151
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Ren TT, Jin CZ, Jin FJ, Li T, Kim CJ, Oh HM, Lee HG, Jin L. Flavihumibacter profundi sp. nov., isolated from eutrophic freshwater sediment. J Microbiol 2018; 56:467-471. [PMID: 29956122 DOI: 10.1007/s12275-018-7567-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2017] [Revised: 04/30/2018] [Accepted: 05/01/2018] [Indexed: 11/26/2022]
Abstract
A Gram-stain-positive, aerobic, non-motile, non-spore-forming, and rod-shaped bacterium, designated strain CHu64-6-1T, was isolated from a 67-cm-long sediment core collected from the Daechung Reservoir at a water depth of 17-m in Daejeon, Republic of Korea. Comparative 16S rRNA gene sequence studies placed the new isolate in the class Sphingobacteriia, and the isolate is notably most closely related to Flavihumibacter sediminis CJ663T (98.1% similarity), Flavihumibacter solisilvae 3-3T (97.8%), Flavihumibacter petaseus T41T (97.5%), Flavihumibacter cheonanensis WS16T (97.4%), and Flavihumibacter stibioxidans YS-17T (97.2%). The cells of strain CHu64-6-1T formed yellow colonies on R2A agar and contained MK-7 as the only menaquinone, phosphatidylethanolamine, an unidentified phospholipid, and two unidentified aminolipids as the major polar lipids, and C15:0 iso, C17:0 iso 3-OH, C15:1 iso G, and C16:1ω5c as the major fatty acids (> 5%). The DNA G + C content of the genome was determined to be 46.5 mol%. The DNA-DNA hybridization values of strain CHu64-6-1T with F. sediminis CJ663T, F. solisilvae 3-3T, F. petaseus T41T, F. cheonanensis WS16T, and F. stibioxidans YS-17T were 12.4-33.2%. Based on the combined genotypic and phenotypic data, we propose that strain CHu64-6-1T represents a novel species of the genus Flavihumibacter, for which the name Flavihumibacter profundi sp. nov. is proposed. The type strain is CHu64-6-1T (= KCTC 62290T = CCTCC AB 2018060T).
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Affiliation(s)
- Ting-Ting Ren
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, P. R. China
| | - Chun-Zhi Jin
- Industrial Biomaterial Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
- Department of Bio-Molecular Science, KRIBB School of Bioscience, Korea University of Science and Technology (UST), Daejeon, 34113, Republic of Korea
| | - Feng-Jie Jin
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, P. R. China
| | - Taihua Li
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, P. R. China
| | - Chang-Jin Kim
- Industrial Biomaterial Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
- Department of Bio-Molecular Science, KRIBB School of Bioscience, Korea University of Science and Technology (UST), Daejeon, 34113, Republic of Korea
| | - Hee-Mock Oh
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
| | - Hyung-Gwan Lee
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
| | - Long Jin
- College of Biology and the Environment, Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, P. R. China.
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152
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Choi J, Jang JH, Cha S, Lee D, Seo T. Thalassorhabdus aurantiaca gen. nov., sp. nov., a new member of the family Flavobacteriaceae isolated from seawater in South Korea. Antonie van Leeuwenhoek 2018; 111:2185-2193. [PMID: 29948434 DOI: 10.1007/s10482-018-1111-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 06/06/2018] [Indexed: 11/25/2022]
Abstract
A novel Gram-negative, orange pigmented, strictly aerobic bacterium, designated strain IP9T, was isolated from seawater at the sea shore of Incheon Eulwang-ri beach, South Korea. Cells of strain IP9T were observed to be straight or slightly curved rods and colonies to be round and convex. Strain IP9T was found to be catalase and oxidase positive, and non-motile. Growth was observed in the temperature range of 10-37 °C (optimum at 30 °C), pH range of 6-10 (optimum at pH 7-8) and salt concentration range of 0-7% (w/v) NaCl (optimum at 0-1%). On the basis of 16S rRNA gene sequence similarity and phylogenetic analysis, strain IP9T was found to be related to the members of the family Flavobacteriaceae, being closely related to Hwangdonia seohaensis KCTC 32177T (95.3% sequence similarity). The DNA G + C content of the novel strain was determined to be 39.1 mol%. The major polar lipids were found to be phosphatidylethanolamine, three unidentified aminoglycolipids and two unidentified glycolipids. The major fatty acids (> 10%) were identified as iso-C15:0 and iso-C17:0 3-OH. The predominant quinone was found to be menaquinone 6 (MK-6). Based on the biochemical, phylogenetic and physiological data, we conclude that strain IP9T (= KCTC 52523T = JCM 31732T) represents the type species of a novel genus of the family Flavobacteriaceae for which the name Thalassorhabdus aurantiaca gen. nov., sp. nov. is proposed.
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Affiliation(s)
- Jiwon Choi
- Department of Life Science, Dongguk University-Seoul, Goyang, 10326, Republic of Korea
| | - Jun Hyeong Jang
- Department of Life Science, Dongguk University-Seoul, Goyang, 10326, Republic of Korea
| | - Seho Cha
- Department of Life Science, Dongguk University-Seoul, Goyang, 10326, Republic of Korea
| | - Dongwook Lee
- Department of Life Science, Dongguk University-Seoul, Goyang, 10326, Republic of Korea
| | - Taegun Seo
- Department of Life Science, Dongguk University-Seoul, Goyang, 10326, Republic of Korea.
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153
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Streptomyces dioscori sp. nov., a Novel Endophytic Actinobacterium Isolated from Bulbil of Dioscorea bulbifera L. Curr Microbiol 2018; 75:1384-1390. [DOI: 10.1007/s00284-018-1534-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Accepted: 06/20/2018] [Indexed: 10/28/2022]
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154
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Jin L, Wu X, Ko SR, Jin FJ, Li T, Ahn CY, Oh HM, Lee HG. Description of Hymenobacter daejeonensis sp. nov., isolated from grass soil, based on multilocus sequence analysis of the 16S rRNA gene, gyrB and tuf genes. Antonie van Leeuwenhoek 2018; 111:2283-2292. [PMID: 29934694 DOI: 10.1007/s10482-018-1119-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2018] [Accepted: 06/16/2018] [Indexed: 11/24/2022]
Abstract
A polyphasic taxonomic study was carried out on strains PB105T and PB108 isolated from a grass soil in Korea. The cells of the strains were Gram-stain negative, non-spore-forming, non-motile, and rod-shaped. Comparative 16S rRNA gene sequence studies showed a clear affiliation of these strains with Bacteroidetes, which showed high pairwise sequence similarities with Hymenobacter algoricola VUG-A23aT (99.2%), Hymenobacter fastidiosus VUG-A124aT (97.4%), and Hymenobacter daecheongensis Dae14T (96.9%). The phylogenetic analysis based on 16S rRNA gene sequences showed that the strains formed a clear phylogenetic lineage with the genus Hymenobacter. The major fatty acids were identified as C15:0 iso, C15:0 anteiso, C16:1 ω5c, C15:0 iso 3-OH, C17:0 iso 3-OH, summed feature 3 (C16:1 ω6c and/or C16:1 ω7c/t), and summed feature 4 (C17:1 anteiso B and/or C17:1 iso I). The major cellular polar lipids were identified as phosphatidylethanolamine, an unidentified aminolipid, and two unidentified lipids. The respiratory quinone was identified as MK-7 and the genomic DNA G+C content was determined to be 64.5 mol% for strain PB105T and 64.1 mol% for strain PB108. DNA-DNA hybridization value of type strain PB105T with H. algoricola VUG-A23aT was 32.3% (reciprocal 39.2). Based on the combined genotypic and phenotypic data, we propose that strains PB105T and PB108 represent a novel species of the genus Hymenobacter, for which the name Hymenobacter daejeonensis sp. nov. is proposed. The type strain is PB105T (= KCTC 52579T = JCM 31885T).
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Affiliation(s)
- Long Jin
- Co-Innovation Centre for Sustainable Forestry in Southern China College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210-037, China
| | - Xuewen Wu
- Co-Innovation Centre for Sustainable Forestry in Southern China College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210-037, China
| | - So-Ra Ko
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
| | - Feng-Jie Jin
- Co-Innovation Centre for Sustainable Forestry in Southern China College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210-037, China
| | - Taihua Li
- Co-Innovation Centre for Sustainable Forestry in Southern China College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210-037, China
| | - Chi-Yong Ahn
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea
| | - Hee-Mock Oh
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea.
| | - Hyung-Gwan Lee
- Cell Factory Research Centre, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea.
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155
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Khan IU, Habib N, Xiao M, Devi AM, Habib M, Hejazi MS, Salam N, Zhi XY, Li WJ. Anoxybacillus sediminis sp. nov., a novel moderately thermophilic bacterium isolated from a hot spring. Antonie van Leeuwenhoek 2018; 111:2275-2282. [PMID: 29931494 DOI: 10.1007/s10482-018-1118-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2018] [Accepted: 06/16/2018] [Indexed: 11/28/2022]
Abstract
A Gram-stain positive, moderately thermophilic, aerobic, spore-forming and rod-shaped bacterium, designated YIM 73012T, was isolated from a sediment sample collected from a hot spring located in Tibet, China, and was characterized by using a polyphasic taxonomy approach. The strain is oxidase positive and catalase negative. Growth occurred at 37-65 °C (optimum, 45-50 °C), at pH 6.0-8.5 (optimum, pH 7.0-7.5) and with 0.5-3.5% NaCl (optimum, 0.5-1.0%, w/v). The major fatty acids were iso-C15:0, iso-C16:0 and C16:0. The major polar lipids comprised of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine and phosphatidylglycerol. The cell wall peptidoglycan contained meso-diaminopimelic acid. The respiratory quinone was MK-7. The G+C content of genomic DNA was 43.6 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain YIM 73012T forms a distinct lineage with respect to the genus Anoxybacillus in the family Bacillaceae. Based on 16S rRNA gene sequence identities the closely related phylogenetic neighbours are Anoxybacillus caldiproteolyticus DSM 15730T (96.7%) and Saccharococcus thermophilus DSM 4749T (96.6%). Strain YIM 73012T was distinguishable from the closely related reference strains by the differences in phenotypic, chemotaxonomic and genotypic characteristics, and represents a novel species of the genus Anoxybacillus, for which the name Anoxybacillus sp. nov. is proposed. The type species is Anoxybacillus sediminis sp. nov., with the type strain YIM 73012T (= KCTC 33884T = DSM 103835T).
