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Emsley SA, Loughran RM, Shlafstein MD, Pfannmuller KM, De La Flor YT, Lein CG, Dove NC, Koyack MJ, Oline DK, Hanson TE, Videau P, Saw JH, Ushijima B. Fluctibacter corallii gen. nov., sp. nov., isolated from the coral Montipora capitata on a reef in Kāne'ohe Bay, O'ahu, Hawai'i, reclassification of Aestuariibacter halophilus as Fluctibacter halophilus comb. nov., and Paraglaciecola oceanifecundans as a later heterotypic synonym of Paraglaciecola agarilytica. Antonie Van Leeuwenhoek 2024; 117:45. [PMID: 38424217 DOI: 10.1007/s10482-024-01934-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2023] [Accepted: 01/25/2024] [Indexed: 03/02/2024]
Abstract
Strain AA17T was isolated from an apparently healthy fragment of Montipora capitata coral from the reef surrounding Moku o Lo'e in Kāne'ohe Bay, O'ahu, Hawai'i, USA, and was taxonomically evaluated using a polyphasic approach. Comparison of a partial 16S rRNA gene sequence found that strain AA17T shared the greatest similarity with Aestuariibacter halophilus JC2043T (96.6%), and phylogenies based on 16S rRNA gene sequences grouped strain AA17T with members of the Aliiglaciecola, Aestuariibacter, Lacimicrobium, Marisediminitalea, Planctobacterium, and Saliniradius genera. To more precisely infer the taxonomy of strain AA17T, a phylogenomic analysis was conducted and indicated that strain AA17T formed a monophyletic clade with A. halophilus JC2043T, divergent from Aestuariibacter salexigens JC2042T and other related genera. As a result of monophyly and multiple genomic metrics of genus demarcation, strain AA17T and A. halophilus JC2043T comprise a distinct genus for which the name Fluctibacter gen. nov. is proposed. Based on a polyphasic characterisation and identifying differences in genomic and taxonomic data, strain AA17T represents a novel species, for which the name Fluctibacter corallii sp. nov. is proposed. The type strain is AA17T (= LMG 32603 T = NCTC 14664T). This work also supports the reclassification of A. halophilus as Fluctibacter halophilus comb. nov., which is the type species of the Fluctibacter genus. Genomic analyses also support the reclassification of Paraglaciecola oceanifecundans as a later heterotypic synonym of Paraglaciecola agarilytica.
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Affiliation(s)
- Sarah A Emsley
- Department of Biology, Southern Oregon University, Ashland, OR, USA
| | - Rachel M Loughran
- Microbiology Graduate Program, University of Delaware, Newark, DE, USA
| | | | | | - Yesmarie T De La Flor
- Department of Biology and Marine Biology, University of North Carolina Wilmington, Wilmington, NC, USA
| | | | | | - Marc J Koyack
- School of Arts and Sciences, Gwynedd Mercy University, Gwynedd Valley, PA, USA
| | - David K Oline
- Department of Biology, Southern Oregon University, Ashland, OR, USA
| | - Thomas E Hanson
- Microbiology Graduate Program, University of Delaware, Newark, DE, USA
- School of Marine Science and Policy and Delaware Biotechnology Institute, University of Delaware, Delaware, USA
| | - Patrick Videau
- Department of Biology, Southern Oregon University, Ashland, OR, USA
- AgBiome, Research Triangle Park, NC, USA
| | - Jimmy H Saw
- Department of Biological Sciences, The George Washington University, Washington, DC, USA.
| | - Blake Ushijima
- Department of Biology and Marine Biology, University of North Carolina Wilmington, Wilmington, NC, USA.
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Zhang H, Wang Z, Yu X, Cao J, Bao T, Liu J, Sun C, Wang J, Fang J. The Phylogeny and Metabolic Potentials of a Lignocellulosic Material-Degrading Aliiglaciecola Bacterium Isolated from Intertidal Seawater in East China Sea. Microorganisms 2024; 12:144. [PMID: 38257972 PMCID: PMC10821302 DOI: 10.3390/microorganisms12010144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Revised: 01/02/2024] [Accepted: 01/09/2024] [Indexed: 01/24/2024] Open
Abstract
Lignocellulosic materials are composed of cellulose, hemicellulose and lignin and are one of the most abundant biopolymers in marine environments. The extent of the involvement of marine microorganisms in lignin degradation and their contribution to the oceanic carbon cycle remains elusive. In this study, a novel lignin-degrading bacterial strain, LCG003, was isolated from intertidal seawater in Lu Chao Harbor, East China Sea. Phylogenetically, strain LCG003 was affiliated with the genus Aliiglaciecola within the family Alteromonadaceae. Metabolically, strain LCG003 contains various extracellular (signal-fused) glycoside hydrolase genes and carbohydrate transporter genes and can grow with various carbohydrates as the sole carbon source, including glucose, fructose, sucrose, rhamnose, maltose, stachyose and cellulose. Moreover, strain LCG003 contains many genes of amino acid and oligopeptide transporters and extracellular peptidases and can grow with peptone as the sole carbon and nitrogen source, indicating a proteolytic lifestyle. Notably, strain LCG003 contains a gene of dyp-type peroxidase and strain-specific genes involved in the degradation of 4-hydroxy-benzoate and vanillate. We further confirmed that it can decolorize aniline blue and grow with lignin as the sole carbon source. Our results indicate that the Aliiglaciecola species can depolymerize and mineralize lignocellulosic materials and potentially play an important role in the marine carbon cycle.
