Publications by authors named "Keun Chul Lee"

106 Publications

sp. nov., isolated from soil of rhizosphere .

Int J Syst Evol Microbiol 2021 Feb;71(2)

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

A novel actinobacterial strain, SB3-45, was isolated from soil of rhizosphere, Jaecheon-si, Chungcheongbuk-do, Republic of Korea. Strain SB3-45, was Gram-stain-positive, aerobic and coccoid to short rod-shaped bacterium. Growth occurred at 4-37 °C (optimum 28 °C), pH 5-8 (optimum pH 7) and 0-2.5 % NaCl (optimum 0%). Phylogenetic analysis based on 16S rRNA gene sequence showed that strain SB3-45 belonged to the genus and was closely related to OS-21 (96.2%) and Gsoil 616 (95.9%). ll-DAP as the diamino acid in the peptidoglycan and the menaquinone MK-8(H) as the predominant isoprenoid quinone were detected. The polar lipids of strain SB3-45 were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and unidentified phospholipid. The major cellular fatty acids (>5%) of strain SB3-45 were iso-C, C ω9c and C. Based on phylogenetic, physiological and chemotaxonomic characteristics, strain SB3-45 represents a novel species of the genus for which the name sp.nov. is proposed. The type strain is SB3-45 (=KCTC 49133=NBRC 114107).
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http://dx.doi.org/10.1099/ijsem.0.004640DOI Listing
February 2021

sp. nov., isolated from rhizosphere soil of apple orchard.

Int J Syst Evol Microbiol 2021 Feb;71(2)

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

A novel Gram-negative bacterium, designated G2-14, was isolated from rhizosphere soil sample collected from apple orchard in Chungju-si, Chungcheongbuk-do, Republic of Korea. Strain G2-14 was a strictly aerobic, non-spore-forming, non-motile and short-rod-shaped bacterium. Phylogenetic analysis based on 16S rRNA gene sequence showed that strain G2-14 was closely related to HMD1056 (96.9 %) and BDR-9 (96.8 %). The major cellular fatty acids (>10 %) of strain G2-14 were summed feature 3 (C6 and/or C7) and iso-C. The predominant quinone and the major polar lipid were menaquinone-7 and phosphatidylethanolamine, respectively. Strain G2-14 produced acetic acid. The DNA G+C content based on whole genome sequences was 46.4 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain G2-14 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is G2-14 (=KCTC 72533=NBRC 114179).
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http://dx.doi.org/10.1099/ijsem.0.004617DOI Listing
February 2021

sp. nov., a member of the family isolated from mangrove forest in Thailand.

Int J Syst Evol Microbiol 2021 Jan 1;71(1). Epub 2020 Dec 1.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

Two novel Gram-stain-negative, rod-shaped and non-motile bacterial strains, designated B5-SW-15 and C2-DW-16, were isolated from water collected in mangrove forests in Ranong Province, Thailand. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains B5-SW-15 and C2-DW-16 belonged to the genus and were most closely related to DSM 100212 (98.2 and 98.1 %, respectively) and DSM 29127 (97.7 and 97.6 %, respectively). The average nucleotide identity and digital DNA-DNA hybridization values between strain B5-SW-15, strain C2-DW-16 and related species were 95.8 and 71.6 % (to strain C2-DW-16), 76.8 and 21.3 % (to DSM 100212) and 80.3 and 24.2 % (to DSM 29127), respectively. The predominant cellular fatty acids (>5 %) were summed feature 8 (C and/or C7), C and C 3-OH. Ubiquinone Q-10 was the sole respiratory quinone. DNA G+C contents of the isolates were 61.0 and 61.2 mol% based on whole genome sequences. Strains B5-SW-15 and C2-DW-16 contained aminolipid, phosphatidylcholine, phosphatidylethanolamine and phosphatidylglycerol as the major polar lipids. On the basis of the results from phenotypic, chemotaxonomic and phylogenetic analyses, strains B5-SW-15 and C2-DW-16 constitute a novel species of the genus in the family for which the name sp. nov. is proposed. The type strain is B5-SW-15 (=BCC 56522=TBRC 9562=KCTC 72743).
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http://dx.doi.org/10.1099/ijsem.0.004570DOI Listing
January 2021

Comamonas flocculans sp. nov., a Floc-Forming Bacterium Isolated from Livestock Wastewater.

Curr Microbiol 2020 Aug 13;77(8):1902-1908. Epub 2020 Mar 13.

School of Applied Biosciences, Kyungpook National University, Daegu, 37224, Republic of Korea.

A Gram-negative, aerobic, non-motile, rod-shaped, floc-forming, and non-spore-forming bacterium, designated as NLF-7-7, was isolated from the biofilm of a sample collected from a livestock wastewater treatment plant in Nonsan, Republic of Korea. Strain NLF-7-7, forms a visible floc and grows in the flocculated state. Cells of strain NLF-7-7 grew optimally at pH 6.5 and 30 °C and in the presence of 0.5% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain NLF-7-7 belonged to the family Comamonadaceae, and was most closely related to Comamonas badia DSM 17552 (95.8% similarity) and Comamonas nitrativorans 23310 (94.0% similarity). The phylogenetic and phenotypic data indicate strain NLF-7-7 is clearly distinguished from the Comamonas lineage. The major cellular fatty acids were C 3OH, C, and summed feature 3 (C ω6c/C ω7c). The respiratory quinone was Q-8. The polar lipids were composed of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, and an unidentified aminolipid. The DNA G+C content of strain NLF-7-7 was 68.0 mol%. Based on the phenotypic, chemotaxonomic, and phylogenetic properties, strain NLF-7-7 represents a novel species of the genus Comamonas, for which the name Comamonas flocculans sp. nov. is proposed. The type strain is C. flocculans NLF-7-7 (=KCTC 62943). The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of Comamonas flocculans NLF-7-7 is MN527436. The whole-genome shotgun BioProject Number is PRJNA555370 with the Accession Number CP042344.
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http://dx.doi.org/10.1007/s00284-020-01940-5DOI Listing
August 2020

sp. nov., isolated from faeces from a healthy human.