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Affiliation(s)
- Inam Ullah Khan
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China.,Department of Biological Sciences, Gomal University, Dera Ismail Khan, KPK, Pakistan
| | - Neeli Habib
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China
| | - Min Xiao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China
| | - Asem Mipeshwaree Devi
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China
| | - Maham Habib
- Department of Botany, University of Malakand, Chakdara, Dir Lower, KPK, Pakistan
| | - Mohammad Saeid Hejazi
- Faculty of Pharmacy, Tabriz University of Medical Sciences, Tabriz, Iran.,Molecular Medicine Research Center, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Nimaichand Salam
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China
| | - Xiao-Yang Zhi
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China.
| | - Wen-Jun Li
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China. .,State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China.
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156
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Zhao J, Li D, Jiang H, Han L, Jiang S, Guo X, Wang X, Xiang W. Streptomyces xiangluensis sp. nov., a novel actinomycete isolated from soil. Antonie van Leeuwenhoek 2018; 111:2249-2256. [DOI: 10.1007/s10482-018-1114-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Accepted: 06/13/2018] [Indexed: 11/30/2022]
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157
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Tepidibaculum saccharolyticum gen. nov., sp. nov. a moderately thermophilic, anaerobic, spore-forming bacterium isolated from a terrestrial hot spring. Extremophiles 2018; 22:761-768. [DOI: 10.1007/s00792-018-1036-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Accepted: 06/12/2018] [Indexed: 10/14/2022]
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158
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Behera P, Mahapatra M, Seuylemezian A, Vaishampayan P, Ramana VV, Joseph N, Joshi A, Shouche Y, Suar M, Pattnaik AK, Rastogi G. Taxonomic description and draft genome of Pseudomonas sediminis sp. nov., isolated from the rhizospheric sediment of Phragmites karka. J Microbiol 2018; 56:458-466. [DOI: 10.1007/s12275-018-7549-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2017] [Revised: 04/12/2018] [Accepted: 04/16/2018] [Indexed: 10/14/2022]
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159
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Can Bradyrhizobium strains inoculation reduce water deficit effects on peanuts? World J Microbiol Biotechnol 2018; 34:87. [DOI: 10.1007/s11274-018-2474-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Accepted: 06/05/2018] [Indexed: 12/24/2022]
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160
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Park S, Park JM, Lee JS, Oh TK, Yoon JH. Pseudoruegeria litorisediminis sp. nov., a novel lipolytic bacterium of the family Rhodobacteraceae isolated from a tidal flat. Arch Microbiol 2018; 200:1183-1189. [PMID: 29881874 DOI: 10.1007/s00203-018-1539-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2018] [Revised: 05/31/2018] [Accepted: 06/01/2018] [Indexed: 11/29/2022]
Abstract
A lipolytic bacterial strain, designated BPTF-M5T, was isolated from a tidal flat sediment of the Yellow Sea in Republic of Korea, and identified by a polyphasic taxonomic approach. It was Gram negative, aerobic, non-motile and rod shaped. Strain BPTF-M5T grew optimally at 30 °C and in the presence of 2.0-3.0% (w/v) NaCl. A neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain BPTF-M5T fell within the clade comprising the type strains of Pseudoruegeria species. The novel strain exhibited the highest 16S rRNA gene sequence similarity value (98.6%) to Pseudoruegeria marinistellae SF-16T. Strain BPTF-M5T exhibited sequence similarities of 97.0-98.5% to the type strains of five other Pseudoruegeria species and of less than 96.1% to other recognized species. Strain BPTF-M5T contained Q-10 as the predominant ubiquinone and C18:1 ω7c as the major fatty acid. Phosphatidylglycerol, one unidentified aminolipid, one unidentified lipid and one unidentified glycolipid were detected as major polar lipids in the novel strain. The DNA G + C content of strain BPTF-M5T was 63.3 mol%. DNA-DNA relatedness values between strain BPTF-M5T and the type strains of the six Pseudoruegeria species were 11.0-24.3%. The phenotypic properties of strain BPTF-M5T were clearly distinguished from those of the type strains of the six Pseudoruegeria species. Based on the polyphasic data presented, strain BPTF-M5T represents a novel species of the genus Pseudoruegeria, for which the name Pseudoruegeria litorisediminis sp. nov. is proposed. The type strain is BPTF-M5T (= KCTC 62420T = KACC 19613T = NBRC 113189T).
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Affiliation(s)
- Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Ji-Min Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Jung-Sook Lee
- Korean Collection for Type Cultures (KCTC), Korea Research Institute of Bioscience and Biotechnology (KRIBB), 181 Ipsin-gil, Jeongeup, Republic of Korea
| | - Tae-Kwnag Oh
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Daejeon, Republic of Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea.
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161
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Zhongshania ponticola sp. nov., a novel lipolytic bacterium of the class Gammaproteobacteria isolated from seawater. Arch Microbiol 2018; 200:1177-1182. [PMID: 29881873 DOI: 10.1007/s00203-018-1538-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Revised: 05/31/2018] [Accepted: 06/01/2018] [Indexed: 10/14/2022]
Abstract
A bacterial strain, designated GM-8T, which was isolated from seawater around Pohang in Republic of Korea, was subjected to a polyphasic taxonomic study. It was lipolytic, Gram-stain-negative, aerobic, non-motile and coccoid, ovoid, or rod-shaped. Strain GM-8T grew optimally at 30 °C and in the presence of 2.0-3.0% (w/v) NaCl. The phylogenetic trees of 16S rRNA gene sequences based on three algorithms showed that strain GM-8T joined the clade comprising the type strains of Zhongshania species. The novel strain exhibited the highest 16S rRNA gene sequence similarity value (98.6%) to Zhongshania borealis CL-AS9T and sequence similarities of 97.7-98.3% to the type strains of three other Zhongshania species. Strain GM-8T contained Q-8 as the predominant ubiquinone and C17:1 ω8c, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), and C18:1 ω7c as the major fatty acids. Phosphatidylglycerol and phosphatidylethanolamine were major polar lipids found in strain GM-8T and the type strain of Zhongshania antarctica. The DNA G + C content of strain GM-8T was 50.9 mol%. Mean DNA-DNA relatedness values between strain GM-8T and the type strains of four other Zhongshania species were 13.3-20.3%. Its differential phenotypic traits, together with the phylogenetic and genetic evidences, revealed that strain GM-8T is distinct from recognized species of the genus Zhongshania. On the basis of the data presented, strain GM-8T represents a novel species of the genus Zhongshania, for which the name Zhongshania ponticola sp. nov. is proposed. The type strain is GM-8T (= KCTC 62425T = KACC 19616T = NBRC 113193T).
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162
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Hymenobacter segetis sp. nov., isolated from soil. Arch Microbiol 2018; 200:1167-1175. [PMID: 29876587 DOI: 10.1007/s00203-018-1536-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Revised: 05/09/2018] [Accepted: 05/29/2018] [Indexed: 10/14/2022]
Abstract
A polyphasic taxonomic study was performed on a novel strain designated as S7-3-11T, which was isolated from soil of the Gyeongsangnam-do province in Republic of Korea. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain S7-3-11T belongs to the genus Hymenobacter and is most closely related to Hymenobacter ruber PB156T (97.9%), Hymenobacter daeguensis 16F3Y-2T (97.8%), Hymenobacter glaciei VUG-A130T (97.7%), Hymenobacter soli PB17T (97.5%), Hymenobacter terrae DG7AT (97.5%), and Hymenobacter antarcticus VUG-A42aaT (97.3%). However, DNA-DNA hybridization results showed less than 50% relatedness with respect to the type strains of the six most closely related species. The DNA G + C content of strain S7-3-11T was 60.2 mol%. MK-7 was identified as the predominant respiratory quinone, and summed feature 3 (C16:1 ω7c/C16:1 ω6c; 21.5%), C15:0 iso (16.8%), C15:0 anteiso (16.2%), and C15:1 iso G (10.8%) were the major fatty acids. Phosphatidylethanolamine, an unidentified aminolipid, and an unidentified aminophospholipid were detected as major polar lipids. On the basis of the polyphasic evidence presented, strain S7-3-11T is considered to represent a novel species of the genus Hymenobacter, for which the name Hymenobacter segetis sp. nov. is proposed. The type strain is S7-3-11T (= KCTC 52732T = JCM 32197T).