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Affiliation(s)
- Hongcai Zhang
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Zekai Wang
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Xi Yu
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Junwei Cao
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Tianqiang Bao
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Jie Liu
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Chengwen Sun
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Jiahua Wang
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
| | - Jiasong Fang
- Shanghai Engineering Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (H.Z.); (Z.W.); (X.Y.); (J.C.); (T.B.); (J.L.); (C.S.)
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China
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3
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Zhang Y, He S, Shi L, Liu Y, Mao D, Liu B, He X, Nowruzi B, Jung D, Zhang W, Ding L, He S, Liu L. Paraneptunicella aestuarii gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from seawater in East China Sea. Int J Syst Evol Microbiol 2021; 71. [PMID: 34913427 DOI: 10.1099/ijsem.0.005160] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An aerobic Gram-stain-negative, curved rod-shaped and non-spore-forming bacterial strain (NBU2194T) was isolated from seawater collected in an intertidal zone in Ningbo, Zhejiang Province, PR China. It was motile though a single polar flagellum and grew at 20-42 °C (optimum, 30 °C), in 0-2.0 % NaCl (0 %, w/v) and at pH 5.0-9.0 (pH 6.0-7.0). The sole respiratory quinone was ubiquinone-8. The major cellular fatty acids were C16 : 0, C16 : 1 ω7c and/or C16 : 1 ω6c. The polar lipids contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unidentified phospholipid and two unidentified aminophosphoglycolipids. A phylogenetic analysis based on 16S rRNA gene sequences and 65 genomic core genes showed that strain NBU2194T formed a distinct lineage in the family Alteromonadaceae. The genome of strain NBU2194T was 4 913 533 bp with a DNA G+C content of 43.9 mol% and coded 3895 genes, 12 rRNA genes and 47 tRNA genes. The average nucleotide identity, amino acid identity and digital DNA-DNA hybridization values between strain NBU2194T and related species of Alteromonadaceae were below the threshold limit for prokaryotic species delineation. NBU2194T could be distinguished from other genera in the family Alteromonadaceae based on phenotypic, chemotaxonomic and genomic characteristics. On the basis of the polyphasic taxonomic evidence collected in this study, strain NBU2194T is considered to represent a novel genus and species in the family Alteromonadaceae, for which the name Paraneptunicella aestuarii is proposed. The type strain is NBU2194T (=KCTC 82442T=GDMCC 1.2217T).
