzing β-glucosidase from Arthrobacter chlorophenolicus with an ultimate objective to more efficiently bio-transform ginse-nosides. The gene bglAch, consisting of 1,260 bp (419 amino acid residues) was cloned and the recombinant enzyme, over-expressed in Escherichia coli BL21 (DE3), was characterized. The GST-fused BglAch was purified using GST·Bind agarose resin and characterized. Under optimal conditions (pH 6.0 and 37°C) BglAch hydrolyzed the outer glucose and arabino-pyranose moieties of ginsenosides Rb1 and Rb2 at the C20 position of the aglycone into ginsenoside Rd. This was fol-lowed by hydrolysis into F2 of the outer glucose moiety of ginsenoside Rd at the C3 position of the aglycone. Additio-nally, BglAch more slowly transformed Rc to F2 via C-Mc1 (compared to hydrolysis of Rb1 or Rb2). These results in-dicate that the recombinant BglAch could be useful for the production of ginsenoside F2 for use in the pharmaceutical and cosmetic industries.

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NOTE] Mucilaginibacter ginsenosidivorax sp. nov., with Ginsenoside Converting Activity Isolated from Sediment: Jin-Kwang Kim , Tae-Eun Choi , Qing-Mei Liu , Hye-Yoon Park , Tae-Hoo Yi , Min-Ho Yoon , Sun-Chang Kim , Wan-Taek Im; J. Microbiol. 2013;51(3):394-399. Published online June 28, 2013; DOI: https://doi.org/10.1007/s12275-013-2653-4

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Abstract: A Gram-reaction-negative, strictly aerobic, non-motile, nonspore-forming, and rod-shaped bacterial strain designated KHI28T was isolated from sediment in Gapcheon (river) and its taxonomic position was investigated using a polyphasic approach. Strain KHI28T grew at 10–42°C and at pH 5.5–8.5 on R2A and nutrient agar without additional NaCl as a supplement. Strain KHI28T possessed β-glucosidase activity, which was responsible for its ability to transform ginsenosides Rb1 and Re (ones of the dominant active components of ginseng) to C-K and Rg2, respectively. On the basis of 16S rRNA gene sequence similarity, strain KHI28T was shown to belong to the family Sphingobacteriaceae and to be related to Mucilaginibacter dorajii DR-f4T (97.9% sequence similarity), M. polysacchareus DRP28T (97.3%), and M. lappiensis ANJLI2 T (97.2%). The G+C content of the genomic DNA was 45.8%. The predominant respiratory quinone was MK-7 and the major fatty acids were summed feature 3 (comprising C16:1 ω6c and/or C16:1 ω7c), iso-C15:0 and C16:0. DNA and chemotaxonomic data supported the affiliation of strain KHI28T to the genus Mucilaginibacter. Strain KHI28T could be differentiated genotypically and phenotypically from the recognized species of the genus Mucilaginibacter. The isolate therefore represents a novel species, for which the name Mucilaginibacter ginsenosidivorax sp. nov. is proposed, with the type strain KHI28T (=KACC 14955T =LMG 25804T).

Mucilaginibacter composti sp. nov., with Ginsenoside Converting Activity, Isolated from Compost: Chang-Hao Cui , Tae-Eun Choi , Hongshan Yu , Fengxie Jin , Sung-Taik Lee , Sun-Chang Kim , Wan-Taek Im; J. Microbiol. 2011;49(3):393-398. Published online June 30, 2011; DOI: https://doi.org/10.1007/s12275-011-1176-0