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163
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Description of Lacinutrix salivirga sp. nov., a marine member of the family Flavobacteriaceae isolated from seawater. Arch Microbiol 2018; 200:1159-1165. [PMID: 29872888 DOI: 10.1007/s00203-018-1533-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 05/05/2018] [Accepted: 05/28/2018] [Indexed: 10/14/2022]
Abstract
A novel marine bacterium, designated KMU-57T, was isolated from seawater collected from the Republic of Korea, and it was characterized using polyphasic taxonomic methods. Strain KMU-57T 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 27137T. The DNA-DNA relatedness value between strain KMU-57T and L. jangbogonensis PAMC 27137T was 37.8 ± 2.2%. The DNA G + C content of strain KMU-57T 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-57T (= KCTC 52878T = NBRC 112845T).
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164
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Chaudhary DK, Dahal RH, Kim J. Sphingomonas montis sp. nov., Isolated from Forest Soil of Low-Altitude Mountain. Curr Microbiol 2018; 75:1299-1305. [PMID: 29872901 DOI: 10.1007/s00284-018-1524-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 06/01/2018] [Indexed: 10/14/2022]
Abstract
Strain DRJ-4T was isolated from forest soil of a low-altitude mountain and was taxonomically characterized by a polyphasic approach. This strain was yellow-colored, Gram-stain-negative, strictly aerobic, motile, non-sporulating, catalase-positive, oxidase-negative, and rod-shaped. Strain DRJ-4T was able to grow at 20-42 °C, pH 6.5-10.0, and 0-1.0% (w/v) NaCl concentration. Based on the 16S rRNA gene sequence analysis, strain DRJ-4T formed a distinct lineage within the members of the family Sphingomonadaceae of the phylum Proteobacteria and moderately related to Sphingomonas faucium E62-3T (96.67% sequence similarity), 'Sphingosinicella ginsenosidimutans' BS11 (96.45% sequence similarity), Sphingosinicella vermicomposti YC7378T (96.27% sequence similarity), and Sphingobium boeckii 469T (95.82% sequence similarity). The sole respiratory quinone was ubiquinone Q-10 and the major polyamine was homospermidine. The polar lipid profile revealed the presence of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine, phosphatidylmonomethylethanolamine, and sphingoglycolipid. The predominant fatty acids of strain DRJ-4T were summed feature 8 (C18:1ω7c and/or C18:1ω6c), summed feature 3 (C16:1ω7c and/or C16:1ω6c), C16:0, and C17:1ω6c. The genomic DNA G + C was 64.0 mol %. On the basis of phenotypic, genotypic, and phylogenetic analysis, strain DRJ-4T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas montis sp. nov. is proposed. The type strain of Sphingomonas montis is DRJ-4T (= KEMB 9005-708T = NBRC 113142T).
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Affiliation(s)
- Dhiraj Kumar Chaudhary
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon, Gyeonggi-Do, 16227, South Korea
| | - Ram Hari Dahal
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon, Gyeonggi-Do, 16227, South Korea
| | - Jaisoo Kim
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon, Gyeonggi-Do, 16227, South Korea.
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Máthé I, Tóth E, Mentes A, Szabó A, Márialigeti K, Schumann P, Felföldi T. A new Rhizobium species isolated from the water of a crater lake, description of Rhizobium aquaticum sp. nov. Antonie van Leeuwenhoek 2018; 111:2175-2183. [DOI: 10.1007/s10482-018-1110-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2018] [Accepted: 06/01/2018] [Indexed: 11/28/2022]
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166
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Root-associated bacteria influencing mycelial growth of Tricholoma matsutake (pine mushroom). J Microbiol 2018; 56:399-407. [PMID: 29858828 DOI: 10.1007/s12275-018-7491-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2017] [Revised: 02/19/2018] [Accepted: 04/06/2018] [Indexed: 10/14/2022]
Abstract
Tricholoma matsutake is an ectomycorrhizal fungus usually associated with Pinus densiflora in South Korea. Fruiting bodies (mushrooms) of T. matsutake are economically important due to their attractive aroma; yet, T. matsutake is uncultivatable and its habitat is rapidly being eradicated due to global climate change. Root-associated bacteria can influence the growth of ectomycorrhizal fungi that co-exist in the host rhizosphere and distinctive bacterial communities are associated with T. matsutake. In this study, we investigated how these bacterial communities affect T. matsutake growth by isolating bacteria from the roots of P. densiflora colonized by ectomycorrhizae of T. matsutake and co-culturing rootassociated bacteria with T. matsutake isolates. Thirteen species of bacteria (27 isolates) were found in pine roots, all belonging to the orders Bacillales or Burkholderiales. Two species in the genus Paenibacillus promoted the growth of T. matsutake in glucose poor conditions, likely using soluble metabolites. In contrast, other bacteria suppressed the growth of T. matsutake using both soluble and volatile metabolites. Antifungal activity was more frequent in glucose poor conditions. In general, pine rhizospheres harbored many bacteria that had a negative impact on T. matsutake growth and the few Paenibacillus species that promoted T. matsutake growth. Paenibacillus species, therefore, may represent a promising resource toward successful cultivation of T. matsutake.
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167
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Lee JW, Kim YE, Kang MS, Lee KE, Lee EY, Park SJ. Paenibacillus albilobatus sp. nov., isolated from acidic soil on Jeju Island. J Microbiol 2018; 56:393-398. [DOI: 10.1007/s12275-018-8158-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Revised: 04/12/2018] [Accepted: 04/16/2018] [Indexed: 11/29/2022]
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168
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Krishnamoorthy R, Kwon SW, Kumutha K, Senthilkumar M, Ahmed S, Sa T, Anandham R. Diversity of culturable methylotrophic bacteria in different genotypes of groundnut and their potential for plant growth promotion. 3 Biotech 2018; 8:275. [PMID: 29868313 PMCID: PMC5971017 DOI: 10.1007/s13205-018-1291-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Accepted: 05/17/2018] [Indexed: 11/25/2022] Open
Abstract
This study aimed at documenting the culturable methylotrophic bacterial diversity across different groundnut genotypes and evaluating their effect on the growth of groundnut. 80 methylotrophic bacterial isolates were obtained from the phyllosphere of 15 groundnut genotypes collected from Tamil Nadu, India. The bacterial isolates were identified through sequencing of the 16S rDNA and were tested for their plant growth-promoting properties. Groundnut seeds were inoculated with methylotrophic bacteria and their effect on growth was evaluated via in vitro and pot experiments. Molecular identification revealed that the isolates belonged to 30 different species. A higher diversity of methylotrophic bacteria at genus and species level was found in groundnut genotype TMV2. Shannon diversity index was the highest in genotype TMV7, followed by VRI2 and TMV2. Similarly, geographical location also influenced the diversity of methylotrophic bacteria. In vitro seed germination assay revealed that methylotrophic isolates enhanced root growth and improved formation of root hair. The radicle length of treated seeds ranged from 2.7 to 8.4 cm. A higher shoot length was observed in the plants from seeds treated with Methylobacterium radiotolerans VRI8-A4 (27.3 cm), followed by Pseudomonas psychrotolerans TMV13-A1 (26.3 cm) and Bacillus aryabhattai K-CO3-3 (23 cm). The findings of this study strongly suggest that beneficial methylotrophic bacteria associated with the phyllosphere of groundnut play a major role in regulating plant growth.
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Affiliation(s)
- R. Krishnamoorthy
- Department of Agricultural Microbiology, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai, Tamil Nadu 625 104 India
| | - Soon-Wo Kwon
- Korean Agricultural Culture Collection, National Academy of Agricultural Science, Rural Development Administration, Jeonju, 565 851 Republic of Korea
| | - K. Kumutha
- Department of Agricultural Microbiology, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai, Tamil Nadu 625 104 India
| | - M. Senthilkumar
- Department of Agricultural Microbiology, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu India
| | - S. Ahmed
- Department of Environmental and Biological Chemistry, Chungbuk National University, Cheongju, Chungbuk Republic of Korea
| | - Tongmin Sa
- Department of Environmental and Biological Chemistry, Chungbuk National University, Cheongju, Chungbuk Republic of Korea
| | - R. Anandham
- Department of Agricultural Microbiology, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai, Tamil Nadu 625 104 India
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169
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Flavobacterium ureilyticum sp. nov., a novel urea hydrolysing bacterium isolated from stream bank soil. Antonie van Leeuwenhoek 2018; 111:2131-2139. [PMID: 29804222 DOI: 10.1007/s10482-018-1105-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2017] [Accepted: 05/21/2018] [Indexed: 10/16/2022]
Abstract
A novel bacterium designated S-42T was isolated from stream bank soil. Cells were found to be aerobic, Gram staining-negative, oxidase-positive, catalase-negative, non-motile, non-spore-forming, rod-shaped, and yellow-pigmented. The strain can grow at 15-35 °C, pH 6.0-10.0, and at 0.5% (w/v) NaCl concentration. Urea was hydrolysed. Flexirubin-type pigments were absent. Phylogenetic analysis based on its 16S rRNA gene sequence revealed that strain S-42T formed a lineage within the family Flavobacteriaceae of the phylum Bacteroidetes that is distinct from various species of the genus Flavobacterium, including Flavobacterium maotaiense T9T (97.6% sequence similarity), Flavobacterium hibernum ATCC 51468T (97.4%), and Flavobacterium granuli Kw05T (97.1%). The 16S rRNA gene sequences identity between strain S-42T and other members of the genus Flavobacterium were < 97.0%. Strain S-42T contains MK-6 as sole respiratory quinone. The major polar lipids were identified as phosphatidylethanolamine and an unidentified aminolipid. The major cellular fatty acids were identified as iso-C15:0, summed feature 3 (C16:1ω7c and/or C16: 1ω6c), C16:0, anteiso-C15:0, iso-C17:0 3-OH, iso-C15:0 3-OH, and iso-C15:1 G. The DNA G + C content of the strain was 35.8 mol%. The polyphasic characterization indicated that strain S-42T represents a novel species of the genus Flavobacterium, for which the name Flavobacterium ureilyticum sp. nov. is proposed. The type strain is S-42T (= KEMB 9005-537T = KACC 19115T = NBRC 112683T).