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Affiliation(s)
- Yanzhu Zhang
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China
| | - Shufen He
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China
| | - Liufei Shi
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China.,Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China
| | - Yang Liu
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Key Laboratory of Agricultural Microbiomics and Precision Application, Ministry of Agriculture and Rural Affairs, State Key Laboratory of Applied Microbiology Southern China, Guangdong Open Laboratory of Applied Microbiology, Guangdong Microbial Culture Collection Center (GDMCC), Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou 510070, PR China
| | - Deqiang Mao
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China
| | - Biying Liu
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China
| | - Xiaoping He
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China
| | - Bahareh Nowruzi
- Department of Biology, Science and Research Branch, Islamic Azad University, Tehran, Iran
| | - Dawoon Jung
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China
| | - Weiyan Zhang
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China.,Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China
| | - Lijian Ding
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China.,Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China
| | - Shan He
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China.,Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China
| | - Liwei Liu
- Department of Marine Pharmacy, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo 315211, PR China.,Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, PR China.,Stake Key Laboratory of Natural and Biomimetic Drugs, Peking University, Beijing, 100191, PR China
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4
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Meng X, Chang YQ, Wang H, Du ZJ. Algibacillus agarilyticus gen. nov., sp. nov., isolated from the surface of the red algae Gelidium amansii. Int J Syst Evol Microbiol 2020; 71. [PMID: 33332262 DOI: 10.1099/ijsem.0.004558] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-stain-negative, strictly aerobic, coccoid and agar-hydrolysing bacterium, designated RQJ05T, was isolated from the marine red algae Gelidium amansii collected from the coastal area of Rizhao, PR China. Cells of strain RQJ05T were approximately 0.8-1.0×1.3-3.0 µm in size and motile by means of a polar flagellum. Growth occurred at 4-33 °C (optimum, 25-30 °C), pH 7.0-8.5 (optimum, pH 7.5-8.0) and in the presence of 1.0-7.0 % (w/v) NaCl (optimum, 2.0-3.0 %). Strain RQJ05T showed oxidase-positive and catalase-negative activities. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain RQJ05T formed a phylogenetic lineage with members of the family Alteromonadaceae and exhibited 16S rRNA gene sequence similarities of 92.6, 91.3, 90.2 and 90.1 % to Catenovulum maritimum Q1T, Catenovulum agarivorans YM01T, Paraphotobacterium marinum NSCS20N07DT and Algicola sagamiensis B-10-31T, respectively. The major cellular fatty acids of strain RQJ05T were summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), C16 : 0 and summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c). The major polar lipids of strain RQJ05T were phosphatidylethanolamine, phosphatidylglycerol and two aminophospholipids. Strain RQJ05T contained Q-8 as the major respiratory quinone. The genomic DNA G+C content was 39.0 mol%. On the basis of genotypic, phenotypic and phylogenetic evidence, strain RQJ05T is presented as a representative of a novel species in a new genus, for which the name Algibacillus agarilyticus gen. nov., sp. nov. is proposed. The type strain is RQJ05T (=KCTC 62846T=MCCC 1H00352T).
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Affiliation(s)
- Xue Meng
- Marine College, Shandong University, Weihai, Shandong, 264209, PR China
| | - Ya-Qi Chang
- Marine College, Shandong University, Weihai, Shandong, 264209, PR China
| | - Huan Wang
- Marine College, Shandong University, Weihai, Shandong, 264209, PR China
| | - Zong-Jun Du
- State key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong, 266237, PR China.,Marine College, Shandong University, Weihai, Shandong, 264209, PR China
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5
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Zhang D, Gui J, Zheng S, Zhu X, Wu S, Tian Y, Lai Q, Xu H. Marisediminitalea mangrovi gen. nov., sp. nov., isolated from marine mangrove sediment, and reclassification of Aestuariibacter aggregatus as Marisediminitalea aggregata comb. nov. Int J Syst Evol Microbiol 2020; 70:457-464. [PMID: 31626587 DOI: 10.1099/ijsem.0.003773] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain GS-14T was isolated from a mangrove sediment sample collected at Beilun Estuary National Nature Reserve, Guangxi Province, PR China. Cells were Gram-stain-negative, strictly aerobic and rod-shaped with a polar flagellum. Optimal growth occurred in the presence of 3-6 % (w/v) NaCl, at pH 6-8 and at a temperature of 37 °C. The predominant polar lipids were phosphatidylglycerol and phosphatidylethanolamine. Ubiquinone 8 (Q-8) was the sole respiratory quinone. The major fatty acids (>10 % of the total fatty acids) were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The DNA G+C content was 47.6 mol%. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain GS-14T had the highest sequence similarity to Aestuariibacter aggregatus WH169T (96.63 %), Aliiglaciecola coringensis AK49T (96.56 %) and Alteromonas lipolytica JW12T (96.22 %). In addition, the OrthoANIu value and dDDH values calculated from the genomes of strain GS-14T and A. aggregatus WH169T were 79.5 and 21.9 %, respectively. Based on the polyphasic taxonomic results, strain GS-14T is considered to represent a novel species in a new genus, for which the name Marisediminitalea mangrovi gen. nov., sp. nov. is proposed. The type strain of Marisediminitalea mangrovi is GS-14T (=KCTC 72401T=MCCC 1K03622T). Because Aestuariibacter aggregatus WH169T clustered with strain GS-14T in the phylogenetic trees and was clearly separated from the two species within the genus Aestuariibacter, it is reclassified as a member of the genus Marisediminitalea as Marisediminitalea aggregata comb. nov. (type strain WH169T=CGMCC 1.8995T=LMG 25283T). The type species of the genus Marisediminitalea is Marisediminitalea aggregata gen. nov., comb. nov.