Int J Syst Evol Microbiol 2020 Mar;70(3):2059-2065

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

An obligately anaerobic, Gram-stain-positive, non-motile and coccoid- or oval-shaped bacterium, designated strain KGMB01111, was isolated from faeces from a healthy Korean. Comparative analysis of 16S rRNA gene sequences indicated that KGMB01111 was closely related to CCRI-16110 (93.9 %) and GAM6-1 (93.7 %), followed by DSM 1787 (93.5 %), ATCC 27340 (93.4 %), DSM 10507 (93.1 %) and ATCC 29236 (93.1 %) within the family ( rRNA cluster XIVa). Phylogenetic analysis based on the 16S rRNA gene sequences indicated that KGMB01111 formed a separate branch with species in the genus . The major cellular fatty acids (>10.0 %) were C and C 9 dimethyl acetal (DMA), and the major polar lipids were aminophospholipids and lipids. KGMB01111 contained diaminopimelic acid in cell-wall peptidoglycan. The predominant end product of fermentation produced by KGMB01111 was acetic acid. Based on the whole-genome sequence, the DNA G+C content of the isolate was 44.7 mol%. On the basis of the phenotypic, chemotaxonomic and phylogenetic characteristics, KGMB01111 represents a novel species within the genus for which the name sp. nov. is proposed. The type strain is KGMB01111 (=KCTC 15706=DSM 107827).
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http://dx.doi.org/10.1099/ijsem.0.004015DOI Listing
March 2020

Sutterella faecalis sp. nov., isolated from human faeces.

J Microbiol 2020 Feb 29;58(2):99-104. Epub 2020 Jan 29.

Korean Collection for Type Cultures, Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea.

An obligately anaerobic, Gram-stain-negative, non-motile, non-spore-forming, and coccobacilli-shaped bacterial strain, designated KGMB03119, was isolated from human faeces from a Korean. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that the isolate was a member of the genus Sutterella and most closely related to Sutterlla wadsworthensis KCTC 15691 (96.8% 16S rRNA gene sequence similarity). The DNA G + C content of strain KGMB03119 was 58.3 mol% as determined from its whole genome sequence. Strain KGMB03119 was asaccharolytic, catalase-positive, oxidase- and urease-negative. Furthermore, the isolate was positive for alkaline phosphatase, leucine arylamidase, acid phosphatase, arginine arylamidase, alanine arylamidase, and glycine arylamidase. The major cellular fatty acids (> 10%) of the isolate were Cω9c and C. Methylmenaquinone-5 (MMK-5, 100%) was the predominant isoprenoid quinone in the isolate. Based on the phylogenetic, physiological, and chemotaxonomic characteristics, strain KGMB03119 represents a novel species, for which the name Sutterella faecalis sp. nov. is proposed. The type strain is KGMB03119 (= KCTC 15823 = NBRC 114254).
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http://dx.doi.org/10.1007/s12275-020-9396-9DOI Listing
February 2020

sp. nov., an anaerobic actinobacterium isolated from human faeces, and emended description of the genus .

Int J Syst Evol Microbiol 2020 Mar;70(3):1684-1690

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

A novel actinobacterial strain, designated KGMB04484, was isolated from healthy human faeces sampled in the Republic of Korea. Cells of strain KGMB04484 were strictly anaerobic, Gram-stain-positive, catalase-positive, oxidase-negative, non-motile coccobacilli and formed tiny colonies on Columbia agar with 5 % horse blood. On the basis of 16S rRNA gene sequence similarity, strain KGMB04484 was affiliated with the genus in the family and its closest relative was JC110 (96.28 % sequence similarity). The DNA G+C content of strain KGMB04484 was 61.2 mol%. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, an unidentified phospholipid, an unidentified aminolipid and three unidentified glycolipids. The predominant cellular fatty acids (>10 %) of strain KGMB04484 were C, C and C dimethyl acetal. Based on its phylogenetic, physiological and chemotaxonomic characteristics, strain KGMB04484 is considered to represent a novel species within the genus , for which the name sp. nov. is proposed. The type strain is KGMB04484 (=KCTC 15721=CCUG 72347).
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http://dx.doi.org/10.1099/ijsem.0.003958DOI Listing
March 2020

Anaerotignum faecicola sp. nov., isolated from human faeces.

J Microbiol 2019 Dec 4;57(12):1073-1078. Epub 2019 Nov 4.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Jeongeup, 56212, Republic of Korea.