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170
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Yan ZF, Lin P, Li CT, Kook M, Yi TH. Scopulibacillus cellulosilyticus sp. nov., a cellulose-degrading bacterium isolated from tea. Antonie van Leeuwenhoek 2018; 111:2087-2094. [PMID: 29789976 DOI: 10.1007/s10482-018-1101-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2018] [Accepted: 05/16/2018] [Indexed: 11/24/2022]
Abstract
A Gram-stain positive, aerobic, non-motile, endospore-forming and rod-shaped strain (THG-NT9T) was isolated from a green tea sample. Growth occurred at 20-45 °C (optimum 28-35 °C), at pH 6.0-8.0 (optimum 7.0) and at 0-2.0% NaCl (optimum 0%). Based on 16S rRNA gene sequence analysis, the near phylogenetic neighbours of strain THG-NT9T were identified as Scopulibacillus daqui DSM 28236T (98.6%), Scopulibacillus darangshiensis DSM 19377T (97.4%), Pullulanibacillus pueri CGMCC 1.12777T (96.7%) and Pullulanibacillus camelliae CGMCC 1.15371T (96.3%). The DNA G + C content of strain THG-NT9T was determined to be 47.5 mol %. DNA-DNA hybridization values between strain THG-NT9T and S. daqui DSM 28236T, S. darangshiensis DSM 19377T, P. pueri CGMCC 1.12777T, P. camelliae CGMCC 1.15371T and Pullulanibacillus naganoensis DSM 10191T were 41.3 ± 0.1 (39.4 ± 0.4% reciprocal analysis), 39.1 ± 0.1 (37.3 ± 0.1%), 21.4 ± 0.7 (20.1 ± 0.3%), 20.7 ± 0.1 (20.1 ± 0.4%) and 12.1 ± 0.2% (8.3 ± 0.2%). The polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and three unidentified lipids. The quinone was identified as MK-7. The major fatty acids were C18:3 ω7c, iso-C15:0, iso-C16:0, iso-C17:0 and anteiso-C17:0. The cell wall type was determined to be A1γ peptidoglycan with meso-diaminopimelic acid as the diagnostic diamino acid plus alanine and glutamic acid and glucose as the cell wall sugar. On the basis of the phylogenetic analysis, chemotaxonomic data, physiological characteristics, and DNA-DNA hybridization data, strain THG-NT9T represents a novel species of the genus Scopulibacillus, for which the name Scopulibacillus cellulosilyticus sp. nov. is proposed. The type strain is THG-NT9T (= KCTC 33918T = CGMCC 1.16305T).
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Affiliation(s)
- Zheng-Fei Yan
- College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdae-ro, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea
| | - Pei Lin
- College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdae-ro, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea
| | - Chang-Tian Li
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun, 130118, People's Republic of China
| | - MooChang Kook
- Department of Food Nutrition, Baewha Women's University, Seoul, 03039, Republic of Korea
| | - Tae-Hoo Yi
- College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdae-ro, Giheung-gu, Yongin-si, Gyeonggi-do, 17104, Republic of Korea.
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171
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Genomic and ecological study of two distinctive freshwater bacteriophages infecting a Comamonadaceae bacterium. Sci Rep 2018; 8:7989. [PMID: 29789681 PMCID: PMC5964084 DOI: 10.1038/s41598-018-26363-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2018] [Accepted: 05/10/2018] [Indexed: 01/29/2023] Open
Abstract
Bacteriophages of freshwater environments have not been well studied despite their numerical dominance and ecological importance. Currently, very few phages have been isolated for many abundant freshwater bacterial groups, especially for the family Comamonadaceae that is found ubiquitously in freshwater habitats. In this study, we report two novel phages, P26059A and P26059B, that were isolated from Lake Soyang in South Korea, and lytically infected bacterial strain IMCC26059, a member of the family Comamonadaceae. Morphological observations revealed that phages P26059A and P26059B belonged to the family Siphoviridae and Podoviridae, respectively. Of 12 bacterial strains tested, the two phages infected strain IMCC26059 only, showing a very narrow host range. The genomes of the two phages were different in length and highly distinct from each other with little sequence similarity. A comparison of the phage genome sequences and freshwater viral metagenomes showed that the phage populations represented by P26059A and P26059B exist in the environment with different distribution patterns. Presence of the phages in Lake Soyang and Lake Michigan also indicated a consistent lytic infection of the Comamonadaceae bacterium, which might control the population size of this bacterial group. Taken together, although the two phages shared a host strain, they showed completely distinctive characteristics from each other in morphological, genomic, and ecological analyses. Considering the abundance of the family Comamonadaceae in freshwater habitats and the rarity of phage isolates infecting this family, the two phages and their genomes in this study would be valuable resources for freshwater virus research.
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172
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Jin L, Zhao J, Jiang S, Zhao Y, Han X, Guo X, Wang X, Xiang W. Promicromonospora viridis sp. nov., a novel actinomycete isolated from soil. Antonie van Leeuwenhoek 2018; 111:2079-2086. [PMID: 29779147 DOI: 10.1007/s10482-018-1099-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2018] [Accepted: 05/14/2018] [Indexed: 11/25/2022]
Abstract
Two Gram-stain positive, aerobic actinomycete strains, designated NEAU-JGR1T and NEAU-JGC41, were isolated from soil collected from Fairy Lake Botanical Garden in Shenzhen, Guangdong Province, south of China. The 16S rRNA gene sequences analysis showed that the two strains exhibited 99.5% 16S rRNA gene sequence similarity with each other and were closely related to Promicromonospora thailandica JCM 17130T (99.4, 99.3%) and Promicromonospora citrea DSM 43110T (99.2, 99.2%). Phylogenetic analysis based on the 16S rRNA gene sequences indicated that the two strains clustered together and formed a cluster with P. thailandica JCM 17130T and P. citrea DSM 43110T. Both strains were observed to contain MK-9(H4) and MK-9(H2) as predominant menaquinones. Their whole cell sugar profiles were found to main contained rhamnose, ribose, glucose and galactose. The phospholipid profile contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, glycophosphatidylinositol, phosphatidylinositol mannoside, an unidentified glycolipid and an unidentified phospholipid. The predominant cellular fatty acids for the two strains were identified as anteiso-C15:0, iso-C15:0 and anteiso-C17:0. The DNA-DNA hybridization value between strains NEAU-JGR1T and NEAU-JGC41 was 85.1 ± 0.3%, and the values between the two strains and their close phylogenetic relatives were well below 70%, supporting the conclusion that they represent a distinct genomic species. An array of phenotypic characteristics also differentiated the isolates from closely related species. On the basis of the genetic and phenotypic properties, strains NEAU-JGR1T and NEAU-JGC41 can be classified as representatives of a novel species of the genus Promicromonospora, for which the name Promicromonospora viridis sp. nov., is proposed. The type strain is NEAU-JGR1T (= DSM 105536T = CGMCC 4.7473T).
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Affiliation(s)
- Liying Jin
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Junwei Zhao
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Shanwen Jiang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Yang Zhao
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Xiaoyang Han
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Xiaowei Guo
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Xiangjing Wang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China.
| | - Wensheng Xiang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China. .,State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China.
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173
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Sánchez Hinojosa V, Asenjo J, Leiva S. Agarolytic culturable bacteria associated with three antarctic subtidal macroalgae. World J Microbiol Biotechnol 2018; 34:73. [PMID: 29785671 DOI: 10.1007/s11274-018-2456-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2018] [Accepted: 05/14/2018] [Indexed: 10/16/2022]
Abstract
Bacterial communities of Antarctic marine macroalgae remain largely underexplored in terms of diversity and biotechnological applications. In this study, three Antarctic subtidal macroalgae (Himantothallus grandifolius, Pantoneura plocamioides and Plocamium cartilagineum), two of them endemic of Antarctica, were investigated as a source for isolation of agar-degrading bacteria. A total of 21 epiphytic isolates showed agarolytic activity at low temperature on agar plates containing agar as the sole carbon source. 16S rRNA identification showed that the agar-degrading bacteria belonged to the genera Cellulophaga, Colwellia, Lacinutrix, Olleya, Paraglaciecola, Pseudoalteromonas and Winogradskyella. The agarase enzyme from a potential new species of the genus Olleya was selected for further purification. The enzyme was purified from the culture supernatant of Olleya sp. HG G5.3 by ammonium sulfate precipitation and ion-exchange chromatography. Molecular weight of the agarase was estimated to be 38 kDa by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). The purified enzyme exhibited activity at 4 °C, retaining > 50% of its maximum activity at this temperature. This is the first study reporting the phylogeny of agar-degrading bacteria isolated from Antarctic subtidal macroalgae and the results suggest the huge potential of Antarctic algae-associated bacteria as a source of cold-active hydrolytic enzymes of biotechnological interest.
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Affiliation(s)
- Verónica Sánchez Hinojosa
- Instituto de Bioquímica & Microbiología, Facultad de Ciencias, Universidad Austral de Chile, Casilla 567, Valdivia, Chile
| | - Joel Asenjo
- Instituto de Bioquímica & Microbiología, Facultad de Ciencias, Universidad Austral de Chile, Casilla 567, Valdivia, Chile
| | - Sergio Leiva
- Instituto de Bioquímica & Microbiología, Facultad de Ciencias, Universidad Austral de Chile, Casilla 567, Valdivia, Chile.