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Affiliation(s)
- Danyang Zhang
- State Key Laboratory of Cellular Stress Biology, Xiamen University, Xiamen, Fujian, 361102, PR China.,Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Jiali Gui
- State Key Laboratory of Cellular Stress Biology, Xiamen University, Xiamen, Fujian, 361102, PR China.,Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Sisi Zheng
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Xiaoying Zhu
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Shiyin Wu
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Yun Tian
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
| | - Qiliang Lai
- Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, Fujian, 361005, PR China
| | - Hong Xu
- State Key Laboratory of Cellular Stress Biology, Xiamen University, Xiamen, Fujian, 361102, PR China.,Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen, Fujian, 361102, PR China
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Dong C, Ma T, Liu R, Lai Q, Shao Z. Hydrocarboniclastica marina gen. nov., sp. nov., a marine hydrocarbonoclastic bacterium isolated from an in situ enriched hydrocarbon-degrading consortium in sea sediment. Int J Syst Evol Microbiol 2019; 69:2250-2257. [PMID: 31184574 DOI: 10.1099/ijsem.0.003454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Abstract
A Gram-stain-negative, motile, non-spore-forming, aerobic and rod-shaped bacterial strain, Soil36-7T, was isolated from an in situ enriched hydrocarbon-degrading consortium in South China Sea sediment. Strain Soil36-7T grew at 4-40 °C (optimum 28-32 °C), at pH 5-10 (pH 7-8) and in the presence of 1-12 % (w/v) NaCl (3-6 %). Phylogenetic analyses based on 16S rRNA gene sequences and a genome-based approach using UBCGs (up-to-date bacterial core genes) showed Soil36-7T formed a distinct branching lineage within the family Alteromonadaceae. 16S rRNA gene sequence similarity was 92.9, 92.1 and >88.3 % between strain Soil36-7T and the type species of the genera Marinobacter, Tamilnaduibacter and the other genera of the family Alteromonadaceae, respectively. The major fatty acids in Soil36-7T were C16 : 0, C16 : 1ω6/7c, C16 : 0 10-methyl, C18 : 1ω7c, C12 : 0 and C18 : 0. The predominant respiratory quinone was Q-9, with a minor amount of Q-10 (3.5 %). The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, and various unidentified glycolipids, phospholipids, aminophospholipids and other polar lipids. The DNA G+C content was 57.9 mol%. On the basis of phylogenetic, genomic, phenotypic and chemotaxanomic characteristics, strain Soil36-7T could be classified as representing a novel species of a new genus within the family Alteromonadaceae, for which the name Hydrocarboniclastica marina gen. nov., sp. nov. is proposed. The type strain of the type species is Soil36-7T (=MCCC 1A12105T=KCTC 62334T).
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Affiliation(s)
- Chunming Dong
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
| | - Tiantian Ma
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
| | - Renju Liu
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
| | - Qiliang Lai
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
| | - Zongze Shao
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
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Liu X, Lai Q, Du Y, Zhang X, Liu Z, Sun F, Shao Z. Neptunicella marina gen. nov., sp. nov., isolated from surface seawater. Int J Syst Evol Microbiol 2018. [PMID: 29533174 DOI: 10.1099/ijsem.0.002660] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, short rod-shaped bacterium with a single polar flagellum, designated strain S27-2T, was isolated from surface seawater from the Indian Ocean. Growth was observed in 0-12.0 % (w/v) NaCl with an optimum of 0.5-2.0 % (w/v) NaCl, pH 6.0-9.0 with an optimum of pH 7.0, and growth temperature of 10-41 °C with an optimum of 25-37 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S27-2T belonged to the family Alteromonadaceae and formed a distinct lineage with the type strain of Pseudobowmanella zhangzhouensis. Levels of 16S rRNA gene sequence similarity between strain S27-2T and members of related genera included in the trees ranged from 86.7 to 93.8 %. Strain S27-2T contained Q-8 as the predominant ubiquinone. The principal fatty acids (>10 %) were C16 : 0 (22.1 %), C16 : 1ω7c/ω6c (22.7 %) and C18 : 1ω7c/ω6c (20.1 %). The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unidentified phospholipid and two unknown lipids. The G+C content of strain S27-2T was 43.7 mol%. On the basis of the polyphasic taxonomic evidence presented in this study, strain S27-2T should be classified as a novel species in a new genus within the family Alteromonadaceae, for which the name Neptunicella marina gen. nov., sp. nov. is proposed, with the type strain S27-2T (= KCTC52335T=MCCC 1A02149T).
