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Zhou P, Bu YX, Xu L, Xu XW, Shen HB. Understanding the mechanisms of halotolerance in members of Pontixanthobacter and Allopontixanthobacter by comparative genome analysis. Front Microbiol 2023; 14:1111472. [PMID: 36992937 PMCID: PMC10040529 DOI: 10.3389/fmicb.2023.1111472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 02/16/2023] [Indexed: 03/14/2023] Open
Abstract
Halotolerant microorganisms have developed versatile mechanisms for coping with saline stress. With the increasing number of isolated halotolerant strains and their genomes being sequenced, comparative genome analysis would help understand the mechanisms of salt tolerance. Six type strains of Pontixanthobacter and Allopontixanthobacter, two phylogenetically close genera, were isolated from diverse salty environments and showed different NaCl tolerances, from 3 to 10% (w/v). Based on the co-occurrence greater than 0.8 between halotolerance and open reading frame (ORF) among the six strains, possible explanations for halotolerance were discussed regarding osmolyte, membrane permeability, transportation, intracellular signaling, polysaccharide biosynthesis, and SOS response, which provided hypotheses for further investigations. The strategy of analyzing genome-wide co-occurrence between genetic diversity and physiological characteristics sheds light on how microorganisms adapt to the environment.
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Affiliation(s)
- Peng Zhou
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources and Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, China
- *Correspondence: Peng Zhou,
| | - Yu-Xin Bu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources and Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, China
| | - Lin Xu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources and Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, China
- College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou, China
| | - Xue-Wei Xu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources and Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, China
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, China
| | - Hong-Bin Shen
- Institute of Image Processing and Pattern Recognition, Shanghai Jiao Tong University, and Key Laboratory of System Control and Information Processing, Ministry of Education of China, Shanghai, China
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Bourhane Z, Lanzén A, Cagnon C, Ben Said O, Mahmoudi E, Coulon F, Atai E, Borja A, Cravo-Laureau C, Duran R. Microbial diversity alteration reveals biomarkers of contamination in soil-river-lake continuum. JOURNAL OF HAZARDOUS MATERIALS 2022; 421:126789. [PMID: 34365235 DOI: 10.1016/j.jhazmat.2021.126789] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 07/27/2021] [Accepted: 07/28/2021] [Indexed: 05/21/2023]
Abstract
Microbial communities inhabiting soil-water-sediment continuum in coastal areas provide important ecosystem services. Their adaptation in response to environmental stressors, particularly mitigating the impact of pollutants discharged from human activities, has been considered for the development of microbial biomonitoring tools, but their use is still in the infancy. Here, chemical and molecular (16S rRNA gene metabarcoding) approaches were combined in order to determine the impact of pollutants on microbial assemblages inhabiting the aquatic network of a soil-water-sediment continuum around the Ichkeul Lake (Tunisia), an area highly impacted by human activities. Samples were collected within the soil-river-lake continuum at three stations in dry (summer) and wet (winter) seasons. The contaminant pressure index (PI), which integrates Polycyclic aromatic hydrocarbons (PAHs), alkanes, Organochlorine pesticides (OCPs) and metal contents, and the microbial pressure index microgAMBI, based on bacterial community structure, showed significant correlation with contamination level and differences between seasons. The comparison of prokaryotic communities further revealed specific assemblages for soil, river and lake sediments. Correlation analyses identified potential "specialist" genera for the different compartments, whose abundances were correlated with the pollutant type found. Additionally, PICRUSt analysis revealed the metabolic potential for pollutant transformation or degradation of the identified "specialist" species, providing information to estimate the recovery capacity of the ecosystem. Such findings offer the possibility to define a relevant set of microbial indicators for assessing the effects of human activities on aquatic ecosystems. Microbial indicators, including the detection of "specialist" and sensitive taxa, and their functional capacity, might be useful, in combination with integrative microbial indices, to constitute accurate biomonitoring tools for the management and restoration of complex coastal aquatic systems.
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Affiliation(s)
- Zeina Bourhane
- Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS 5254, Pau, France
| | - Anders Lanzén
- AZTI, Marine Research, Basque Research and Technology Alliance (BRTA), Herrera Kaia, Portualdea z/g, 20110 Pasaia, Gipuzkoa, Spain; IKERBASQUE, Basque Foundation for Science, E-48011 Bilbao, Spain
| | - Christine Cagnon
- Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS 5254, Pau, France
| | - Olfa Ben Said
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, LBE, Tunisia
| | - Ezzeddine Mahmoudi
- Laboratoire de Biosurveillance de l'Environnement, Faculté des Sciences de Bizerte, LBE, Tunisia
| | - Frederic Coulon
- Cranfield University, School of Water, Energy and Environment, Cranfield MK430AL, UK
| | - Emmanuel Atai
- Cranfield University, School of Water, Energy and Environment, Cranfield MK430AL, UK
| | - Angel Borja
- AZTI, Marine Research, Basque Research and Technology Alliance (BRTA), Herrera Kaia, Portualdea z/g, 20110 Pasaia, Gipuzkoa, Spain; King Abdulaziz University, Faculty of Marine Sciences, Jeddah, Saudi Arabia
| | | | - Robert Duran
- Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS 5254, Pau, France.
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Liu A, Xue QJ, Li SG, Zhang YJ. Pontixanthobacter rizhaonensis sp. nov., a marine bacterium isolated from surface seawater of the Yellow Sea, and proposal of Pseudopontixanthobacter gen. nov., Pseudopontixanthobacter confluentis comb. nov. and Pseudopontixanthobacter sediminis comb. nov. Int J Syst Evol Microbiol 2021; 71. [PMID: 33886448 DOI: 10.1099/ijsem.0.004780] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial strain designated RZ02T was isolated from surface seawater collected from the Yellow Sea in PR China and characterized by polyphasic taxonomy. Cells of strain RZ02T were Gram-stain-negative, aerobic, non-motile, catalase- and oxidase-positive rods forming ochre-pigmented colonies. Growth occurred at 7-36 °C (optimum, 30 °C), at pH 6.0-9.0 (optimum, pH 7.0) and with 1-5 % (optimum, 2 %) NaCl. The major cellular fatty acids (>10 %) of strain RZ02T were summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c), summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c) and C16 : 0. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol and sphingoglycolipid. The genome size of strain RZ02T was 2.79 Mbp with a G+C content of 55.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain RZ02T was mostly related to Pontixanthobacter luteolus SW-109T and Pontixanthobacter aestiaquae HDW-31T (97.3 and 97.1% sequence similarity, respectively), and formed a phyletic lineage with members of the genus Pontixanthobacter. The phylogenetic analysis based on the up-to-date bacterial core gene sequences confirmed that strain RZ02T clustered within the genus Pontixanthobacter. The average nucleotide identity and in silico DNA-DNA hybridization values between strain RZ02T and P. luteolus SW-109T and P. aestiaquae HDW-31T were 72.8 and 72.9 % and 18.7 and 18.5%, respectively. Based on these evidences, strain RZ02T is proposed to represent a novel species of the genus Pontixanthobacter under the name Pontixanthobacter rizhaonensis sp. nov. The type strain is RZ02T (=KCTC 62828T=MCCC 1K04521T). In addition, based on the results of whole genome analyses, proposals of Pseudopontixanthobacter gen. nov., Pseudopontixanthobacter confluentis comb. nov. and Pseudopontixanthobacter sediminis comb. nov. are also included.