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174
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Novel haloarchaeon Natrinema thermophila having the highest growth temperature among haloarchaea with a large genome size. Sci Rep 2018; 8:7777. [PMID: 29773867 PMCID: PMC5958107 DOI: 10.1038/s41598-018-25887-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2017] [Accepted: 04/30/2018] [Indexed: 12/13/2022] Open
Abstract
Environmental temperature is one of the most important factors for the growth and survival of microorganisms. Here we describe a novel extremely halophilic archaeon (haloarchaea) designated as strain CBA1119T isolated from solar salt. Strain CBA1119T had the highest maximum and optimal growth temperatures (66 °C and 55 °C, respectively) and one of the largest genome sizes among haloarchaea (5.1 Mb). It also had the largest number of strain-specific pan-genome orthologous groups and unique pathways among members of the genus Natrinema in the class Halobacteria. A dendrogram based on the presence/absence of genes and a phylogenetic tree constructed based on OrthoANI values highlighted the particularities of strain CBA1119T as compared to other Natrinema species and other haloarchaea members. The large genome of strain CBA1119T may provide information on genes that confer tolerance to extreme environmental conditions, which may lead to the discovery of other thermophilic strains with potential applications in industrial biotechnology.
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175
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Saricaoglu S, Nouioui I, Ay H, Saygin H, Bektas KI, Guven K, Cetin D, Klenk HP, Isik K, Sahin N. Nonomuraea insulae sp. nov., isolated from forest soil. Antonie van Leeuwenhoek 2018; 111:2051-2059. [DOI: 10.1007/s10482-018-1097-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 05/11/2018] [Indexed: 11/29/2022]
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176
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Zhao J, Mu S, Zhao Q, Jiang S, Cao P, Guo X, Wang X, Xiang W. Nonomuraea rhizosphaerae sp. nov., an actinomycete isolated from the rhizosphere soil of a rubber tree (Hevea brasiliensis Muell. Arg). Antonie van Leeuwenhoek 2018; 111:2009-2016. [PMID: 29744692 DOI: 10.1007/s10482-018-1094-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2018] [Accepted: 05/02/2018] [Indexed: 10/16/2022]
Abstract
A novel actinomycete, designated strain NEAU-mq18T, was isolated from the rhizosphere soil of a rubber tree (Hevea brasiliensis Muell. Arg) collected from Xianglu Mountain in Heilongjiang Province, northeast China, and subjected to a polyphasic taxonomic study. The 16S rRNA gene sequence analysis showed that the isolate belongs to the genus Nonomuraea with high sequence similarity to Nonomuraea guangzhouensis NEAU-ZJ3T (98.5%). Phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain clusters phylogenetically with N. guangzhouensis NEAU-ZJ3T and Nonomuraea glycinis NEAU-BB2C19T. Moreover, key chemotaxonomic properties including the major menaquinones, fatty acid composition and phospholipid profile also confirmed the affiliation of the strain to the genus Nonomuraea. However, some physiological, morphological and biochemical properties, and low DNA-DNA relatedness values, enabled the strain to be differentiated from closely related species of the genus Nonomuraea. Thus, strain NEAU-mq18T is concluded to represent a novel species of the genus Nonomuraea, for which the name Nonomuraea rhizosphaerae sp. nov. is proposed. The type strain is NEAU-mq18T (=CGMCC 4.7431T=DSM 105761T).
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Affiliation(s)
- Junwei Zhao
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Shan Mu
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Qiannan Zhao
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Shanwen Jiang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Peng Cao
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Xiaowei Guo
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China
| | - Xiangjing Wang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China.
| | - Wensheng Xiang
- Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education Committee, Northeast Agricultural University, No. 59 Mucai Street, Xiangfang District, Harbin, 150030, People's Republic of China. .,State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China.
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177
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Dyadobacter flavus sp. nov. and Dyadobacter terricola sp. nov., two novel members of the family Cytophagaceae isolated from forest soil. Arch Microbiol 2018; 200:1067-1074. [PMID: 29737366 DOI: 10.1007/s00203-018-1521-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2018] [Revised: 04/06/2018] [Accepted: 04/26/2018] [Indexed: 10/17/2022]
Abstract
Two strains of bacteria designated strains S-53T and A27T were isolated from forest soil and subjected to polyphasic characterization. Cells were aerobic, Gram-staining-negative, catalase- and oxidase- positive, non-motile, non-spore-forming, rod-shaped, and yellow-pigmented. Flexirubin-type pigments were present. Both strains were positive for PNPG, hydrolysed casein, and tyrosine. A phylogenetic analysis based on its 16S rRNA gene sequence revealed that strains S-53T and A27T formed a lineage within the family Cytophagaceae that were distinct from various members of the genus Dyadobacter (98.9-93.2% sequence similarity). Closest member for strain S-53T was Dyadobacter jejuensis AM1R11T (95.7%) and for A27T Dyadobacter endophyticus 65T (98.9%). The predominant respiratory quinone was MK-7 for both strains. The major polar lipid for both strains was phosphatidylethanolamine. The major cellular fatty acids for both strains were summed feature 3 (C16:1ω7c and/or C16:1ω6c), iso-C15:0, C16:1ω5c, and C16:0. The DNA G+C content of strains ranges from 46.5 to 48.7 mol%. On the basis of phenotypic, genotypic, chemotaxonomic, and phylogenetic analysis, both strains S-53T and A27T represent a novel member in the genus Dyadobacter, for which the name Dyadobacter flavus sp. nov. and Dyadobacter terricola sp. nov. are proposed, respectively. The type strain of D. flavus is S-53T (= KEMB 9005-541T = KACC 19149T = NBRC 112681T) and type strain of D. terricola is A27T (= KEMB 9005-524T = KACC 19147T = NBRC 112680T).
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178
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Yu XY, Zhai JY, Wu C, Zhang CY, Shi JY, Ding LX, Wu M. Pseudomonas pharmafabricae sp. nov., Isolated From Pharmaceutical Wastewater. Curr Microbiol 2018; 75:1119-1125. [PMID: 29725767 DOI: 10.1007/s00284-018-1495-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2018] [Accepted: 04/17/2018] [Indexed: 11/25/2022]
Abstract
A Gram-stain-negative, aerobic, rod-shaped bacterial strain, designated ZYSR67-ZT, was isolated from a pharmaceutical wastewater sample collected from a chemical factory in Zhejiang, China. The strain was motile by a single polar flagellum and grew at 4-42 °C (optimum, 35 °C), pH 5.0-9.0 (optimum, 6.0) and 0-5.0% (w/v) NaCl (optimum, 2.0%). Based on multilocus sequence analysis using 16S rRNA, gyrB, rpoB and rpoD, the strain ZYSR67-ZT formed a distinct phylogenetic group in the genus Pseudomonas. The average nucleotide identity values between strain ZYSR67-ZT and the closely related 10 type strains of the Pseudomonas species were 75.8-78.6%. The in silico DNA-DNA hybridization values indicated that strain ZYSR67-ZT and the type strains of the Pseudomonas shared 21.4-23.1% DNA relatedness. The predominant isoprenoid quinone system was ubiquinone-9 while ubiquinone-8 was present in trace amounts. The major fatty acids (> 10%) identified were C12:0, C16:0, C18:1 ω7c and summed features 3 (C16:1 ω7c and/or iso-C15:0 2OH). The major polar lipids consisted of phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The genomic DNA G+C content was 62.6 mol%. On the basis of morphological, physiological and chemotaxonomic characteristics, together with the results of phylogenetic analysis, strain ZYSR67-ZT was proposed to represent a novel species of the genus Pseudomonas, named Pseudomonas pharmafabricae sp. nov.. The type strain is ZYSR67-ZT (= CGMCC 1.15498T = JCM 31306T).
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Affiliation(s)
- Xiao-Yun Yu
- College of Life Sciences, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Jing-Yu Zhai
- College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, 321004, People's Republic of China
| | - Chen Wu
- Zhejiang University of Water Resources and Electric Power, Hangzhou, 310018, People's Republic of China
| | - Chong-Ya Zhang
- Ocean College, Zhejiang University, Zhoushan, 316000, People's Republic of China
| | - Jie-Ying Shi
- College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, 321004, People's Republic of China
| | - Lin-Xian Ding
- College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, 321004, People's Republic of China.
| | - Min Wu
- College of Life Sciences, Zhejiang University, Hangzhou, 310058, People's Republic of China.
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179
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Lee H, Kim DU, Park S, Yoon JH, Ahn JH, Ka JO. 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. J Microbiol 2018; 56:324-330. [PMID: 29721829 DOI: 10.1007/s12275-018-7455-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2017] [Revised: 03/02/2018] [Accepted: 03/05/2018] [Indexed: 11/29/2022]
Abstract
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 (C18:1ω7c and/or C18:1ω6c), summed feature 3 (C16:1ω7c and/or C16:1ω6c), 11-methyl C18:1ω7c, 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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Affiliation(s)
- Hyosun Lee
- Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 08826, Republic of Korea
| | - Dong-Uk Kim
- Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 08826, Republic of Korea
| | - Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Suwon, 16419, Republic of Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Suwon, 16419, Republic of Korea
| | - Jae-Hyung Ahn
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju, 55365, Republic of Korea
| | - Jong-Ok Ka
- Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 08826, Republic of Korea.