A strictly anaerobic bacterium, designated as strain KGMB-03357, was isolated from the faeces of a healthy Korean selected by Bundang Seoul National University based on health status. Cells of strain KGMB03357 are Gram-stain-positive, non-motile, non-spore-forming, and observed as straight or curved rods. The isolate grew at 10-45°C (optimum temperature of 40°C) and a pH range of 5.1-10.5 (optimum pH of 6.8). Analysis of phylogenetic trees based on the 16S rRNA gene sequences revealed that strain KGMB03357 forms a lineage within the genus Anaerotignum, and is most closely related to Anaerotignum lactatifermentans G17 (= KCTC 15066, 96.1%), Anaerotignum propionicum DSM 1682T (= KCTC 5582, 94.9%), Anaerotignum neopropionicum DSM 03847 (= KCTC 15564T, 94.9%), and Anaerotignum aminivorans SH021 (= KCTC 15705T, 94.8%). The ANI values between strain KGMB 03357T and members of the genus Anaerotignum were 73.3-71.0%, which are below the ANI criterion for interspecies identity. The DNA G + C content based on the whole-genome sequence is 47.3 mol%. The major cellular fatty acids of strain KGMB03357 are C, C, C cis 9, and anteiso-C. Strain KGMB03357T contains meso-diaminopimelic acid as the diagnostic amino acid in the cell wall peptidoglycan. Based on the phenotypic, phylogenetic, and genomic properties, strain KGMB 03357 represents a novel species of the genus Anaerotignum, for which the name Anaerotignum faecicola sp. nov. is proposed. The type strain is KGMB03357 (= KCTC 15736T = DSM 107953).
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http://dx.doi.org/10.1007/s12275-019-9268-3DOI Listing
December 2019

sp. nov., isolated from human faeces.

Int J Syst Evol Microbiol 2019 Dec;69(12):3824-3829

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, Jeongeup-si, Republic of Korea.

A novel Gram-stain-negative and strictly anaerobic bacterial strain, designated KGMB02408, was isolated from faeces of a healthy human in the Republic of Korea. The isolate was characterized as non-motile, non-spore-forming and rod-shaped (variable in length). The results of phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KGMB02408 belonged to the genus and was most closely related to JCM 17102 (=KCTC 15666; 96.5 %). Based on its whole-genome sequence, the DNA G+C content of the isolate was 39.5 mol%. The average nucleotide identity value between strain KGMB02408 and related species, JCM 17102, was 93.8 %. The major cellular fatty acids (>10 %) of the isolate were anteiso-C, iso-C-OH, summed feature 11 (iso-C-OH and/or C DMA) and C. Menaquinone-8 (28.6 %) and menaquinone-10 (47.1 %) were detected as the major respiratory quinones in the isolate. The major end products of glucose fermentation produced by strain KGMB02408 were lactic acid, acetic acid and formic acid. Based on its phylogenetic, phenotypic and chemotaxonomic characteristics, strain KGMB02408 represents a novel species of the genus in the family . The type strain is KGMB02408 (=KCTC 15687=DSM 107828).
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http://dx.doi.org/10.1099/ijsem.0.003690DOI Listing
December 2019

Cohnella abietis sp. nov., isolated from Korean fir (Abies koreana) rhizospheric soil of Halla mountain.

J Microbiol 2019 Nov 28;57(11):953-958. Epub 2019 Aug 28.

Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea.

A strictly aerobic, motile, endospore-forming, rod-shaped bacterium, designated HS21, was isolated from rhizospheric soil of the Korean fir tree (Abies koreana) from Halla mountain on Jeju island, Korea. Growth of strain HS21 was observed at pH 6.0-8.0 (optimum: pH 7.0), 0-2% (w/v) NaCl and 4-30°C (optimum: 25°C). A comparative analysis of 16S rRNA gene sequences showed that strain HS21 was most closely related to Cohnella luojiensis HY-22R (97.6%), followed by C. lupini RLAHU4B (97.4%) and C. collisoli NKM-5 (97.2%). The genome of strain HS21 comprised a circular chromosome of 7,059,027 bp with 44.8% G + C content. The DNA-DNA relatedness values between strain HS21 and C. luojiensis HY-22R and C. lupini RLAHU4B were 18.1% and 13.8%, respectively. The major cellular fatty acids (> 5%) of the isolate were anteiso-C, iso-C, C, and iso-C. The polar lipids present were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, lysylphosphatidylglycerol, and three unidentified aminophospholipids. Based on its phenotypic, phylogenetic, genomic, and chemotaxonomic properties, strain HS21 represents a novel species of the genus Cohnella, for which the name Cohnella abietis sp. nov. is proposed. The type strain is HS21 (= KCTC 43028 = CCTCC AB 2019010).
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http://dx.doi.org/10.1007/s12275-019-9136-1DOI Listing
November 2019

Effects of an Internet-based informational video on preoperative anxiety in patients with colorectal cancer.

Ann Surg Treat Res 2019 Jun 29;96(6):290-295. Epub 2019 May 29.

Department of Surgery, Seoul National University Bundang Hospital, Seongnam, Korea.

Purpose: Surgery is the primary curative treatment for colorectal cancer; however, it remains a frightening procedure that can cause stress and pain in affected patients. Therefore, patients typically experience significant anxiety during the preoperative period, which has been associated with poorer outcome after surgery. This study aimed to evaluate the effect of an Internet-based informational video on preoperative anxiety level in patients with colorectal cancer.

Methods: This prospective, single-arm, observational study included patients scheduled to undergo elective colorectal cancer surgery, who did not have a history of previous surgery or major cognitive impairment. The primary outcome measure was the change in Amsterdam Preoperative Anxiety and Information Scale - Anxiety (APAIS-A) before and after watching a 5-min informational video (https://youtu.be/VzhtOMPUe4Q) during the preoperative period. Secondary outcome measures were the change in Hospital Anxiety and Depression Scale (HADS), length of postoperative hospital day, and postoperative morbidity.