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Abstract: The Gram-negative, strictly aerobic, non-motile, non-spore-forming, rod shaped bacterial strain designated TR6-03T was isolated from compost, and its taxonomic position was investigated by using a polyphasic approach. Strain TR6-03T grew at 4-42°C and at pH 6.0-8.0 on R2A and nutrient agar without NaCl supplement. Strain TR6-03T had β-glucosidase activity, which was responsible for its ability to transform ginsenoside Re (one of the dominant active components of ginseng) to Rg2. On the basis of 16S rRNA gene sequence similarity, strain TR6-03T was shown to belong to the family Sphingobacteriaceae and to be related to Mucilaginibacter lappiensis ANJLI2T (96.3% sequence similarity), M. dorajii FR-f4T (96.1%), and M. rigui WPCB133T (94.1%). The G+C content of the genomic DNA was 45.6%. The predominant respiratory quinone was MK-7 and the major fatty acids were summed feature 3 (comprising C16:1 ω7c and/or iso-C15:0 2OH), iso-C15:0 and iso-C17:0 3OH. DNA and chemotaxonomic data supported the affiliation of strain TR6-03T to the genus Mucilaginibacter. Strain TR6-03T could be differentiated genotypically and phenotypically from the recognized species of the genus Mucilaginibacter. The isolate therefore represents a novel species, for which the name Mucilaginibacter composti sp. nov. is proposed, with the type strain TR6-03T (=KACC 14956T =KCTC 12642T =LMG 23497T).

Sphingomonas ginsenosidimutans sp. nov., with Ginsenoside Converting Activity: Tae-Eun Choi , Qing-Mei Liu , Jung-Eun Yang , Siyi Sun , Se-Young Kim , Tae-Hoo Yi , Wan-Taek Im; J. Microbiol. 2010;48(6):760-766. Published online January 9, 2011; DOI: https://doi.org/10.1007/s12275-010-0469-z

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Abstract: The Gram-reaction-negative, strictly aerobic, non-motile, non-spore-forming, and rod-shaped bacterial strain designated Gsoil 1429T was isolated from the soil of ginseng cultivating field of Pocheon province in South Korea. This bacterium was characterized in order to determine its taxonomic position by using the polyphasic approach. Strain Gsoil 1429T grew well at 25-37°C and at pH 7.0 on R2A and nutrient agar without NaCl supplement. Strain Gsoil 1429T had beta-glucosidase activity, which was responsible for its ability to transform ginsenoside Rb1 (one of the dominant active components of ginseng) to F2 via gypenoside XVII. On the basis of 16S rRNA gene sequence similarity, strain Gsoil 1429T was shown to belong to the family Sphingomonadaceae and to be related to Sphingomonas yunnanensis YIM 003T (98.2% sequence similarity), S. phyllosphaerae FA2T (97.5%), S. koreensis JSS26T (97.3%), and S. asaccharolytica IFO 15499T (97.1%). The G+C content of the genomic DNA was 65.6%. The major respiratory quinone was Q-10 and the major fatty acids were summed feature 8 (comprising C18:1 w7c/w9t/w12t), C16:0 and C14:0 2OH. DNA and chemotaxonomic data supported the affiliation of strain Gsoil 1429T to the genus Sphingomonas. The DNA-DNA relatedness values between strain Gsoil 1429T and its closest phylogenetically neighbours were below 28%. Strain Gsoil 1429T could be differentiated genotypically and phenotypically from the recognized species of the genus Sphingomonas. The isolate therefore represents a novel species, for which the name Sphingomonas ginsenosidimutans sp. nov. is proposed, with the type strain Gsoil 1429T (=KACC 14949T =JCM 17074T =LMG 25799T).

Microbial Conversion of Major Ginsenoside Rb1 to Pharmaceutically Active Minor Ginsenoside Rd: Myung Kyum Kim , Jun Won Lee , Ki Young Lee , Deok-Chun Yang; J. Microbiol. 2005;43(5):456-462.; DOI: https://doi.org/2275 [pii]

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Abstract: More than seventy strains of aerobic bacteria showing [beta]-glucosidase activity were isolated from a ginseng field, using a newly designed Esculin-R2A agar, and identified by their 16S rRNA gene sequences. Of these microorganisms, twelve strains could convert the major ginsenoside, Rb1, to the pharmaceutically active minor ginsenoside Rd. Three strains, Burkholderia pyrrocinia GP16, Bacillus megaterium GP27 and Sphingomonas echinoides GP50, were phylogenetically studied, and observed to be most potent at converting ginsenoside Rb1 almost completely within 48 h, as shown by TLC and HPLC analyses.

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