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180
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Lee JW, Kim YE, Park SJ. Burkholderia alba sp. nov., isolated from a soil sample on Halla mountain in Jeju island. J Microbiol 2018; 56:312-316. [PMID: 29721827 DOI: 10.1007/s12275-018-8034-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 02/23/2018] [Accepted: 02/27/2018] [Indexed: 11/29/2022]
Abstract
A rod-shaped, round and white colony-forming strain AD18T was isolated from the soil on Halla mountain in Jeju Island, Republic of Korea. Comparative analysis of 16S rRNA gene sequence revealed that this strain was closely related to Burkholderia oklahomensis C6786T (98.8%), Burkholderia thailandensis KCTC 23190T (98.5%). DNA-DNA relatedness (14.6%) indicated that the strain AD18T represents a distinct species that is separate from B. oklahomensis C6786T. The isolate grew at pH 5.0-9.0 (optimum, pH 7.0), 0-3% (w/v) NaCl (optimum, 0%), and temperature 10-40°C (optimum 35°C). The sole quinone of the strain was Q-8, and the predominant fatty acids were C16:0, C17:0 cyclo, and C19:0 cyclo ω8c. The genomic DNA G + C content of AD18T was 65.6 mol%. Based on these findings, strain AD18T is proposed to be a novel species in the genus Burkholderia, for which the name Burkholderia alba sp. nov. is proposed (= KCCM 43268T = JCM 32403T). The type strain is AD18T.
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Affiliation(s)
- Jae-Won Lee
- Department of Biology, Jeju National University, Jeju, 63243, Republic of Korea
| | - Ye-Eun Kim
- Department of Biology, Jeju National University, Jeju, 63243, Republic of Korea
| | - Soo-Je Park
- Department of Biology, Jeju National University, Jeju, 63243, Republic of Korea.
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181
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Terrabacter ginsengisoli sp. nov., isolated from ginseng cultivating soil. J Microbiol 2018; 56:331-336. [PMID: 29721830 DOI: 10.1007/s12275-018-8098-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2018] [Revised: 03/19/2018] [Accepted: 03/20/2018] [Indexed: 10/17/2022]
Abstract
A Gram-positive, strictly aerobic, nonmotile, yellowish, coccus-rod-shaped bacterium (designated Gsoil 653T) isolated from ginseng cultivating soil was characterized using a polyphasic approach to clarify its taxonomic position. The strain Gsoil 653T exhibited optimal growth at pH 7.0 on R2A agar medium at 30°C. Phylogenetic analysis based on 16S rRNA gene sequence similarities, indicated that Gsoil 653T belongs to the genus Terrabacter of the family Humibacillus, and was closely related to Terrabacter tumescens DSM 20308T (98.9%), Terrabacter carboxydivorans PY2T (98.9%), Terrabacter terrigena ON10T (98.8%), Terrabacter terrae PPLBT (98.6%), and Terrabacter lapilli LR-26T (98.6%). The DNA G + C content was 70.5 mol%. The major quinone was MK-8(H4). The primary polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidyl-ethanolamine. The predominant fatty acids were iso-C15:0, iso-C16:0, iso-C14:0, and anteiso-C15:0, as in the case of genus Terrabacter, thereby supporting the categorization of strain Gsoil 653T. However, the DNA-DNA relatedness between Gsoil 653T and closely related strains of Terrabacter species was low at less than 31%. Moreover, strain Gsoil 653T could be both genotypically and phenotypically distinguished from the recognized species of the genus Terrabacter. This isolate, therefore, represents a novel species, for which the name Terrabacter ginsengisoli sp. nov. is proposed with the type strain Gsoil 653T (= KACC 19444T = LMG 30325T).
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182
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Rare taxa and dark microbial matter: novel bioactive actinobacteria abound in Atacama Desert soils. Antonie van Leeuwenhoek 2018; 111:1315-1332. [PMID: 29721711 DOI: 10.1007/s10482-018-1088-7] [Citation(s) in RCA: 59] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2018] [Accepted: 04/20/2018] [Indexed: 12/19/2022]
Abstract
An "in house" taxonomic approach to drug discovery led to the isolation of diverse actinobacteria from hyper-arid, extreme hyper-arid and very high altitude Atacama Desert soils. A high proportion of the isolates were assigned to novel taxa, with many showing activity in standard antimicrobial plug assays. The application of more advanced taxonomic and screening strategies showed that strains classified as novel species of Lentzea and Streptomyces synthesised new specialised metabolites thereby underpinning the premise that the extreme abiotic conditions in the Atacama Desert favour the development of a unique actinobacterial diversity which is the basis of novel chemistry. Complementary metagenomic analyses showed that the soils encompassed an astonishing degree of actinobacterial 'dark matter', while rank-abundance analyses showed them to be highly diverse habitats mainly composed of rare taxa that have not been recovered using culture-dependent methods. The implications of these pioneering studies on future bioprospecting campaigns are discussed.
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183
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Martins SJ, Rocha GA, de Melo HC, de Castro Georg R, Ulhôa CJ, de Campos Dianese É, Oshiquiri LH, da Cunha MG, da Rocha MR, de Araújo LG, Vaz KS, Dunlap CA. Plant-associated bacteria mitigate drought stress in soybean. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2018; 25:13676-13686. [PMID: 29502259 DOI: 10.1007/s11356-018-1610-5] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2017] [Accepted: 02/25/2018] [Indexed: 06/08/2023]
Abstract
Agriculture accounts for ~ 70% of all water use and the world population is increasing annually; soon more people will need to be fed, while also using less water. The use of plant-associated bacteria (PAB) is an eco-friendly alternative that can increase crop water use efficiency. This work aimed to study the effect of some PAB on increasing soybean tolerance to drought stress, the mechanisms of the drought tolerance process, and the effect of the PAB on promoting plant growth and on the biocontrol of Sclerotinia sclerotiorum. PAB were isolated from soybean rhizosphere and S. sclerotiorum sclerotia. The strains identified as UFGS1 (Bacillus subtilis), UFGS2 (Bacillus thuringiensis), UFGRB2 and UFGRB3 (Bacillus cereus) were selected on their ability to grow in media with reduced water activity. Soybean plants were inoculated with the PAB and evaluated for growth promotion, physiological and molecular parameters, after drought stress. Under drought stress, UFGS2 and UFGRB2 sustained potential quantum efficiency of PSII (Fv/Fm), while a decrease was found in the control plants. Moreover, UFGS2 and UFGRB3 maintained the photosynthetic rates in non-stressed conditions compared to the control. UFGS2-treated plants showed a higher stomatal conductance and higher transpiration than the control, after drought stress. Some PAB-treated plants also had other beneficial phenotypes, such as increases in fresh and dried biomass relative to the control. Differential gene expression analysis of genes involved in plant stress pathways shows changes in expression in PAB-treated plants. Results from this study suggest that PAB can mitigate drought stress in soybean and may improve water efficiency under certain conditions.
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Affiliation(s)
- Samuel Julio Martins
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil.
| | - Geisiane Alves Rocha
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil
| | - Hyrandir Cabral de Melo
- Laboratory of Plant Physiology, Institute of Biology, Federal University of Goiás, Goiânia, Brazil
| | - Raphaela de Castro Georg
- Laboratory of Enzymology, Institute of Biology, Federal University of Goiás, Goiânia, 74001-970, Brazil
| | - Cirano José Ulhôa
- Laboratory of Enzymology, Institute of Biology, Federal University of Goiás, Goiânia, 74001-970, Brazil
| | - Érico de Campos Dianese
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil
| | - Leticia Harumi Oshiquiri
- Laboratory of Enzymology, Institute of Biology, Federal University of Goiás, Goiânia, 74001-970, Brazil
| | - Marcos Gomes da Cunha
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil
| | - Mara Rúbia da Rocha
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil
| | | | - Karina Santana Vaz
- College of Agronomy, Federal University of Goiás, Campus Samambaia, Rodovia GO-462 km 0, CP 3037, Goiânia, GO, 74690-900, Brazil
| | - Christopher A Dunlap
- US Department of Agriculture, Crop Bioprotection Research Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, Peoria, IL, USA
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184
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Mandakovic D, Maldonado J, Pulgar R, Cabrera P, Gaete A, Urtuvia V, Seeger M, Cambiazo V, González M. Microbiome analysis and bacterial isolation from Lejía Lake soil in Atacama Desert. Extremophiles 2018; 22:665-673. [PMID: 29687212 DOI: 10.1007/s00792-018-1027-6] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Accepted: 04/13/2018] [Indexed: 12/31/2022]
Abstract
As a consequence of the severe climatic change affecting our entire world, many lakes in the Andes Cordillera are likely to disappear within a few decades. One of these lakes is Lejía Lake, located in the central Atacama Desert. The objectives of this study were: (1) to characterize the bacterial community from Lejía Lake shore soil (LLS) using 16S rRNA sequencing and (2) to test a culture-based approach using a soil extract medium (SEM) to recover soil bacteria. This extreme ecosystem was dominated by three phyla: Bacteroidetes, Proteobacteria, and Firmicutes with 29.2, 28.2 and 28.1% of the relative abundance, respectively. Using SEM, we recovered 7.4% of the operational taxonomic units from LLS, all of which belonged to the same three dominant phyla from LLS (6.9% of Bacteroidetes, 77.6% of Proteobacteria, and 15.3% of Firmicutes). In addition, we used SEM to recover isolates from LLS and supplemented the culture medium with increasing salt concentrations to isolate microbial representatives of salt tolerance (Halomonas spp.). The results of this study complement the list of microbial taxa diversity from the Atacama Desert and assess a pipeline to isolate selective bacteria that could represent useful elements for biotechnological approaches.