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Affiliation(s)
- Ang Liu
- Department of Pathogenic Biology, College of Basic Medicine, Jining Medical University, Jining 272067, Shandong, PR China
| | - Qing-Jie Xue
- Department of Pathogenic Biology, College of Basic Medicine, Jining Medical University, Jining 272067, Shandong, PR China
| | - Shi-Gen Li
- Department of Pathogenic Biology, College of Basic Medicine, Jining Medical University, Jining 272067, Shandong, PR China
| | - Yan-Jiao Zhang
- Shandong Province Key Laboratory of Applied Mycology, School of Life Sciences, Qingdao Agricultural University, Qingdao 266109, PR China
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Xu L, Sun C, Fang C, Oren A, Xu XW. Genomic-based taxonomic classification of the family Erythrobacteraceae. Int J Syst Evol Microbiol 2020; 70:4470-4495. [PMID: 32726199 PMCID: PMC7660246 DOI: 10.1099/ijsem.0.004293] [Citation(s) in RCA: 65] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 06/01/2020] [Indexed: 12/22/2022] Open
Abstract
The family Erythrobacteraceae, belonging to the order Sphingomonadales, class Alphaproteobacteria, is globally distributed in various environments. Currently, this family consist of seven genera: Altererythrobacter, Croceibacterium, Croceicoccus, Erythrobacter, Erythromicrobium, Porphyrobacter and Qipengyuania. As more species are identified, the taxonomic status of the family Erythrobacteraceae should be revised at the genomic level because of its polyphyletic nature evident from 16S rRNA gene sequence analysis. Phylogenomic reconstruction based on 288 single-copy orthologous clusters led to the identification of three separate clades. Pairwise comparisons of average nucleotide identity, average amino acid identity (AAI), percentage of conserved protein and evolutionary distance indicated that AAI and evolutionary distance had the highest correlation. Thresholds for genera boundaries were proposed as 70 % and 0.4 for AAI and evolutionary distance, respectively. Based on the phylo-genomic and genomic similarity analysis, the three clades were classified into 16 genera, including 11 novel ones, for which the names Alteraurantiacibacter, Altericroceibacterium, Alteriqipengyuania, Alteripontixanthobacter, Aurantiacibacter, Paraurantiacibacter, Parerythrobacter, Parapontixanthobacter, Pelagerythrobacter, Tsuneonella and Pontixanthobacter are proposed. We reclassified all species of Erythromicrobium and Porphyrobacter as species of Erythrobacter. This study is the first genomic-based study of the family Erythrobacteraceae, and will contribute to further insights into the evolution of this family.
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Affiliation(s)
- Lin Xu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
- College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, PR China
| | - Cong Sun
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
- College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, PR China
| | - Chen Fang
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
- College of Oceanography, Hohai University, Nanjing 210000, PR China
| | - Aharon Oren
- The Institute of Life Sciences, The Hebrew University of Jerusalem, Edmond J. Safra Campus, Jerusalem 9190401, Israel
| | - Xue-Wei Xu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
- School of Oceanography, Shanghai Jiao Tong University, Shanghai 200030, PR China
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5
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Altererythrobacter spongiae sp. nov., a novel member of the genus Altererythrobacter isolated from marine sponge. Int J Syst Evol Microbiol 2019; 69:2043-2048. [DOI: 10.1099/ijsem.0.003423] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Yoon J, Ryu J. Altererythrobacter rubellus sp. nov., a marine alphaproteobacterium isolated from seawater. FEMS Microbiol Lett 2019; 366:5519857. [DOI: 10.1093/femsle/fnz131] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2019] [Accepted: 06/11/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Jaewoo Yoon
- College of Pharmacy, Keimyung University, 1095 Dalgubeoldaero, Dalseo-Gu, Daegu 42601, Republic of Korea
| | - Jaewon Ryu
- Department of Energy Convergence, Chosun University, 309 Pilmundaero, Dong-Gu, Gwangju 61452, Republic of Korea
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Lee SD. Altererythrobacter lutipelagi sp. nov., isolated from a tidal mudflat, and emended description of the genus Altererythrobacter. Int J Syst Evol Microbiol 2019; 69:1980-1985. [PMID: 31050623 DOI: 10.1099/ijsem.0.003414] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A marine proteobacterium, designated strain GH1-16T, was isolated from a sample of tidal mudflat collected at the seashore of Gangwha Island, Republic of Korea and the taxonomic status was examined by a polyphasic approach. The isolate was Gram-reaction-negative, strictly aerobic, catalase- and oxidase-positive, non-motile, short-rod-shaped and produced yellow-coloured colonies. An absolute requirement for Na+ was observed. The major respiratory quinone was ubiquinone-10. The major polar lipids consisted of phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and sphingoglycolipid. The dominant cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C17 : 1ω6c. The DNA G+C content was 60.6 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain GH1-16T was closely related to members of the genus Altererythrobacter. The closest relative was Altererythrobacter marensis MSW-14T (97.3 % sequence similarity) followed by Altererythrobacter aquaemixtae JSSK-8T (96.8 %) and Altererythrobacter epoxidivorans JCS350T (96.7 %). The DNA relatedness of strain GH1-16T against its closest relative was 21.8-25.0 %. On the basis of data obtained by a polyphasic taxonomic approach, strain GH1-16T (=KCTC 52845T=NBRC 113275T) is considered to represent a novel species of the genus Altererythrobacter, for which the name Altererythrobacter lutipelagi sp. nov. is proposed.
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Affiliation(s)
- Soon Dong Lee
- Faculty of Science Education, Jeju National University, Jeju 63243, Republic of Korea
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Meng FX, Li G, Fang C, Wu YH, Cheng H, Chen Y, Wang CS, Shao Z, Xu XW. Altererythrobacter aerophilus sp. nov., isolated from deep-sea water of the north-west Pacific. Int J Syst Evol Microbiol 2019; 69:1689-1695. [PMID: 30942688 DOI: 10.1099/ijsem.0.003377] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, rod-shaped bacterium, designated Ery1T, was isolated from deep-sea seawater collected from the Mariana Trench and subjected to a polyphasic investigation for taxonomy. Strain Ery1T was able to grow in medium containing 0-10 % NaCl (w/v; optimum, 0-1.0 %), pH 5.0-9.5 (optimum, pH 6.0-7.0) and at temperatures between 10-45 °C (optimum, 30-40 °C). The comparison of 16S rRNA gene sequences revealed that strain Ery1T showed highest similarity to Altererythrobacterxinjiangensis S3-63T (97.7 %) and Altererythrobacterrigui WW3T (97.6 %), and exhibited less than 97.5 % sequence similarity to other type strains of the species with validly published names. Phylogenetic analyses indicated that strain Ery1T fell within the cluster comprising the Altererythrobacter species and formed a coherent clade with Altererythrobacterxinjiangensis and Altererythrobactersoli. The OrthoANIu and in silico DNA-DNA hybridization values between strain Ery1T and the reference strains were 73.8-75.9 % and 19.2-20.1 %, respectively. Strain Ery1T contained Q-10 as the major respiratory quinone and Q-11 in a minor amount. The major fatty acids (>10 %) were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0, C18 : 1ω7c 11-methyl and C14 : 0 2-OH. The major polar lipids were sphingoglycolipid, diphosphatidylglycerol, phosphatidyglycerol, phatidylethanolamine, phosphatidylcholine and three unidentified glycolipids. Differential phenotypic properties, chemotaxonomic differences, phylogenetic distinctiveness, together with the genomic data demonstrated that strain Ery1T represents a novel species of the genus Altererythrobacter, for which named as Altererythrobacter aerophilus sp. nov. with the type strain Ery1T (=KCTC 62387T=CGMCC 1.16499T=MCCC 1A10037T).