Results: Thirty-two patients were enrolled. Anxiety was significantly decreased after watching the video (APAIS-A score: from 10.8 ± 3.7 to 8.2 ± 3.2, P < 0.001, mean reduction: 22.2%). HADS score was also significantly decreased (from 5.8 ± 4.4 to 4.0 ± 3.3, P = 0.001, mean reduction: 26.5%). All preoperative anxiety level did not significantly differ between patients who developed postoperative complication and those who did not.

Conclusion: The informational video was an effective tool to reduce preoperative anxiety. Viewing this video may confer a higher level of confidence and realistic expectations, as well as reducing patients' preoperative anxiety.
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http://dx.doi.org/10.4174/astr.2019.96.6.290DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6543051PMC
June 2019

Olsenella faecalis sp. nov., an anaerobic actinobacterium isolated from human faeces.

Int J Syst Evol Microbiol 2019 Aug 28;69(8):2323-2328. Epub 2019 May 28.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.

A novel actinobacterial strain, designated KGMB04489, was isolated from the faeces of a healthy Korean. Cells of the strain were strictly anaerobic, Gram-stain-positive and short-rod-shaped. On the basis of 16S rRNA gene sequence similarity, strain KGMB04489 belonged to the genus Olsenella and was most closely related to Olsenella scatoligenes SK9K4 (94.3 %), Olsenella uli ATCC 49627 (93.5 %), Olsenella umbonata lac31 (93.4 %) and Olsenella profusa D315A-29 (93.3 %). The major end product was lactic acid. The DNA G+C content was 65.5 mol%. The major cellular fatty acids of strain KGMB04489 were C18 : 1cis9, C18 : 1cis9 DMA and C16 : 0. Strain KGMB04489 contained meso-diaminopimelic acid as the diamino acid in the peptidoglycan. The polar lipids consisted of an unidentified phospholipid, six unidentified glycolipids and an unidentified lipid. Based on phylogenetic, physiological and chemotaxonomic characteristics, strain KGMB04489 is considered to represent a novel species within the genus Olsenella, for which the name Olsenellafaecalis sp. nov. is proposed. The type strain is KGMB04489 (=KCTC 15699=CCUG 72345).
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http://dx.doi.org/10.1099/ijsem.0.003469DOI Listing
August 2019

Mediterraneibacter butyricigenes sp. nov., a butyrate-producing bacterium isolated from human faeces.

J Microbiol 2019 Jan 29;57(1):38-44. Epub 2018 Dec 29.

Korean Collection for Type Cultures, Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea.

A Gram-stain-positive, obligately anaerobic, non-motile, nonspore-forming, and rod-shaped bacterial strain, designated KGMB01110T, was isolated from a faecal sample of a healthy male in South Korea. Phylogenetic analysis based on 16S rRNA gene showed that strain KGMB01110 belonged to Clostridium cluster XIVa and was most closely related to Mediterraneibacter glycyrrhizinilyticus KCTC 5760T (95.9% 16S rRNA gene sequence similarity). The DNA G + C content of strain KGMB01110 based on its whole genome sequence was 44.1 mol%. The major cellular fatty acids (> 10%) of the isolate were C and C. The strain KGMB01110T was positive for arginine dihydrolase, β-galactosidase-6-phosphatase, and alkaline phosphatase. The strain KGMB01110 also produced acid from D-glucose and D-rhamnose, and hydrolyzed gelatin and aesculin. Furthermore, HPLC analysis and UV-tests of culture supernatant revealed that the strain KGMB01110 produced butyrate as the major end product of glucose fermentation. Based on the phylogenetic and phenotypic characteristics, strain KGMB01110 represent a novel species of the genus Mediterraneibacter in the family Lachnospiraceae. The type strain is KGMB01110 (= KCTC 15684 = CCUG 72830).
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http://dx.doi.org/10.1007/s12275-019-8550-8DOI Listing
January 2019

Microbial community structure and functional potential of lava-formed Gotjawal soils in Jeju, Korea.

PLoS One 2018 12;13(10):e0204761. Epub 2018 Oct 12.

Department of Biology, Baylor University, Waco, TX, United States of America.

The Gotjawal areas of Jeju Island, Korea, are comprised of unmanaged forests growing on volcanic soils. They support unique assemblages of vascular plants from both northern and southern hemispheres, but are threatened by human disturbance. The health and ecosystem function of these assemblages likely depends in part on the diversity and community structure of soil microbial communities, about which little is known. To assess the diversity of Gotjawal soil microbial communities, twenty samples were collected in November 2010 from 4 representatives of Gotjawal forests. While soil properties and microbial communities measured by 16S rRNA gene sequence data were marginally distinct among sites by PERMANOVA (p = 0.017-0.191), GeoChip data showed significant differences among sites (p <0.006). Gene composition overall, and the composition of 3 functional gene categories had similar structures themselves and similar associations with environmental factors. Among these communities, phosphorous cycling genes exhibited the most distinct patterns. 16S rRNA gene sequence data resulted in a mean 777 operational taxonomic units (OTUs), which included the following major phyla: Proteobacteria (27.9%), Actinobacteria (17.7%), Verrucomicrobia (14.3%), Acidobacteria (9.6%), Planctomycetes (9.8%), Bacteroidetes (8.9%), and Chloroflexi (2.2%). Indicator species analysis (ISA) was used to determine the taxa with high indicator value, which represented the following: uncultured Chlamydiaceae, Caulobacter, uncultured Sinobacteraceae, Paenibacillus, Arenimonas, Clostridium sensu.stricto, uncultured Burkholderiales incertae sedis, and Nocardioides in Aewol (AW), Aquicella, uncultured Planctomycetia, and Aciditerrimonas in Gujwa-Seongsan (GS), uncultured Acidobacteria Gp1, and Hamadaea in Hankyeong-Andeok (HA), and Bosea, Haliea, and Telmatocola in Jocheon-Hamdeok (JH) Gotjawal. Collectively, these results demonstrated the uniqueness of microbial communities within each Gotjawal region, likely reflecting different patterns of soil, plant assemblages and microclimates.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0204761PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6193574PMC
March 2019

Description of Lacinutrix salivirga sp. nov., a marine member of the family Flavobacteriaceae isolated from seawater.