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Affiliation(s)
- Dinka Mandakovic
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile
| | - Jonathan Maldonado
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile
| | - Rodrigo Pulgar
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile
- Laboratorio de Genómica Aplicada, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
| | - Pablo Cabrera
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile
| | - Alexis Gaete
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
| | - Viviana Urtuvia
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química, Center for Nanotechnology, Systems Biology and Centro de Biotecnología, Universidad Técnica Federico Santa María, Avenida España, 1680, Valparaiso, Chile
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil, 2147, Valparaiso, Chile
| | - Michael Seeger
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química, Center for Nanotechnology, Systems Biology and Centro de Biotecnología, Universidad Técnica Federico Santa María, Avenida España, 1680, Valparaiso, Chile
| | - Verónica Cambiazo
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile
- Laboratorio de Genómica Aplicada, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile
| | - Mauricio González
- Laboratorio de Bioinformática y Expresión Génica, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile.
- Fondap Center for Genome Regulation (CGR), Avenida Blanco Encalada, 2085, Santiago, Chile.
- Laboratorio de Genómica Aplicada, INTA-Universidad de Chile, El Líbano, 5524, Santiago, Chile.
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185
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Lee H, Kim DU, Lee S, Kim SG, Park AY, Ahn JH, Ka JO. Flavisolibacter carri sp. nov., isolated from an automotive air-conditioning system. Antonie van Leeuwenhoek 2018; 111:1969-1976. [DOI: 10.1007/s10482-018-1086-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Accepted: 04/12/2018] [Indexed: 10/17/2022]
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186
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Zhang WY, Yuan Y, Su DQ, He XP, Han SB, Epstein SS, He S, Wu M. Gallaecimonas mangrovi sp. nov., a novel bacterium isolated from mangrove sediment. Antonie van Leeuwenhoek 2018; 111:1855-1862. [DOI: 10.1007/s10482-018-1076-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Accepted: 03/26/2018] [Indexed: 11/24/2022]
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187
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Acidovorax monticola sp. nov., isolated from soil. Antonie van Leeuwenhoek 2018; 111:1925-1934. [DOI: 10.1007/s10482-018-1083-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 04/03/2018] [Indexed: 10/17/2022]
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188
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Hymenobacter terrigena sp. nov., isolated from soil. J Microbiol 2018; 56:231-237. [DOI: 10.1007/s12275-018-8029-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 02/05/2018] [Accepted: 02/05/2018] [Indexed: 10/17/2022]
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189
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Yang Q, Jiang ZW, Huang CH, Zhang RN, Li LZ, Yang G, Feng LJ, Yang GF, Zhang H, Zhang XL, Mu J. Hoeflea prorocentri sp. nov., isolated from a culture of the marine dinoflagellate Prorocentrum mexicanum PM01. Antonie van Leeuwenhoek 2018; 111:1845-1853. [PMID: 29603043 DOI: 10.1007/s10482-018-1074-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2017] [Accepted: 03/21/2018] [Indexed: 11/29/2022]
Abstract
A Gram-stain negative, aerobic, rod-shaped, non-motile, yellow-pigmented and non-spore-forming bacterial strain, designated PM5-8T, was isolated from a culture of a marine toxigenic dinoflagellate Prorocentrum mexicanum PM01. Strain PM5-8T grew at 15-35 °C (optimum, 25-30 °C) and pH 6-11 (optimum, 7.5-8). Cells required at least 1.5% (w/v) NaCl for growth, and can tolerate up to 7.0% with the optimum of 4%. Phylogenetic analysis based on 16S rRNA gene sequence revealed that the strain PM5-8T is closely related to members of the genus Hoeflea, with high sequence similarities with Hoeflea halophila JG120-1T (97.06%) and Hoeflea alexandrii AM1V30T (97.01%). DNA-DNA hybridization values between the isolate and other type strains of recognized species of the genus Hoeflea were between 11.8 and 25.2%, which is far below the value of 70% threshold for species delineation. The DNA G + C content was 50.3 mol%. The predominant cellular fatty acids of the strain were identified as summed feature 8 (C16:1 ω7c and/or C16:1 ω6c; 51.5%), C18:1 ω7c 11-methyl (20.7%), C16:0 (17.2%) and C18:0 (5.7%). The major respiratory quinone was Q-10. Polar lipids profiles contained phosphatidylcholine, phosphatidylglycerol, sulfoquinovosyl diacylglycerol, phosphatidylmono- methylethanolamine, phosphatidylethanolamine and four unidentified lipids. On the basis of the polyphasic taxonomic data presented, strain PM5-8T (= CCTCC AB 2016294T = KCTC 62490T) represents a novel species of the genus Hoeflea, for which the name Hoeflea prorocentri sp. nov. is proposed.
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Affiliation(s)
- Qiao Yang
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China
| | - Zhi-Wei Jiang
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China
| | - Cheng-Hui Huang
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China
| | - Ruo-Nan Zhang
- Center of Research in Life Sciences and Environmental Sciences, Harbin University of Commerce, Harbin, 150076, People's Republic of China
| | - Ling-Zhi Li
- East China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Shanghai, 200090, People's Republic of China
| | - Guang Yang
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China
| | - Li-Juan Feng
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China
| | - Guang-Feng Yang
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, People's Republic of China
| | - Heng Zhang
- East China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Shanghai, 200090, People's Republic of China
| | - Xiao-Ling Zhang
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China.
| | - Jun Mu
- Laboratory of Marine Environment and Ecology, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, People's Republic of China.
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190
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Streptomyces urticae sp. nov., isolated from rhizosphere soil of Urtica urens L. Antonie van Leeuwenhoek 2018; 111:1835-1843. [DOI: 10.1007/s10482-018-1072-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2018] [Accepted: 03/20/2018] [Indexed: 10/17/2022]
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191
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Han J, Ten LN, Lee DH, Kang IK, Jung HY. Hymenobacter agri sp. nov., a novel bacterium isolated from soil. Antonie van Leeuwenhoek 2018; 111:1815-1823. [PMID: 29574505 DOI: 10.1007/s10482-018-1070-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2017] [Accepted: 03/19/2018] [Indexed: 10/17/2022]
Abstract
A bacterial isolate was recovered from a soil sample collected in Jeollabuk-do Province, South Korea, and subjected to polyphasic taxonomic assessment. Cells of the isolate, designated strain S1-2-1-2-1T, were observed to be rod-shaped, pink in color, and Gram-stain negative. The strain was able to grow at temperature range from 10 to 30 °C, with an optimum of 25 °C, and growth occurred at pH 6-8. Comparative 16S rRNA gene sequence analysis showed that strain S1-2-1-2-1T belongs to the genus Hymenobacter, with closely related type strains being Hymenobacter daeguensis 16F3Y-2T (95.8% similarity), Hymenobacter rubidus DG7BT (95.8%), Hymenobacter soli PBT (95.7%), Hymenobacter terrenus MIMtkLc17T (95.6%), Hymenobacter terrae DG7AT (95.3%), and Hymenobacter saemangeumensis GSR0100T (95.2%). The genomic DNA G+C content of strain S1-2-1-2-1T was 63.0 mol%. The main polar lipid of this strain was phosphatidylethanolamine, the predominant respiratory quinone was menaquinone-7, and the major fatty acids were C15:0 iso (27.3%), summed feature 3 (C16:1 ω7c/C16:1 ω6c) (16.5%), C15:0 anteiso (15.3%), and C16:0 (14.7%), supporting the affiliation of this strain with the genus Hymenobacter. The results of this polyphasic analysis allowed for the genotypic and phenotypic differentiation of strain S1-2-1-2-1T from recognized Hymenobacter species. On the basis of its phenotypic properties, genotypic distinctiveness, and chemotaxonomic features, strain S1-2-1-2-1T is considered to represent a novel species of the genus Hymenobacter, for which the name Hymenobacter agri sp. nov. is proposed. The type strain is S1-2-1-2-1T (=KCTC 52739T = JCM 32194T).
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Affiliation(s)
- Jigon Han
- College of Agricultural and Life Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Leonid N Ten
- College of Agricultural and Life Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Dong Hoon Lee
- Planning and Coordination Division, National Institute of Horticultural and Herbal Science, RDA, Wanju, 55365, Republic of Korea
| | - In-Kyu Kang
- Department of Horticultural Science, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Hee-Young Jung
- College of Agricultural and Life Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea. .,Institute of Plant Medicine, Kyungpook National University, Daegu, 41566, Republic of Korea.