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Affiliation(s)
- Fan-Xu Meng
- 1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China.,2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
| | - Guangyu Li
- 3Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, PR China
| | - Chen Fang
- 1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China.,2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
| | - Yue-Hong Wu
- 1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China.,2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
| | - Hong Cheng
- 1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China.,2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
| | - Yanwu Chen
- 3Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, PR China
| | - Chun-Sheng Wang
- 1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China.,2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China
| | - Zongze Shao
- 3Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, PR China
| | - Xue-Wei Xu
- 2Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China.,1Key Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
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Feng T, Kim KH, Chun BH, Jeon CO. Amylibacter lutimaris sp. nov., isolated from sea-tidal flat sediment. Int J Syst Evol Microbiol 2018; 68:2088-2092. [DOI: 10.1099/ijsem.0.002805] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Tingye Feng
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Kyung Hyun Kim
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Byung Hee Chun
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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Jung HS, Lee J, Hyeon JW, Hyun S, Jeon CO. Albirhodobacter confluentis sp. nov., isolated from an estuary. Int J Syst Evol Microbiol 2018; 68:289-293. [DOI: 10.1099/ijsem.0.002499] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hye Su Jung
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Jaegeun Lee
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Jong Woo Hyeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Seogang Hyun
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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Liao H, Li Y, Zhang M, Lin X, Lai Q, Tian Y. Altererythrobacter mangrovi sp. nov., isolated from mangrove sediment. Int J Syst Evol Microbiol 2017; 67:4851-4856. [DOI: 10.1099/ijsem.0.002393] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hu Liao
- Key Laboratory of the Ministry of Education for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, PR China
| | - Yuqian Li
- Key Laboratory of the Ministry of Education for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, PR China
| | - Mengjia Zhang
- Key Laboratory of the Ministry of Education for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, PR China
| | - Xiaolan Lin
- Key Laboratory of the Ministry of Education for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, PR China
| | - Qiliang Lai
- Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China
| | - Yun Tian
- Key Laboratory of the Ministry of Education for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, PR China
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Lee Y, Jin HM, Jung HS, Jeon CO. Sphingobacterium humi sp. nov., isolated from soil. Int J Syst Evol Microbiol 2017; 67:4632-4638. [PMID: 28945541 DOI: 10.1099/ijsem.0.002345] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, facultatively aerobic bacterium, designated strain D1T, was isolated from soil in South Korea. Cells of strain D1T were non-motile rods with oxidase- and catalase-positive activities. Growth was observed at 15-40 °C (optimum, 30-37 °C), at pH 5.5-9.0 (optimum, pH 7.0-8.0) and in the presence of 0.0-5.0 % (w/v) NaCl (optimum, 0.0-1.0 %). The only respiratory quinone detected was menaquinone 7 (MK-7), and iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (comprising C16 : 1ω7c/C16 : 1ω6c) were identified as the major fatty acids. Phosphatidylethanolamine was the major polar lipid, and two unidentified glycophospholipids and four unidentified lipids were also detected as minor polar lipids. Sphingolipids, a typical chemotaxonomic feature of the genus Sphingobacterium, were detected. The G+C content of the genomic DNA was 43.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain D1T formed a phyletic lineage with Sphingobacterium hotanense XH4T within the genus Sphingobacterium. Strain D1T was most closely related to S. hotanense XH4T (98.1 % 16S rRNA gene sequence similarity) and Sphingobacterium cellulitidis R-53603T (97.2 %), and the DNA-DNA relatedness level between strain D1T and the type strain of S. cellulitidis was 43.1±0.7 %. Based on the phenotypic, chemotaxonomic and molecular features, strain D1T clearly represents a novel species of the genus Sphingobacterium, for which the name Sphingobacterium humi sp. nov. is proposed. The type strain is D1T (=KACC 18595T=JCM 31225T).
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Affiliation(s)
- Yunhee Lee
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hyun Mi Jin
- Freshwater Bioresources Utilization Division, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Hye Su Jung
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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Yuan N, Zeng Y, Feng H, Yu Z, Huang Y. Altererythrobacter xixiisoli sp. nov., isolated from wetland soil. Int J Syst Evol Microbiol 2017; 67:3655-3659. [PMID: 28879849 DOI: 10.1099/ijsem.0.002198] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, coccoid, yellow, non-motile, aerobic bacterium, designated strain S36T, was isolated from soil of the Xixi wetland in Zhejiang province, PR China. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain S36T could represent a novel species of genus Altererythrobacter showing highest similarity to Altererythrobacter atlanticus 26DY36T (96.31 % 16S rRNA gene sequence similarity). The temperature, pH and NaCl concentration ranges for growth were 10-37 °C (optimum 32 °C), pH 5.0-10.0 (optimum pH 7.0) and 0.5-3 % (optimum 1 %, w/v), respectively. The predominant respiratory quinone of strain S36T was Q-10. The major fatty acids were C16 : 0, C17 : 1ω6c, C18 : 1ω7c and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH). The G+C content of the genomic DNA was 62.7 mol%. These data all support the affiliation of strain S36T to the genus Altererythrobacter. The polar lipids profile of strain S36T comprised diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, two unidentified phospholipids and two unidentified glycolipids. The results of physiological and biochemical tests allowed differentiation of strain S36T from other members of the genus Altererythrobacter. Therefore, strain S36T represents a novel species of the genus Altererythrobacter, for which the name Altererythrobacter xixiisoli sp. nov. is proposed; the type strain is S36T (=CGMCC 1.12804T=NBRC 110413T).
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Affiliation(s)
- Nate Yuan
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, PR China
| | - Yanhua Zeng
- Department of Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, PR China
| | - Hao Feng
- Department of Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, PR China
| | - Zhiliang Yu
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, PR China
| | - Yili Huang
- Department of Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, PR China
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14
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Altererythrobacter aquiaggeris sp. nov., isolated from water of an estuary bank. Int J Syst Evol Microbiol 2017; 67:3410-3416. [DOI: 10.1099/ijsem.0.002128] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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15
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Park S, Jung YT, Choi SJ, Yoon JH. Altererythrobacter aquaemixtae sp. nov., isolated from the junction between the ocean and a freshwater spring. Int J Syst Evol Microbiol 2017; 67:3446-3451. [DOI: 10.1099/ijsem.0.002136] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Affiliation(s)
- Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Yong-Taek Jung
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Su Jung Choi
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
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16
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Chun BH, Lee HJ, Jeong SE, Schumann P, Jeon CO. Leucobacter ruminantium sp. nov., isolated from the bovine rumen. Int J Syst Evol Microbiol 2017; 67:2634-2639. [DOI: 10.1099/ijsem.0.002003] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Byung Hee Chun
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hyo Jung Lee
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
- Department of Biology, Kunsan National University, Gunsan 54150, Republic of Korea
| | - Sang Eun Jeong
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Peter Schumann
- Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, D-38124 Braunschweig, Germany
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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17
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Chun BH, Lee Y, Jin HM, Jeon CO. Cloacibacterium caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2017; 67:1688-1692. [DOI: 10.1099/ijsem.0.001841] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Byung Hee Chun
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Yunhee Lee
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hyun Mi Jin
- Freshwater Bioresources Utilization Division, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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18
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Jung HS, Jeong SE, Kim KH, Jeon CO. Parahaliea aestuarii sp. nov., isolated from the Asan Bay estuary. Int J Syst Evol Microbiol 2017; 67:1431-1435. [DOI: 10.1099/ijsem.0.001830] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hye Su Jung
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Sang Eun Jeong
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Kyung Hyun Kim
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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19
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Jia X, Jia B, Kim KH, Jeon CO. Algoriphagus aestuariicola sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 2017; 67:914-919. [DOI: 10.1099/ijsem.0.001711] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Xiaomeng Jia
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Baolei Jia
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Kyung Hyun Kim
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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20
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Zhao Q, Li HR, Han QQ, He AL, Nie CY, Wang SM, Zhang JL. Altererythrobacter soli sp. nov., isolated from desert sand. Int J Syst Evol Microbiol 2017; 67:454-459. [PMID: 27902308 DOI: 10.1099/ijsem.0.001652] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
An alkaliphilic strain designed MN-1T was isolated from a desert sand sample collected from Tengger desert, north-western China. To delineate its taxonomic position, this Gram-stain-negative, rod-shaped, strictly aerobic bacterium was subjected to a polyphasic taxonomic study. Growth was observed at temperatures from 4 to 37 °C (optimum 30-32 °C), at salinities from 0 to 2 % (optimum 1 %) and at pH from 6.5 to 12.0 (optimum 7.0-9.0). Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain MN-1T was a member of the genus Altererythrobacterbut could be distinguished from recognized species of this genus. Compared to the reference strains, the novel strain was flagellated and motile by means of polar flagella. The predominant respiratory quinone was ubiquinone-10 and the major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid, phosphatidylglycerol, phosphatidylcholine, one unidentified glycolipid, one unidentified phospholipid and four unidentified lipids. The predominant fatty acids were C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. These chemotaxonomic traits were in agreement with the characteristics of the genus Altererythrobacter. Strain MN-1T was most closely related to Altererythrobacter xinjiangensis S3-63T (96.9 % 16S rRNA gene sequence similarity), followed by Altererythrobacter dongtanensis JM27T (96.4 %) and Altererythrobacter marinus H32T (96.1 %). The G+C content of the genomic DNA of strain MN-1T was 67.0 mol%. On the basis of data from this polyphasic taxonomic study, strain MN-1T is proposed as the type strain of a novel species of the genus Altererythrobacter, named as Altererythrobacter soli sp. nov. (=KCTC 52135T=MCCC 1K02066T).