Arch Microbiol 2018 Oct 5;200(8):1159-1165. Epub 2018 Jun 5.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do, 56212, Republic of Korea.

A novel marine bacterium, designated KMU-57, was isolated from seawater collected from the Republic of Korea, and it was characterized using polyphasic taxonomic methods. Strain KMU-57 was Gram-stain-negative, strictly aerobic, rod-shaped, motile and dark-yellow-pigmented. Comparative analysis based on the 16S rRNA gene sequence showed the affiliation of the isolate with members of the family Flavobacteriaceae of the phylum Bacteroidetes, and it had the greatest sequence similarity (97.6%) to Lacinutrix jangbogonensis PAMC 27137. The DNA-DNA relatedness value between strain KMU-57 and L. jangbogonensis PAMC 27137 was 37.8 ± 2.2%. The DNA G + C content of strain KMU-57 was 29.9 mol%; MK-6 was the major menaquinone with; iso-C15:1 G (18.6%) and C16:1 ω7c and/or C16:1 ω6c (15.8%) as the major (> 10%) cellular fatty acids. The polar lipid profile consisted of phosphatidylethanolamine, three unidentified aminolipids, and five unidentified lipids. The strain represents a novel species of the genus Lacinutrix for which the name Lacinutrix salivirga sp. nov. is proposed. The type strain of L. salivirga sp. nov. is KMU-57 (= KCTC 52878 = NBRC 112845).
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http://dx.doi.org/10.1007/s00203-018-1533-zDOI Listing
October 2018

Jatrophihabitans telluris sp. nov., isolated from sediment soil of lava forest wetlands and the emended description of the genus Jatrophihabitans.

Int J Syst Evol Microbiol 2018 Apr 21;68(4):1107-1111. Epub 2018 Feb 21.

University of Science and Technology (UST), 217 Gajeong-ro, Yuseong-gu, Daejeon 34113, Republic of Korea.

A novel actinobacterial strain, designated N237, was isolated from sediment soil of wetlands at Meonmulkkak, Dongbaek-Dongsan, the lava forest, Gotjawal, Jeju, Republic of Korea. Cells of strain N237 were Gram-stain-positive, non-motile rods and formed pale yellow colonies on ten-fold diluted Reasoner's 2A agar. Strain N237 contained iso-C16 : 0 and C17 : 1ω8c as the major fatty acids, MK-9(H4) as the predominant isoprenoid quinone and meso-DAP as the diamino acid in the peptidoglycan. It contained diphosphatidylglycerol, phosphatidylinositol polymannosides, an unidentified phospholipid, an unidentified aminophospholipid, an unidentified aminolipid, two unidentified glycophospholipids, three unidentified glycolipids and two unidentified lipids as polar lipids. The DNA G+C content was 68.1 mol%. Strain N237 formed a separate lineage in the genus Jatrophihabitans, as demonstrated by phylogenetic analysis based on 16S rRNA sequencing. It was most closely related to Jatrophihabitans soli KIS75-12 (95.6 % sequence similarity). The combined phenotypic, chemotaxonomic and phylogenetic characteristics supported the conclusion that strain N237 represents a novel species in the genus Jatrophihabitans, for which the name Jatrophihabitans telluris sp. nov. is proposed. The type strain is N237 (=KCTC 39922=NRRL B-65477).
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http://dx.doi.org/10.1099/ijsem.0.002639DOI Listing
April 2018

Characterization of a novel yeast species Metschnikowia persimmonesis KCTC 12991BP (KIOM G15050 type strain) isolated from a medicinal plant, Korean persimmon calyx (Diospyros kaki Thumb).

AMB Express 2017 Nov 10;7(1):199. Epub 2017 Nov 10.

Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, Republic of Korea.

The yeast strain Metschnikowia persimmonesis Kang and Choi et al., sp. nov. [type strain KIOM_G15050 = Korean Collection for Type Cultures (KCTC) 12991BP] was isolated from the stalk of native persimmon cultivars (Diospyros kaki Thumb) obtained from different regions of South Korea and was characterized phenotypically, genetically, and physiologically. The isolate grew between 4 and 40 °C (optimum temperature: 24-28 °C), pH 3-8 (pH optimum = 6.0), and in 0-4% NaCl solution (with optimal growth in absence of NaCl). It also exhibited strong antibiotic and antimicrobial activities. Morphologically, cells were characterized by the presence of long, needle-shaped ascospores. Based on 18S ribosomal DNA gene sequence analysis, the new species was found to belong to the genus Metschnikowia as a sister clade of Metschnikowia fructicola. We therefore conclude that this yeast isolate from D. kaki is a new member of the genus Metschnikowia and propose the name M. persimmonesis sp. nov. This strain has been deposited in the KCTC for future reference. This discovery provides a basis for future research on M. persimmonesis sp. nov., including its possible contribution to the medicinal properties of the host persimmon plant.
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http://dx.doi.org/10.1186/s13568-017-0503-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5681456PMC
November 2017

Sphingomonas gotjawalisoli sp. nov., isolated from soil of a lava forest.