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192
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Kang W, Shi S, Xu L. Diversity and symbiotic divergence of endophytic and non-endophytic rhizobia of Medicago sativa. ANN MICROBIOL 2018. [DOI: 10.1007/s13213-018-1333-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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193
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Agromyces mangrovi sp. nov., a novel actinobacterium isolated from the rhizosphere of a mangrove. Arch Microbiol 2018; 200:939-943. [DOI: 10.1007/s00203-018-1504-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Revised: 03/18/2018] [Accepted: 03/20/2018] [Indexed: 10/17/2022]
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194
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A novel pigmented and heavy metal biosorptive bacterium, Leucobacter epilobiisoli sp. nov., isolated from rhizosphere soil of Epilobium hirsutum L. Antonie van Leeuwenhoek 2018; 111:1825-1833. [DOI: 10.1007/s10482-018-1071-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2018] [Accepted: 03/20/2018] [Indexed: 10/17/2022]
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195
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Streptomyces carminius sp. nov., a novel actinomycete isolated from Sophora alopecuroides in Xinjiang, China. Antonie van Leeuwenhoek 2018; 111:1807-1814. [PMID: 29560533 DOI: 10.1007/s10482-018-1069-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Accepted: 03/16/2018] [Indexed: 10/17/2022]
Abstract
A novel actinobacterial strain, designated TRM SA0054T, was isolated from the roots of Sophora alopecuroides grown in Alar, Xinjiang, north-west China, and characterised by a polyphasic taxonomic approach. Phylogenetic analysis showed that strain TRM SA0054T has 16S rRNA gene sequence similarity of 98.22% with Streptomyces barkulensis RC 1831T. Whole cell hydrolysates of strain TRM SA0054T were found to contain LL-diaminopimelic acid as the diagnostic diamino acid and ribose, glucose and xylose as the major whole cell sugars. The major fatty acids were identified as iso-C16:0, iso-C16:1 G, anteiso-C17:0, anteiso-C15:0, C16:0, anteiso-C17:1 ω9c. The main menaquinones were determined to be MK-8 (H4), MK-9 (H6) and MK-9 (H8). The polar lipids were identified as diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylcholine, phosphatidylinositol, phosphatidylinositol mannoside and an unidentified lipid. The G + C content of the genomic DNA was determined to be 73.04%. Strain TRM SA0054T has a relatively low DNA-DNA relatedness value with Streptomyces barkulensis RC 1831T as determined by calculating the average nucleotide identity value (ANI = 84.1%). Based on the phenotypic, chemotaxonomic and phylogenetic data, it is concluded that strain TRM SA0054T should be designated as a novel species of the genus Streptomyces, for which the name Streptomyces carminius sp. nov. is proposed, with type strain TRM SA0054T (= CCTCC AA 2016041T = KCTC39903T).
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196
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Nibribacter flagellatus sp. nov., isolated from rhizosphere of Hibiscus syriacus and emended description of the genus Nibribacter. Antonie van Leeuwenhoek 2018; 111:1777-1784. [DOI: 10.1007/s10482-018-1065-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2018] [Accepted: 03/14/2018] [Indexed: 11/28/2022]
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197
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Khan IU, Habib N, Xiao M, Huang X, Khan NU, Im WT, Ahmed I, Zhi XY, Li WJ. Phenylobacterium terrae sp. nov., isolated from a soil sample of Khyber-Pakhtun-Khwa, Pakistan. Antonie van Leeuwenhoek 2018. [PMID: 29536278 DOI: 10.1007/s10482-018-1064-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
A Gram-stain negative, aerobic, motile, non-spore-forming and rod-shaped bacterial strain, designated YIM 730227T, was isolated from a soil sample, collected from Karak district, Khyber-Pakhtun-Khwa, Pakistan. The bacterium was characterized using a polyphasic taxonomic approach. Pairwise comparison of the 16S rRNA gene sequences showed that strain YIM 730227T is closely related to Phenylobacterium lituiforme FaiI3T (97.5% sequence similarity), Phenylobacterium muchangponense A8T (97.4%), Phenylobacterium panacis DCY109T (97.1%), Phenylobacterium immobile ET (97.1%) and Phenylobacterium composti 4T-6T (97.0%), while also sharing 98.0% sequence similarity with Phenylobacterium hankyongense HKS-05T after NCBI blast, showing it represents a member of the family Caulobacteraceae. The major respiratory quinone was Q-10 and the major fatty acids were C16:0, summed feature 8 (comprising C18:1ω7c and/or C18:1ω6c), C18:1ω7c 11-methyl and C17:0. The polar lipids were phosphatidylglycerol, unidentified glycolipids, phospholipid and unidentified lipid. The G + C content of the genomic DNA was 68.2 mol%. The DNA-DNA relatedness values of strain YIM 730227T with P. hankyongense HKS-05T, P. lituiforme FaiI3T, P. muchangponense A8T, P. panacis DCY109T, P. immobile ET and P. composti 4T-6T were 31.3 ± 0.6, 26.1 ± 0.2, 24.3 ± 0.1, 21.8 ± 0.9, 19.8 ± 0.6 and 18.2 ± 1.1%, respectively, values lower than 70%. Besides the morphological and chemotaxonomic characteristics, phylogenetic analyses of 16S rRNA gene sequences and the biochemical characteristics indicated that the strain YIM 730227T represents a novel member of the genus Phenylobacterium, for which the name Phenylobacterium terrae sp. nov. (type strain YIM 730227T = KCTC62324T = CGMCC 1.16326T) is proposed.
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Affiliation(s)
- Inam Ullah Khan
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China
- Department of Biological Sciences, Gomal University, Dera Ismail Khan, KPK, Pakistan
| | - Neeli Habib
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China
| | - Min Xiao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China
| | - Xing Huang
- Key Laboratory of Microbiological Engineering of Agricultural Environment, Ministry of Agriculture, Life Sciences College of Nanjing Agricultural University, Nanjing, 210095, Jiangsu, People's Republic of China
| | - Nasr Ullah Khan
- The Applied Plant Genomics Laboratory of Crop Genomics and Bioinformatics Centre, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, People's Republic of China
| | - Wan-Taek Im
- Department of Biotechnology, Hankyong National University, 327 Chungang-no, Anseong-si, Kyonggi-do, 456-749, Republic of Korea
| | - Iftikhar Ahmed
- Institute of Microbial Culture Collection of Pakistan (IMCCP), National Agricultural Research Centre (NARC), Park Road, Islamabad, 45500, Pakistan
| | - Xiao-Yang Zhi
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China.
| | - Wen-Jun Li
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, 650091, People's Republic of China.
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People's Republic of China.
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198
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Le Roes-Hill M, Durrell K, Prins A, Meyers PR. Streptosporangium minutum sp. nov., isolated from garden soil exposed to microwave radiation. J Antibiot (Tokyo) 2018. [PMID: 29515231 DOI: 10.1038/s41429-018-0036-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The actinobacterium, strain M26T, was isolated from garden soil that was pre-treated with microwave radiation. The soil sample was collected in Roodepoort, Gauteng Province, South Africa as part of an antibiotic-screening programme. The isolate produced branched vegetative mycelium with sporangiophores bearing small sporangia ranging from 3 to 6 μm in diameter. Rapid genus identification revealed that the isolate belongs to the genus Streptosporangium. To confirm this result, the strain was subjected to polyphasic taxonomic characterisation. Chemotaxonomic characteristics were as follows: meso-DAP in the peptidoglycan, the whole-cell hydrolysate yielded madurose, predominant menaquinones were MK9 (21%), MK9(H2) (40%), MK9(H4) (31%) and MK9(H6) (3%); the polar lipid profile included an aminolipid, phosphoglycolipids, phosphatidylethanolamine, and phosphatidylmonomethylethanolamine. In addition, the fatty acid profile showed the presence of C16:0 (12.8%), C17:1ω8c (14.2%), and 10-methyl-C17:0 (15.8%). Furthermore, 16S rRNA gene sequence phylogenetic analysis showed that the strain is closely related to members of the genus Streptosporangium, which supports its classification within the family Streptosporangiaceae. Strain M26T exhibited antibiosis against a range of pathogenic bacteria, including, but not limited to Acinetobacter baumannii ATCC 19606T, Enterobacter cloacae subsp. cloacae ATCC BAA-1143, Enterococcus faecalis ATCC 51299 (vancomycin resistant), Escherichia coli ATCC 25922, Listeria monocytogenes ATCC 19111, Mycobacterium tuberculosis H37RvT, Pseudomonas aeruginosa ATCC 27853, Salmonella enterica subsp. arizonae ATCC 13314T, and the methicillin-resistant Staphylococcus aureus subsp. aureus ATCC 33591 (MRSA). The name Streptosporangium minutum is proposed with the type strain M26T (=LMG 28850T =NRRL B-65295T).
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Affiliation(s)
- Marilize Le Roes-Hill
- Biocatalysis and Technical Biology Research Group, Institute of Biomedical and Microbial Biotechnology, Cape Peninsula University of Technology, PO Box 1906, Bellville, 7535, South Africa.
| | - Kim Durrell
- Biocatalysis and Technical Biology Research Group, Institute of Biomedical and Microbial Biotechnology, Cape Peninsula University of Technology, PO Box 1906, Bellville, 7535, South Africa.,Department of Microbiology, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa
| | - Alaric Prins
- Biocatalysis and Technical Biology Research Group, Institute of Biomedical and Microbial Biotechnology, Cape Peninsula University of Technology, PO Box 1906, Bellville, 7535, South Africa.,Institute for Microbial Biotechnology and Metagenomics, University of the Western Cape, Bellville, 7535, South Africa
| | - Paul R Meyers
- Department of Molecular and Cell Biology, University of Cape Town, Private Bag X3, Rondebosch, 7701, Cape Town, South Africa
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199
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Selective isolation and characterisation of novel members of the family Nocardiopsaceae and other actinobacteria from a marine sediment of Tioman Island. Antonie van Leeuwenhoek 2018; 111:727-742. [DOI: 10.1007/s10482-018-1042-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2017] [Accepted: 02/06/2018] [Indexed: 11/26/2022]
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200
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Ascidiaceibacter salegens gen. nov., sp. nov., isolated from an ascidian. Antonie van Leeuwenhoek 2018; 111:1687-1695. [DOI: 10.1007/s10482-018-1058-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Accepted: 02/24/2018] [Indexed: 10/17/2022]
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