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Affiliation(s)
- Qi Zhao
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
| | - Hui-Ru Li
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
| | - Qing-Qing Han
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
| | - Ao-Lei He
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
| | - Cong-Yuan Nie
- Forestry Workstation of Alxa Right Banner, Inner Mongolia Autonomous Region, Alxa 750300, Inner Mongolia, PR China
| | - Suo-Min Wang
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
| | - Jin-Lin Zhang
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, PR China
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21
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Jia X, Kim HR, Jia B, Jeon HH, Baek K, Choi SH, Jeon CO. Roseovarius confluentis sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 2017; 67:346-351. [DOI: 10.1099/ijsem.0.001630] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Xiaomeng Jia
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hye Rim Kim
- National Research Laboratory of Molecular Microbiology and Toxicology, Department of Agricultural Biotechnology, and Center for Food Safety and Toxicology, Seoul National University, Seoul 08826, Republic of Korea
| | - Baolei Jia
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hye Hee Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Kyunghwa Baek
- National Marine Biodiversity Institute of Korea, Seocheon, Chungchungnam-do 33662, Republic of Korea
| | - Sang Ho Choi
- National Research Laboratory of Molecular Microbiology and Toxicology, Department of Agricultural Biotechnology, and Center for Food Safety and Toxicology, Seoul National University, Seoul 08826, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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22
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Kim JH, Yoon JH, Kim W. Altererythrobacter sediminis sp. nov., isolated from lagoon sediments. Int J Syst Evol Microbiol 2016; 66:5424-5429. [DOI: 10.1099/ijsem.0.001535] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Affiliation(s)
- Jong-Hwa Kim
- Department of Microbiology, Chung-Ang University College of Medicine, Seoul, Republic of Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Suwon, Republic of Korea
| | - Wonyong Kim
- Department of Microbiology, Chung-Ang University College of Medicine, Seoul, Republic of Korea
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23
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Park S, Jung YT, Park JM, Yoon JH. Altererythrobacter confluentis sp. nov., isolated from water of an estuary environment. Int J Syst Evol Microbiol 2016; 66:4002-4008. [DOI: 10.1099/ijsem.0.001301] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Yong-Taek Jung
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
- University of Science and Technology (UST), 113 Gwahangno, Yuseong, Daejeon, Republic of Korea
| | - Ji-Min Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
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24
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Xue H, Piao CG, Guo MW, Wang LF, Fang W, Li Y. Description of Altererythrobacter aerius sp. nov., isolated from air, and emended description of the genus Altererythrobacter. Int J Syst Evol Microbiol 2016; 66:4543-4548. [PMID: 27499156 DOI: 10.1099/ijsem.0.001388] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, yellow-pigmented, ovoid to rod-shaped, strictly aerobic bacterial strain, designated 100921-2T, was isolated from air at the foot of Xiangshan Mountain. Phylogenetic and phenotypic analysis of the organism revealed that the isolate belongs to the genus Altererythrobacter. Strain 100921-2T showed high 16S rRNA gene sequence similarity (96.01-94.70 %) to other type strains of the genus Altererythrobacter, with the highest similarity to Altererythrobactermarensis MSW-14T. Growth of strain 100921-2T was observed at 4-50 °C (optimum, 30 °C), at pH 4.5-10.0 (optimum, pH 7.0) and at salinities of 0-10 % (w/v) NaCl (optimum 0-0.5 %). The major fatty acids were C18 : 1ω7c (27.8 %), C17 : 1ω6c (23.1 %), 11-methyl C18 : 1ω7c(11.9 %), summed feature 3 (9.1 %) and C15 : 0 2-OH (7.9 %). The predominant respiratory quinone was ubiquinone-10 (Q-10). Polar lipid analysis indicated the presence of diphosphatidylglycerol, sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, two unknown phospholipids, five unknown polar lipids and two unknown glycolipids. The DNA G+C content of the type strain was 67.5 mol%. On the basis of the data from the polyphasic characterization, strain 100921-2T represents a novel species, for which the name Altererythrobacter aerius sp. nov. is proposed. The type strain is 100921-2T (=CFCC 14287T=KCTC 42844T).
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Affiliation(s)
- Han Xue
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
| | - Chun-Gen Piao
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
| | - Min-Wei Guo
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
| | - Lai-Fa Wang
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
| | - Wei Fang
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
| | - Yong Li
- Key Laboratory of State Forestry Administration on Forest Protection, Research Institute of Forest Ecology Environment and Protection, Chinese Academy of Forestry, Beijing 100091, PR China
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25
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Altererythrobacter aurantiacus sp. nov., isolated from deep-sea sediment. Antonie van Leeuwenhoek 2016; 109:1245-51. [DOI: 10.1007/s10482-016-0726-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2016] [Accepted: 06/27/2016] [Indexed: 10/21/2022]
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26
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Lee Y, Jeong HI, Jeong SE, Jeon CO. Zeaxanthinibacter aestuarii sp. nov., isolated from estuary sediment and emended description of the genus Zeaxanthinibacter Asker et al. 2007. Int J Syst Evol Microbiol 2016; 66:3264-3269. [PMID: 27220982 DOI: 10.1099/ijsem.0.001185] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-negative, strictly aerobic and yellow-pigmented bacterium, designated strain S2-22T, was isolated from estuary sediment in South Korea. Cells of strain S2-22T were oxidase- and catalase-positive rods without gliding motility. Growth was observed at 15-43 °C (optimum, 35-37 °C), at pH 5.5-9.0 (optimum, pH 6.5-7.5) and in the presence of 0.0-10.0 % (w/v) NaCl (optimum, 2.0 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S2-22T formed a tight phyletic lineage with Zeaxanthinibacter enoshimensis TD-ZE3T with a high bootstrap value and their 16S rRNA gene sequence similarity was 94.6 %. The respiratory quinone detected was menaquinone 6 (MK-6) only and iso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (comprising C16 : 1ω7c/C16 : 1ω6c) and iso-C15 : 1G were the major fatty acids. Phosphatidylethanolamine was identified as the major polar lipid and five unidentified aminolipids, two unidentified phospholipids and three unidentified lipids were also detected as minor polar lipids. The G+C content of the genomic DNA was 45.5 mol%. Based on the phenotypic, chemotaxonomic and molecular features, strain S2-22T clearly represents a novel species of the genus Zeaxanthinibacter, for which the name Zeaxanthinibacter aestuarii sp. nov. is proposed. The type strain is S2-22T (=KACC 18503T=JCM 31155T). An emended description of the genus Zeaxanthinibacter is also proposed.