Int J Syst Evol Microbiol 2017 Aug 18;67(8):2975-2979. Epub 2017 Aug 18.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do, 56212, Republic of Korea.

A bacterial strain, designated SN6-9T, was isolated from soil of the Gotjawal, lava forest, located in Jeju, Republic of Korea. Strain SN6-9T was Gram-stain-negative, motile, oxidase- and catalase-negative, yellow-pigmented and rod-shaped. It contained summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) as the major fatty acids, Q-10 as the predominant isoprenoid quinone, sym-homospermidine as the major polyamine and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, sphingoglycolipid and two unidentified phospholipids as the polar lipids. The DNA G+C content was 64.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the strain formed a separate lineage in the genus Sphingomonas. Based on the results from this polyphasic taxonomic study, it is concluded that strain SN6-9T represents a novel species in the genus Sphingomonas. The name Sphingomonas gotjawalisoli sp. nov. is proposed; the type strain is SN6-9T (=KCTC 52405T=NRRL B-65395T).
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http://dx.doi.org/10.1099/ijsem.0.002061DOI Listing
August 2017

Mucilaginibacter craterilacus sp. nov., isolated from sediment soil of a crater lake.

Int J Syst Evol Microbiol 2017 Aug 18;67(8):2891-2896. Epub 2017 Aug 18.

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do, 56212, Republic of Korea.

A novel bacterial strain, designated N60AT, was isolated from sediment soil of crater lake, Baekrokdam, Hallasan, Jeju, Republic of Korea. Cells of N60AT were Gram-reaction-negative, oxidase- and catalase-positive, non-motile rods and formed transparent white colonies on ten-fold diluted R2A agar. N60AT contained summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids and MK-7 as the predominant isoprenoid quinone. It contained phosphatidylethanolamine as the predominant polar lipid. The DNA G+C content was 44.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing revealed that N60AT formed a separate lineage in the genus Mucilaginibacter and that it was most closely related to Mucilaginibacter frigoritolerans FT22T (96.5 % sequence similarity). Phenotypic, chemotaxonomic and phylogenetic characteristics supported the conclusion that N60AT represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter craterilacus sp. nov. is proposed. The type strain is N60AT (=KCTC 52404T=NRRL B-65396T).
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http://dx.doi.org/10.1099/ijsem.0.002043DOI Listing
August 2017

Algibacter aquaticus sp. nov., a slightly alkaliphilic marine Flavobacterium isolated from coastal surface water.

Int J Syst Evol Microbiol 2017 Jul 12;67(7):2199-2204. Epub 2017 Jul 12.

Department of Marine Ecosystem Dynamics, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa, Chiba, Japan.

A rod-shaped, pale yellow-pigmented, aerobic, Gram-staining-negative strain with gliding motility, designated as strain SK-16T, was isolated from the coastal surface water of a semi-enclosed coastal inlet in Misaki, Japan. Analysis of 16S rRNA gene sequences revealed that SK-16T represented a member of the family Flavobacteriaceae and was closely related to the genus Algibacter, with sequence similarities ranging from 95.9 to 94.3 % to the type strains of species of the genus Algibacter. The major cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 0 G and iso-C15 : 0 3-OH. Major polar lipids were phosphatidylethanolamine, an aminophospholipid and an unidentified phospholipid. The DNA G+C content of SK-16T was 32.3 mol% and MK-6 was the only predominant isoprenoid quinone. On the basis of the results of phenotypic, genotypic, chemotaxonomic and phylogenetic studies, it was suggested that SK-16T represents a novel species within the genus Algibacter, with the newly proposed name Algibacteraquaticus. The type strain is SK-16T (=NBRC 110220T=KCTC 32974T).
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http://dx.doi.org/10.1099/ijsem.0.001924DOI Listing
July 2017

Actinotalea caeni sp. nov., isolated from a sludge sample of a biofilm reactor.

Int J Syst Evol Microbiol 2017 May 25;67(5):1595-1599. Epub 2017 May 25.

Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology (KRIBB), Daejeon 34141, Republic of Korea.

A polyphasic taxonomic study was carried out on strain EBR-4-2T isolated from a biofilm reactor in Korea. Cells of the strain were Gram-stain-positive, non-spore-forming, non-motile and rod-shaped. Comparative 16S rRNA gene sequence studies showed the clear affiliation of this strain to the Actinobacteria, and it had the highest pairwise sequence similarities with Actinotalea suaedae EGI 60002T (98.7 %), Actinotalea ferrariae CF5-4T (96.3 %) and Actinotalea fermentans DSM 3133T (96.2 %). Phylogenetic analysis based on the 16S rRNA gene sequences showed that the strain formed a clear phylogenetic lineage with the genus Actinotalea. The major fatty acids were identified as C15 : 0 anteiso, C16 : 0, C16 : 0 N alcohol, C15 : 1 anteiso A and C15 : 0 iso. The major cellular polar lipids were diphosphatidylglycerol, phosphatidylinositol mannoside, phosphatidylinositol and glycolipid. The peptidoglycan type was A4β containing l-Orn-d-Glu. The whole-cell-wall sugars were glucose and ribose. The respiratory quinone was identified as menaquinone MK-10(H4), and the genomic DNA G+C content was determined to be 74.8 mol %. Based on evidence from this polyphasic study, it is proposed that strain EBR-4-2T should be designated as representing a novel species named Actinotalea caeni sp. nov. The type stain is EBR-4-2T (=KCTC 33604T=JCM 30447T).
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http://dx.doi.org/10.1099/ijsem.0.001769DOI Listing
May 2017

Transmissibility of the Campaign for Colorectal Cancer Awareness in Korea Among Twitter Users.