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Affiliation(s)
- Yunhee Lee
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hye Im Jeong
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Sang Eun Jeong
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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27
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Feng XM, Mo YX, Han L, Nogi Y, Zhu YH, Lv J. Qipengyuania sediminis gen. nov., sp. nov., a member of the family Erythrobacteraceae isolated from subterrestrial sediment. Int J Syst Evol Microbiol 2016. [PMID: 26220187 DOI: 10.1099/ijsem.0.000472] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-negative, non-motile, facultatively aerobic bacterium, designated strain M1T, was isolated from a subterrestrial sediment sample of Qiangtang Basin in Qinghai-Tibetan plateau, China. The strain formed rough yellow colonies on R2A plates. Cells were oval or short rod-shaped, catalase-positive and oxidase-negative. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the isolate belonged to the family Erythrobacteraceae and showed 96.2–96.4 % 16S rRNA gene sequence similarities to its closest relatives. Chemotaxonomic analysis revealed ubiquinone-10 (Q10) as the dominant respiratory quinone of strain M1T and C17 : 1ω6c (44.2 %) and C18 : 1ω7c (13.7 %) as the major fatty acids. The major polar lipids were phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, sphingoglycolipid, three unidentified glycolipids, one unidentified phosphoglycolipid and one unidentified lipid. The DNA G+C content of strain M1T was 73.7 mol%. On the basis of phenotypic, phylogenetic and genotypic data presented in this study, strain M1T represents a novel species of a new genus in the family Erythrobacteraceae, for which the name Qipengyuania sediminis gen. nov., sp. nov. is proposed. The type strain of the type species is M1T ( = CGMCC 1.12928T = JCM 30182T).
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Affiliation(s)
- Xiao-Min Feng
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 10029, PR China
| | - Yong-Xin Mo
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 10029, PR China
| | - Lu Han
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 10029, PR China.,College of Resources and Environmental Science, East China Normal University, Shanghai 200241, PR China
| | - Yuichi Nogi
- Research and Development Center for Marine Biosciences, Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka 237-0061, Japan
| | - You-Hai Zhu
- Oil and Gas Survey, China Geological Survey, Beijing 10029, PR China
| | - Jie Lv
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 10029, PR China
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28
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Arenimonas aestuarii sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 2016; 66:1527-1532. [DOI: 10.1099/ijsem.0.000913] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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29
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Jeong SE, Lee HJ, Jeon CO. Lysobacter aestuarii sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 2016; 66:1346-1351. [DOI: 10.1099/ijsem.0.000884] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Sang Eun Jeong
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
| | - Hyo Jung Lee
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
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30
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Kim KH, Jin HM, Jeong HI, Jeon CO. Maribacter lutimaris sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 2016; 66:1773-1778. [PMID: 26828017 DOI: 10.1099/ijsem.0.000942] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-negative, moderately halophilic and strictly aerobic bacterium, designated strain KJ4T, was isolated from marine sediment at Gangjin in South Korea. Cells were catalase- and oxidase-positive long rods with gliding motility. Growth of strain KJ4T was observed at 4-37 °C (optimum, 15-25 °C), at pH 6.0-9.0 (optimum, pH 7.0-8.5) and in the presence of 1.0-7.0% (w/v) NaCl (optimum, 2.0-5.0%). Menaquinone 6 (MK-6) was the only isoprenoid quinone detected and iso-C15:0, iso-C17:0 3-OH, iso-C15:1 G and summed feature 3 (comprising C16:1ω7c and/or C16:1ω6c) were the major cellular fatty acids. The polar lipids of strain KJ4T consisted of phosphatidylethanolamine, an unidentified aminophospholipid and five unidentified lipids. The G+C content of the genomic DNA was 38.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain KJ4T formed a distinct phylogenetic lineage within the genus Maribacter. Strain KJ4T was most closely related to Maribacter orientalis KMM 3947T with 97.4% 16S rRNA gene sequence similarity. On the basis of phenotypic, chemotaxonomic and molecular features, strain KJ4T clearly represents a novel species of the genus Maribacter, for which the name Maribacter lutimaris sp. nov. is proposed. The type strain is KJ4T (=KACC 16438T=JCM 31154T).
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Affiliation(s)
- Kyung Hyun Kim
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Hyun Mi Jin
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea.,Freshwater Bioresources Utilization Division, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Hye Im Jeong
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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31
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Srinivasan S, Joo ES, Kim EB, Jeon SH, Jung HY, Kim MK. Altererythrobacter terrae sp. nov., isolated from mountain soil. Antonie van Leeuwenhoek 2016; 109:397-404. [PMID: 26803765 DOI: 10.1007/s10482-015-0643-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2015] [Accepted: 12/23/2015] [Indexed: 11/30/2022]
Abstract
A Gram-negative, non-motile, non-spore-forming, ovoid-shaped bacterium designated as SWU3(T) was isolated from mountain soil collected at Seoul Women's University, South Korea. Based on 16S rRNA sequence analysis, strain SWU3(T) was found to belong to the genus Altererythrobacter. It shares high sequence similarities with A. dongtanensis JM27(T) (96.6 %), A. epoxidivorans JCS350(T) (96.6 %), and A. troitsensis KMM 6042(T) (96.5 %). Growth was observed between 15 and 37 °C (optimum, 30 °C) with pH of 6-9 (optimum, pH 7.0). It could tolerate 0-2 % (w/v) NaCl. Its predominant quinone was found to be ubiquinone (Q-10). Its major cellular fatty acids were determined to be C17:1 ω6c, C18:1 ω7c, and summed featured 3 (C16:1 ω7c/C16:1 ω6c), all of which are similar characteristics to those of species within the genus Altererythrobacter. Its G + C molar content was found to be 58.4 mol%. Phylogenetic evidence, together with phenotypic characteristics showed that strain SWU3(T) represents a new species of the genus Altererythrobacter. The name Altererythrobacter terrae sp. nov. is proposed and the type strain is SWU3(T) (=KEMB 9004-128(T) = JCM 19177(T)).
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Affiliation(s)
- Sathiyaraj Srinivasan
- Division of Environmental & Life Science, Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, 623 Hwarangno, Nowon-gu, Seoul, 139-774, Republic of Korea
| | - Eun Sun Joo
- Division of Environmental & Life Science, Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, 623 Hwarangno, Nowon-gu, Seoul, 139-774, Republic of Korea
| | - Eun Bit Kim
- Division of Environmental & Life Science, Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, 623 Hwarangno, Nowon-gu, Seoul, 139-774, Republic of Korea
| | - Seon Hwa Jeon
- Division of Environmental & Life Science, Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, 623 Hwarangno, Nowon-gu, Seoul, 139-774, Republic of Korea
| | - Hee-Young Jung
- College of Agricultural and Life Sciences, Kyungpook National University, Daegu, 702-701, Republic of Korea
| | - Myung Kyum Kim
- Division of Environmental & Life Science, Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, 623 Hwarangno, Nowon-gu, Seoul, 139-774, Republic of Korea.
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Rheinheimera gaetbuli sp. nov., a Marine Bacterium Isolated from a Tidal Flat. Curr Microbiol 2015; 72:344-50. [PMID: 26660082 DOI: 10.1007/s00284-015-0956-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2015] [Accepted: 10/28/2015] [Indexed: 10/22/2022]
Abstract
A gram-staining-negative, strictly aerobic, rod-shaped, and motile bacterium with a single polar flagellum, designated H26(T), was isolated from tidal flat sediment in Jeju Island, South Korea. Growth of strain H26(T) was observed at 4-35 °C (optimum, 20-25 °C), pH 6.0-9.0 (optimum, pH 7.0-8.0), and 1-4 % NaCl (optimum, 2-3 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain H26(T) formed a phyletic lineage within the genus Rheinheimera, family Chromatiaceae. Strain H26(T) was most closely related to Rheinheimera baltica OSBAC1(T), Rheinheimera aestuarii H29(T), Rheinheimera muenzenbergensis E49(T), and Rheinheimera aquimaris SW-353(T) with 98.5, 98.1, 97.8, and 97.5 % of 16S rRNA gene sequence similarities, respectively. The DNA-DNA relatedness levels between strain H26(T) and the type strains of R. baltica, R. aestuarii, R. muenzenbergensis, and R. aquimaris were 35.5 ± 3.2, 33.4 ± 1.5, 31.2 ± 2.2, and 28.7 ± 0.9 %, respectively. The major fatty acids of strain H26(T) were iso-C15:0 3-OH, summed feature 3 (comprising C16:1 ω7c/C16:1 ω6c), C16:0, summed feature 8 (comprising C18:1 ω7c/C18:1 ω6c), iso-C17:0 3-OH, and C12:0 3-OH and the strain contained ubiquinone (Q-8) as the sole isoprenoid quinone. Phosphatidylethanolamine, phosphatidylglycerol, and an aminolipid were identified as the major polar lipids and the G + C content of the genomic DNA was 52.0 mol%. Based on the phenotypic, chemotaxonomic, and molecular properties, strain H26(T) represents a novel species of the genus Rheinheimera, for which the name Rheinheimera gaetbuli sp. nov. is proposed. The type strain was H26(T) (=KACC 18254(T) = JCM 30403(T)).
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Baek K, Jeon CO. Rheinheimera aestuari sp. nov., a marine bacterium isolated from coastal sediment. Int J Syst Evol Microbiol 2015; 65:2640-2645. [DOI: 10.1099/ijs.0.000312] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, strictly aerobic, non-pigmented, motile bacterium with a single polar flagellum, designated H29T, was isolated from coastal sediment of Jeju Island, South Korea. Cells were non-spore-forming rods showing catalase- and oxidase-positive reactions. Growth of strain H29T was observed at 10–40 °C (optimum, 20–25 °C) and pH 6.0–9.0 (optimum, pH 7.0–8.0), and in the presence of 1–4 % (w/v) NaCl (optimum, 2–3 %). Strain H29T contained C16 : 0, iso-C15 : 0 3-OH and summed feature 3 (comprising C16 : 1ω7c/C16 : 1ω6c) as the major fatty acids and ubiquinone-8 (Q-8) as the sole isoprenoid quinone. Phosphatidylethanolamine and phosphatidylglycerol were identified as the major polar lipids. The G+C content of the genomic DNA was 46.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain H29T formed a phyletic lineage with Rheinheimera hassiensis E48T within the genus Rheinheimera of the family Chromatiaceae. Strain H29T was most closely related to Rheinheimera pacifica KMM 1406T, Rheinheimera muenzenbergensis E49T, Rheinheimera hassiensis E48T and Rheinheimera baltica OSBAC1T with 97.8 %, 97.6 %, 97.4 % and 97.2 % 16S rRNA gene sequence similarities, respectively. However, DNA–DNA hybridization values of strain H29T with type strains of these species were lower than 70 %. On the basis of the phenotypic, chemotaxonomic and molecular properties, strain H29T represents a novel species of the genus Rheinheimera, for which the name Rheinheimera
aestuarii sp. nov. is proposed. The type strain is H29T ( = KACC 18251T = JCM 30404T).
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Affiliation(s)
- Kyunghwa Baek
- Department of Life Science, Chung-Ang University, Seoul 156-756, Republic of Korea
- Marine Microorganisms Team, National Marine Biodiversity Institute of Korea, Chungcheongnamdo 325-902, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 156-756, Republic of Korea
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Baek K, Ok Jeon C. Mucilaginibacter vulcanisilvae sp. nov., isolated from a volcanic forest. Int J Syst Evol Microbiol 2015; 65:2036-2041. [DOI: 10.1099/ijs.0.000214] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, strictly aerobic, pale-pink-pigmented bacterium, designated strain G27T, was isolated from a volcanic forest of Jeju Island, South Korea. Cells were catalase- and oxidase-positive, non-motile rods producing exopolysaccharide and flexirubin-type and pale pink pigments. Growth of strain G27T was observed at 4–30 °C (optimum, 25 °C) and pH 5.0–8.0 (optimum, pH 7.0). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain G27T formed a phyletic lineage within the genus Mucilaginibacter of the family Sphingobacteriaceae. Strain G27T was related most closely to Mucilaginibacter gossypii Gh-67T at 96.5 % 16S rRNA gene sequence similarity. Strain G27T contained menaquinone 7 (MK-7) as the sole isoprenoid quinone and summed feature 3 (comprising C16:
1ω7c/C16:
1ω6c), iso-C15:
0, C16:
0, C16:
1ω5c and C16:
1ω5c as the major cellular fatty acids. Phosphatidylethanolamine was identified as the major polar lipid. The G+C content of the genomic DNA was 46.5 mol%. On the basis of phenotypic, chemotaxonomic and molecular properties, strain G27T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter vulcanisilvae sp. nov. is proposed. The type strain is G27T ( = KACC 18231T = JCM 30363T).
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Affiliation(s)
- Kyunghwa Baek
- Department of Life Science, Chung-Ang University, Seoul, 156-756, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul, 156-756, Republic of Korea
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Jung YT, Park S, Lee JS, Yoon JH. Altererythrobacter aestiaquae sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2014; 64:3943-3949. [DOI: 10.1099/ijs.0.066639-0] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, coccoid- or oval-shaped, gliding bacterial strain, designated HDW-31T, belonging to the class
Alphaproteobacteria
, was isolated from seawater of the Yellow Sea, Korea, and was subjected to a taxonomic study using a polyphasic approach. Strain HDW-31T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2–3 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences showed that strain HDW-31T fell within the clade comprising the genus
Altererythrobacter
, clustering with the type strains of
Altererythrobacter luteolus
and
Altererythrobacter gangjinensis
, with which strain HDW-31T exhibited 97.0 and 96.0 % sequence similarity values, respectively. Sequence similarities to the type strains of the other recognized species of the genus
Altererythrobacter
were 93.5–96.0 %. The DNA G+C content was 57.9 mol% and mean DNA–DNA relatedness between strain HDW-31T and the type strain of
A. luteolus
was 5.3 %. Strain HDW-31T contained Q-10 as the predominant ubiquinone and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and C16 : 0 as the major fatty acids. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, a sphingoglycolipid, two unidentified glycolipids and an unidentified lipid. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, demonstrated that strain HDW-31T is distinguishable from recognized species of the genus
Altererythrobacter
. On the basis of the data presented, strain HDW-31T is considered to represent a novel species of the genus
Altererythrobacter
, for which the name Altererythrobacter aestiaquae sp. nov. is proposed. The type strain is HDW-31T ( = KCTC 42006T = CECT 8527T).