Ann Coloproctol 2016 Oct 31;32(5):184-189. Epub 2016 Oct 31.

Department of Surgery, Seoul National University Bundang Hospital, Seoul National University College of Medicine, Seongnam, Korea.

Purpose: The Korean Society of Coloproctology holds its annual colorectal awareness month every September. This study analyzed the users and the contents of Korean tweets regarding colorectal cancer and estimated the transmissibility of the awareness campaign among Twitter users.

Methods: Prospective data collection was employed to accumulate Korean tweets containing the keywords "colorectal cancer," "colorectal cancer awareness campaign," "gold ribbon," and/or "love handle," from August 1 to September 30, 2014. Twitter users and contents were analyzed, and the credibility of information-sharing tweets throughout the study period was evaluated.

Results: In total, 10,387 tweets shared by 1,452 unique users were analyzed. As for users, 57.8% were individuals whereas 5.8% were organizations/communities; spambots accounted for a considerable percentage (36.4%). As for content, most tweets were spam (n = 8,736, 84.1%), repetitively advertising unverified commercial folk remedies, followed by tweets that shared information (n = 1,304, 12.6%) and non-information (n = 347, 3.3%). In the credibility assessment, only 80.6% of the information-sharing tweets were medically correct. After spam tweets had been excluded, a significant increase was seen in the percentage of information-sharing tweets (77.1% to 81.1%, P = 0.045) during the awareness campaign month.

Conclusion: Most Korean tweets regarding colorectal cancer during the study months were commercial spam tweets; informative public tweets accounted for an extremely small percentage. The transmissibility of the awareness campaign among Twitter users was questionable at best. To expand the reach of credible medical information on colorectal cancer, public health institutions and organizations must pay greater attention to social media.
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http://dx.doi.org/10.3393/ac.2016.32.5.184DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5108665PMC
October 2016

Nocardioides baekrokdamisoli sp. nov., isolated from soil of a crater lake.

Int J Syst Evol Microbiol 2016 Oct 27;66(10):4231-4235. Epub 2016 Jul 27.

University of Science and Technology (UST), 217 Gajeong-ro, Yuseong-gu, Daejeon 34113, Republic of Korea.

A novel actinobacterial strain, B2-12T, was isolated from soil of a crater lake, Baekrokdam, Hallasan, Jeju, Republic of Korea. Cells of strain B2-12T were Gram-stain-positive, non-motile, non-spore-forming and coccoid to short-rod-shaped. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that strain B2-12T belonged to the genus Nocardioides and shared highest sequence similarity with 'Nocardioidespaucivorans' KIS31-44 (98.4 %). The predominant isoprenoid quinone was MK-8(H4). The major fatty acids of strain B2-12T were C16 : 1 (ω7c and/or ω6c), summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl), C17 : 0 10-methyl, iso-C16 : 0, C16 : 0 and C17 : 1ω6c. The diagnostic diamino acid in the cell-wall peptidoglycan was ll-diaminopimelic acid. It contained diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol as the polar lipids. The DNA G+C content was 67.0 mol%. Based on phylogenetic, chemotaxonomic and phenotypic data, 16S rRNA gene sequence comparisons and DNA-DNA hybridization data, strain B2-12T represents a novel species in the genus Nocardioides, for which the name Nocardioidesbaekrokdamisolisp. nov. is proposed. The type strain is B2-12T (=KCTC 39748T=NRRL B-65313T=DSM 100725T).
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http://dx.doi.org/10.1099/ijsem.0.001340DOI Listing
October 2016

Cribrihabitans pelagius sp. nov., a marine alphaproteobacterium isolated from seawater.

Int J Syst Evol Microbiol 2016 Sep 23;66(8):3195-3200. Epub 2016 May 23.

Korea University of Science and Technology (UST), 217 Gajeong-ro, Yuseong-gu, Daejeon 305-350, Republic of Korea.

A Gram-stain-negative, strictly aerobic, cream-coloured, motile, chemoheterotrophic, rod-shaped bacterium, designated strain KMU-32T, was isolated from seawater at Najeong Beach in Korea. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that the novel isolate was affiliated with the family Rhodobacteraceae of the class Alphaproteobacteria and that it showed highest sequence similarity (98.2 %) to Cribrihabitans neustonicus CC-AMHB-3T. The DNA-DNA relatedness value between strain KMU-32T and C. neustonicus CC-AMHB-3T was 48.5 ± 4 %. The DNA G+C content of strain KMU-32T was determined to be 63.7 mol%. Ubiquinone 10 (Q-10) was the sole respiratory quinone. The predominant cellular fatty acid was C18 : 1ω7c. Strain KMU-32T had diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, an unidentified aminolipid and an unidentified lipid as polar lipids. From the distinct phylogenetic position and combination of genotypic and phenotypic characteristics, strain KMU-32T is considered to represent a novel species of the genus Cribrihabitans, for which the name Cribrihabitans pelagius sp. nov. is proposed. The type strain is KMU-32T (= KCTC 42981T = NBRC 111834T).
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http://dx.doi.org/10.1099/ijsem.0.001171DOI Listing
September 2016

Paenibacillus baekrokdamisoli sp. nov., isolated from soil of crater lake.

Int J Syst Evol Microbiol 2016 May 10;66(5):1937-1942. Epub 2016 Feb 10.

University of Science and Technology (UST), 217 Gajeong-ro, Yuseong-gu, Daejeon, 34113, Republic of Korea.