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Affiliation(s)
- Yong-Taek Jung
- University of Science and Technology (UST), 113 Gwahangno, Yuseong, Daejeon, Republic of Korea
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, Republic of Korea
| | - Jung-Sook Lee
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, 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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Jin HM, Jeon CO. Litoribaculum gwangyangense gen. nov., sp. nov., isolated from a sea-tidal flat sediment. Int J Syst Evol Microbiol 2014; 65:381-387. [PMID: 25368139 DOI: 10.1099/ijs.0.068684-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, strictly aerobic bacterium, designated strain GY12(T), was isolated from a tidal flat of South Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods with gliding motility, and were devoid of flagella. Growth of strain GY12(T) was observed at 15-40 °C (optimum 25-30 °C), pH 6.0-8.5 (optimum pH 7.0-7.5) and with 1-5 % (w/v) NaCl (optimum 1-2 %). The major cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0 and iso-C15 : 0 3-OH. The polar lipids consisted almost entirely of phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. The G+C content of the genomic DNA was 34.8 mol% and the only respiratory quinone detected was menaquinone-6 (MK-6). Strain GY12(T) was most closely related to the genera Gaetbulibacter, Flaviramulus, Mariniflexile and Tamlana with 16S rRNA gene sequence similarities of 94-97 %, but phylogenetic inferences based on 16S rRNA gene sequences showed that the strain formed phyletic lineages distinct from these genera within the family Flavobacteriaceae. On the basis of phenotypic and molecular features, strain GY12(T) represents a novel species of a new genus in the family Flavobacteriaceae, for which the name Litoribaculum gwangyangense gen. nov., sp. nov. is proposed. The type strain of the type species is GY12(T) ( = KACC 16441(T) = JCM 18325(T)).
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Affiliation(s)
- Hyun Mi Jin
- Department of Life Science, Chung-Ang University, Seoul, 156-756, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul, 156-756, Republic of Korea
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Altererythrobacter oceanensis sp. nov., isolated from the Western Pacific. Antonie van Leeuwenhoek 2014; 106:1191-8. [PMID: 25245787 DOI: 10.1007/s10482-014-0288-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2014] [Accepted: 09/16/2014] [Indexed: 10/24/2022]
Abstract
A Gram-stain negative, ovoid-rod shaped, strictly aerobic bacterium, strain Y2(T), was isolated from a deep-sea sediment of the Western Pacific. Phylogenetic and phenotypic properties of the organism indicated that it belongs to the genus Altererythrobacter. Strain Y2(T) shares highest 16S rRNA gene sequence similarity of 96.6 % with Erythrobacter jejuensis CNU001(T), followed by the type strains of recognized members of the genus Altererythrobacter (94.8-96.5 %). Strain Y2(T) forms a clade with E. jejuensis CNU001(T) in the cluster of species of the genus Altererythrobacter. Growth of strain Y2(T) was observed at 4-40 °C (optimum, 35-37 °C), at pH 6.0-10.0 (optimum, pH 7.0-8.0) and in the presence of 0-5 % (w/v) NaCl (optimum, 2-3 %). The major cellular fatty acids were found to be C17:1 ω6c (41.5 %), summed feature 8 (C18:1 ω7c and/or C18:1 ω6c; 17.2 %), C17:1 ω8c (11.0 %) and C15:0 2OH (8.1 %). The major respiratory quinone was determine to be ubiquinone 10 (Q-10). The polar lipid analysis indicated the presence of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol, one sphingoglycolipid, three unidentified phospholipids, two unidentified glycolipids, two unidentified aminolipids and three unknown lipids. The DNA G + C content of the type strain is 60.0 mol %. On the basis of the data from the polyphasic characterization, strain Y2(T) represents a novel species, for which the name Altererythrobacter oceanensis sp. nov. is proposed. The type strain is Y2(T) (=CGMCC 1.12752(T) =LMG 28109(T)).
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Citrimicrobium luteum gen. nov., sp. nov., aerobic anoxygenic phototrophic bacterium isolated from the gut of a sea cucumber Stichopus japonicus. J Microbiol 2014; 52:819-24. [PMID: 25163838 DOI: 10.1007/s12275-014-4136-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2014] [Revised: 07/17/2014] [Accepted: 08/05/2014] [Indexed: 10/24/2022]
Abstract
A Gram-stain negative, yellow-pigmented, motile, pleomorphic bacterium, designated strain CBA4602(T), was isolated from the gut of the sea cucumber Stichopus japonicus, which was collected from Jeju Island in the Republic of Korea. In a phylogenetic analysis based on the 16S rRNA gene, strain CBA4602(T) belonged to the order Sphingomonadales in the class Alphaproteobacteria. The 16S rRNA gene sequence similarity between strain CBA4602(T) and 'Citromicrobium bathyomarinum' JF-1, the most closely related strain having nonvalidly published name, was 98.4%, followed by 95.2-96.7% identities with sequence of the other closest strains in the genus Erythrobacter. Strain CBA4602(T) had bacteriochlorophyll a and carotenoids. Strain CBA4602(T) grew in 0-10% (w/v) NaCl, at 10-42°C and pH 6.0-8.0, with optimal growth in 1-2% NaCl, at 30-37°C and pH 7.0. Strain CBA4602(T) was positive for catalase and oxidase activities and was able to hydrolyse gelatine and Tween 20 and 40, but not starch, Tween 80 or L-tyrosine. The G+C content of genomic DNA from strain CBA4602(T) was 68.0 mol% and Q-10 was the major detected isoprenoid quinone. The polar lipids were three unidentified phospholipids, three unidentified glycolipids, and two unidentified lipids. The dominant fatty acids were anteiso-C15:0, C16:0, anteiso-C17:0 and C18:0. As considering the current taxonomic status of the genus 'Citromicrobium' and polyphasic taxonomic analyses, strain CBA4602(T) represents a novel genus and species. The name Citrimicrobium luteum is proposed for the type strain CBA4602(T) (=KACC 17668(T) =JCM 19530(T)).
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Lo N, Jin HM, Jeon CO. Photobacterium aestuarii sp. nov., a marine bacterium isolated from a tidal flat. Int J Syst Evol Microbiol 2014; 64:625-630. [DOI: 10.1099/ijs.0.056861-0] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-negative, motile, weakly halophilic and facultatively aerobic bacterium, designated strain YA11T, was isolated from tidal flat sediment at Yeongam Bay, South Korea. Strain YA11T grew at 10–30 °C (optimum, 20 °C), at pH 6.0–10.0 (optimum, pH 6.5–7.5) and in the presence of 1–6 % (w/v) NaCl (optimum, 2–3 %). The major cellular fatty acids of the strain were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The DNA G+C content of the genomic DNA was 44.2 mol%. Strain YA11T contained Q-8 as the sole respiratory quinone. A phylogenetic tree based on 16S rRNA gene sequences showed that strain YA11T formed a distinct phyletic lineage within the genus
Photobacterium
and the 16S rRNA gene sequence similarities between strain YA11T and the type strains of species of the genus
Photobacterium
ranged between 94.0 and 96.4 %. Based on the phenotypic, chemotaxonomic and molecular properties, strain YA11T represents a novel species of the genus
Photobacterium
, for which the name Photobacterium aestuarii sp. nov. is proposed, with strain YA11T( = KACC 16912T = JCM 18592T) as the type strain.