A novel bacterial strain, Back-11T, was isolated from sediment soil of a crater lake, Baekrokdam, Hallasan, Jeju, Republic of Korea. Cells of strain Back-11T were Gram-stain-positive, motile, endospore-forming, rod-shaped and oxidase- and catalase-positive. It contained anteiso-C15 : 0 as the major fatty acid, menaquinone-7 (MK-7) as the predominant isoprenoid quinone, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and four unidentified aminophospholipids as the main polar lipids, and meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. The DNA G+C content was 45.3 mol%. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that strain Back-11T was most closely related to Paenibacillus taihuensis THMBG22T (95.5 % similarity) and fell into a clade in the genus Paenibacillus. On the basis of phylogenetic, chemotaxonomic and phenotypic data, strain Back-11T represents a novel species in the genus Paenibacillus, for which the name Paenibacillus baekrokdamisoli sp. nov. is proposed. The type strain is Back-11T ( = KCTC 33723T = CECT 8890T).
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http://dx.doi.org/10.1099/ijsem.0.000968DOI Listing
May 2016

Complete genome sequence of the Aneurinibacillus soli CB4(T) from soil of mountain.

J Biotechnol 2016 Mar 22;221:116-7. Epub 2016 Jan 22.

Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.

Aneurinibacillus soli CB4(T) is a Gram-positive, motile rods and strictly aerobic bacterium. Here we present the 4.1-Mb genome sequence of the type strain of A. soli CB4(T), which consists a chromosome for the total 4,116,770bp with a G+C content of 45.9mol%. Genes related to diverse secondary metabolites were detected in this genome. The genomic data is expected to understand the possibility of industrial and commercial use by strain CB4(T).
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http://dx.doi.org/10.1016/j.jbiotec.2016.01.027DOI Listing
March 2016

Complete genome sequence of the Variibacter gotjawalensis GJW-30(T) from soil of lava forest, Gotjawal.

J Biotechnol 2016 Jan 4;218:64-5. Epub 2015 Dec 4.

Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea.

Variibacter gotjawalensis GJW-30(T) is a gram-negative, strictly aerobic bacterium to form pleomorphic. Here we present the 4.5-Mb genome sequence of the type strain of V. gotjawalensis GJW-30(T), which consists a chromosome for the total 4,586,237bp with a G+C content of 62.2mol%. This is the first report of the full genome sequence of a species of the novel genus Variibacter isolated from Gotjawal, a unique area in Jeju, Republic of Korea.
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http://dx.doi.org/10.1016/j.jbiotec.2015.11.027DOI Listing
January 2016

Weissella jogaejeotgali sp. nov., isolated from jogae jeotgal, a traditional Korean fermented seafood.

Int J Syst Evol Microbiol 2015 Dec 24;65(12):4674-4681. Epub 2015 Sep 24.

Department of Food Science and Biotechnology, Graduate School of Biotechnology, Kyung Hee University, Yongin 446-701, South Korea.

Strain FOL01T was isolated from traditionally fermented Korean jogae jeotgal (fermented clams). Phylogenetic sequence analysis of the 16S rRNA gene from FOL01T revealed that it is closely related to Weissella thailandensis FS61-1T and Weissella paramesenteroides ATCC 33313T with 99.39 % and 98.50 % 16S rRNA gene sequence similarities, respectively. API and VITEK analyses showed that strain FOL01T could be separated from its nearest phylogenetic relatives with respect to carbohydrate fermentation and antibiotic resistance. Subsequent amplified rRNA gene restriction analysis of 16S rRNA genes and HaeIII-restriction enzyme profiling of genomic DNAs revealed different band patterns. In addition, DNA-DNA hybridization of genomic DNAs showed 63.9 % relatedness. Analysis of the composition of cellular fatty acids confirmed that strain FOL01T differs from its close relatives and supports the proposal to assign this organism to a novel species of the genus Weissella. Based on these results, strain FOL01T could be classified as a novel species of the genus Weissella, for which the name Weissella jogaejeotgali sp. nov. is proposed. The type strain is FOL01T ( = KCCM 43128T = JCM 30589T).
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http://dx.doi.org/10.1099/ijsem.0.000631DOI Listing
December 2015

Fabibacter misakiensis sp. nov., a marine bacterium isolated from coastal surface water.

Int J Syst Evol Microbiol 2015 Oct;65(10):3276-3280

Atmosphere and Ocean Research Institute, University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8564, Japan.

A slightly curved-rod-shaped, pink-pigmented, Gram-stain-negative, aerobic bacterial strain with gliding motility, designated SK-8T, was isolated from coastal surface water of Misaki, Japan. Phylogenetic trees generated using 16S rRNA gene sequences revealed that strain SK-8T belonged to the genus Fabibacter and showed 96.0 % sequence similarity to the type strain of the most closely related species, Fabibacter pacificus DY53T. The novel isolate was phenotypically and physiologically different from previously described strains. The major cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0 and iso-C17 : 0 3-OH. Major polar lipids were phosphatidylethanolamine, two aminophospholipids and an unidentified phospholipid. The DNA G+C content was 39.1 mol% and MK-7 was the only predominant isoprenoid quinone. On the basis of this taxonomic study employing a polyphasic approach, it was suggested that strain SK-8T represents a novel species of the genus Fabibacter, with the newly proposed name Fabibacter misakiensis sp. nov. The type strain is SK-8T ( = NBRC 110216T = KCTC 32969T).
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http://dx.doi.org/10.1099/ijsem.0.000405DOI Listing
October 2015