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Affiliation(s)
- Naysim Lo
- School of Biological Sciences & Research Center for Biomolecules and Biosystems, Chung-Ang University, Seoul, 156-756, Republic of Korea
| | - Hyun Mi Jin
- School of Biological Sciences & Research Center for Biomolecules and Biosystems, Chung-Ang University, Seoul, 156-756, Republic of Korea
| | - Che Ok Jeon
- School of Biological Sciences & Research Center for Biomolecules and Biosystems, Chung-Ang University, Seoul, 156-756, Republic of Korea
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Lei X, Li Y, Chen Z, Zheng W, Lai Q, Zhang H, Guan C, Cai G, Yang X, Tian Y, Zheng T. Altererythrobacter xiamenensis sp. nov., an algicidal bacterium isolated from red tide seawater. Int J Syst Evol Microbiol 2014; 64:631-637. [DOI: 10.1099/ijs.0.057257-0] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, yellow-pigmented, aerobic bacterial strain, designated LY02T, was isolated from red tide seawater in Xiamen, Fujian Province, China. Growth was observed at temperatures from 4 to 44 °C, at salinities from 0 to 9 % and at pH from 6 to 10. Phylogenetic analysis based on 16S rRNA gene sequencing revealed that the isolate was a member of the genus
Altererythrobacter
, which belongs to the family
Erythrobacteraceae
. Strain LY02T was related most closely to
Altererythrobacter marensis
MSW-14T (97.2 % 16S rRNA gene sequence similarity), followed by
Altererythrobacter ishigakiensis
JPCCMB0017T (97.1 %),
Altererythrobacter epoxidivorans
JCS350T (97.1 %) and
Altererythrobacter luteolus
SW-109T (97.0 %). The dominant fatty acids were C18 : 1ω7c, C17 : 1ω6c and summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c). DNA–DNA hybridization showed that strain LY02T possessed low DNA–DNA relatedness to
A. marensis
MSW-14T,
A. ishigakiensis
JPCCMB0017T,
A. epoxidivorans
JCS350T and
A. luteolus
SW-109T (mean±sd of 33.2±1.3, 32.1±1.0, 26.7±0.7 and 25.2±1.1 %, respectively). The G+C content of the chromosomal DNA was 61.2 mol%. The predominant respiratory quinone was ubiquinone-10 (Q-10). According to its morphology, physiology, fatty acid composition and 16S rRNA gene sequence data, the novel strain most appropriately belongs to the genus
Altererythrobacter
, but can readily be distinguished from recognized species. The name Altererythrobacter xiamenensis sp. nov. is proposed (type strain LY02T = CGMCC 1.12494T = KCTC 32398T = NBRC 109638T).
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Affiliation(s)
- Xueqian Lei
- ShenZhen Research Institute of Xiamen University, ShenZhen, 518057, PR China
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Yi Li
- ShenZhen Research Institute of Xiamen University, ShenZhen, 518057, PR China
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Zhangran Chen
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Wei Zheng
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Qiliang Lai
- Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, State Oceanic Administration, PR China
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Huajun Zhang
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Chengwei Guan
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Guanjing Cai
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Xujun Yang
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Yun Tian
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
| | - Tianling Zheng
- ShenZhen Research Institute of Xiamen University, ShenZhen, 518057, PR China
- State Key Laboratory of Marine Environmental Science and Key Laboratory of MOE for Coast and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, PR China
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Wu YH, Xu L, Meng FX, Zhang DS, Wang CS, Oren A, Xu XW. Altererythrobacter atlanticus sp. nov., isolated from deep-sea sediment. Int J Syst Evol Microbiol 2014; 64:116-121. [DOI: 10.1099/ijs.0.052951-0] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, short rod-shaped bacterium, designated 26DY36T, was isolated from a deep-sea sediment sample collected from the North Atlantic Rise. The isolate required NaCl and grew best with 2 % (w/v) sea salts at a temperature of 30–35 °C and at pH 7.0. It formed yellow colonies, produced carotenoid-like pigments and did not produce bacteriochlorophyll a. Strain 26DY36T was positive for hydrolysis of aesculin, gelatin, tyrosine and Tweens 20, 40, 60 and 80, but negative for hydrolysis of casein, DNA and starch. The major respiratory quinone was ubiquinone-10. The major polar lipid profile consisted of sphingoglycolipid, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine and two unidentified glycolipids. The principal fatty acids (>5 %) were C18 : 1ω7c, C17 : 1ω6c, C15 : 0 2-OH and C16 : 0. The genomic DNA G+C content was 59.4 mol%. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain 26DY36T should be assigned to the genus
Altererythrobacter
. 16S rRNA gene sequence similarities between the isolate and the type strains of species of the genus
Altererythrobacter
were in the range 92.7–96.5 %. On the basis of phenotypic and genotypic data, strain 26DY36T represents a novel species of the genus
Altererythrobacter
, for which the name Altererythrobacter atlanticus sp. nov. (type strain, 26DY36T = CGMCC 1.12411T = JCM 18865T) is proposed.
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Affiliation(s)
- Yue-Hong Wu
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
| | - Lin Xu
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
| | - Fan-Xu Meng
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
| | - Dong-Sheng Zhang
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
| | - Chun-Sheng Wang
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
| | - Aharon Oren
- Department of Plant and Environmental Sciences, the Alexander Silberman Institute of Life Sciences, Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Xue-Wei Xu
- Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
- Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
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Park HY, Jeon CO. Shewanella
aestuarii sp. nov., a marine bacterium isolated from a tidal flat. Int J Syst Evol Microbiol 2013; 63:4683-4690. [DOI: 10.1099/ijs.0.055178-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Abstract
A Gram-stain-negative, non-spore-forming, facultatively anaerobic bacterium, designated strain SC18T, was isolated from a tidal flat of Suncheon bay in South Korea. Cells were rod-shaped and motile by means of a polar flagellum. Cells were catalase-, oxidase- and β-haemolysis-positive. Growth was observed at 4–37 °C (optimum, 25–30 °C), at pH 5.0–9.0 (optimum, pH 7.0) and in the presence of 0–5.0 % (w/v) NaCl (optimum, 0–2 %). The major cellular fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), iso-C15 : 0 and C16 : 0. The polar lipid pattern indicated the presence of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmethylethanolamine, an unidentified aminolipid and three unidentified lipids. Strain SC18T contained Q-7, Q-8, MK-7 and MMK-7 as the dominant respiratory quinones and the G+C content of the genomic DNA was 41.3 mol%. Phylogenetic analysis based on 16S rRNA and gyrase B (gyrB) gene sequences showed that strain SC18T formed a tight phyletic lineage with members of the genus
Shewanella
. Strain SC18T was related most closely to
Shewanella denitrificans
OS217T (97.3 % 16S rRNA gene sequence similarity) and
Shewanella gaetbuli
TF-27T (97.1 %), but the DNA–DNA relatedness levels between strain SC18T and the type strains of
S. denitrificans
and
S. gaetbuli
were 18.3±2.8 and 22.5±1.6 % (mean±sd), respectively. On the basis of phenotypic, chemotaxonomic and molecular features, strain SC18T represents a novel species of the genus
Shewanella
, for which the name
Shewanella
aestuarii sp. nov. is proposed. The type strain is SC18T ( = KACC 16187T = JCM 17801T).
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Affiliation(s)
- Hye Yoon Park
- Microorganism Resources Division, National Institute of Biological Resources, Incheon 404-708, Republic of Korea
- School of Biological Sciences, Chung-Ang University, Seoul, 156-756, Republic of Korea
| | - Che Ok Jeon
- School of Biological Sciences, Chung-Ang University, Seoul, 156-756, Republic of Korea
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