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Affiliation(s)
- Xiupian Liu
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China
| | - Qiliang Lai
- Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China.,Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China
| | - Yaping Du
- Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China
| | - Xiaorong Zhang
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China
| | - Zhen Liu
- Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China.,Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China
| | - Fengqin Sun
- State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China.,Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China.,Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China
| | - Zongze Shao
- Fujian Collaborative Innovation Center of Marine Biological Resources, Xiamen 361005, PR China.,Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen 361005, PR China.,South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Xiamen 361005, PR China.,Fujian Key Laboratory of Marine Genetic Resources, Xiamen 361005, PR China.,State Key Laboratory Breeding Base of Marine Genetic Resources, Xiamen 361005, PR China
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Feng T, Jeong SE, Kim KH, Park HY, Jeon CO. Aestuariicoccus marinus gen. nov., sp. nov., isolated from sea-tidal flat sediment. Int J Syst Evol Microbiol 2018; 68:260-265. [DOI: 10.1099/ijsem.0.002494] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [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
| | - 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
| | - Hye Yoon Park
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
- National Institute of Biological Resources, Incheon 22689, Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea
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Bech PK, Schultz-Johansen M, Glaring MA, Barbeyron T, Czjzek M, Stougaard P. Paraglaciecola hydrolytica sp. nov., a bacterium with hydrolytic activity against multiple seaweed-derived polysaccharides. Int J Syst Evol Microbiol 2017; 67:2242-2247. [PMID: 28671532 DOI: 10.1099/ijsem.0.001933] [Citation(s) in RCA: 12] [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 novel bacterial strain, S66T, was isolated from eelgrass collected on the coastline of Zealand, Denmark. Polyphasic analyses involving phenotypic, phylogenetic and genomic methods were used to characterize strain S66T. The strain was Gram-reaction-negative, rod-shaped, aerobic, and displayed growth at 10-25 °C (optimum 20-25 °C) and at pH 7-9 (optimum pH 7.5). Furthermore, strain S66T grew on seaweed polysaccharides agar, agarose, porphyran, κ-carrageenan, alginate and laminarin as sole carbon sources. Major fatty acids were C16 : 0, C16 : 1ω7c and C18 : 1ω7c. The respiratory quinone was determined to be Q-8, and major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The DNA G+C content was determined to be 42.2 mol%. Phylogenetic analyses based on the 16S rRNA gene and GyrB sequence comparisons showed that the bacterium was affiliated with the genus Paraglaciecola within the family Alteromonadaceae of the class Gammaproteobacteria. The percentage similarity between the 16S rRNA gene and GyrB sequences of strain S66T and other members of the genus Paraglaciecola were 94-95 % and 84-85 %, respectively. Based on the genome sequence of S66T, the average nucleotide identity (ANI) between strain S66T and other members of the genus Paraglaciecola was 77-80 %, and DNA-DNA hybridization prediction showed values of less than 24 % relatedness, respectively, between S66T and other species of the genus Paraglaciecola. The phenotypic, phylogenetic and genomic analyses support the hypothesis that strain S66T represents a novel species of the genus Paraglaciecola, for which the name Paraglaciecola hydrolytica sp. nov. is proposed. The type strain is S66T (=LMG 29457T=NCIMB 15060T=DSM 102834T).
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Affiliation(s)
- Pernille Kjersgaard Bech
- Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Denmark
| | - Mikkel Schultz-Johansen
- Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Denmark
| | - Mikkel Andreas Glaring
- Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Denmark
| | - Tristan Barbeyron
- UPMC University Paris 6, UMR 7139 Marine Plants and Biomolecules, Station Biologique de Roscoff, F-29682 Roscoff, Bretagne, France
| | - Mirjam Czjzek
- UPMC University Paris 6, UMR 7139 Marine Plants and Biomolecules, Station Biologique de Roscoff, F-29682 Roscoff, Bretagne, France
| | - Peter Stougaard
- Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Denmark
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Sheu DS, Sheu SY, Lin KR, Chen YLL, Chen WM. Planctobacterium marinum gen. nov., sp. nov., a new member of the family Alteromonadaceae isolated from seawater. Int J Syst Evol Microbiol 2016; 67:974-980. [PMID: 27959781 DOI: 10.1099/ijsem.0.001726] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial strain designated K7T was isolated from the South China Sea and characterized using a polyphasic taxonomic approach. Cells of strain K7T were Gram-stain-negative, aerobic, poly-β-hydroxybutyrate-accumulating, motile by means of a monopolar flagellum, non-spore forming rods surrounded by a thick capsule and forming yellow colonies. Growth occurred at 4-35 °C (optimum, 25-30 °C), at pH 5.0-9.0 (optimum, pH 7.0) and with 0.5-10 % (w/v) NaCl [optimum, 1-4 % (w/v)]. The predominant fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c. The major isoprenoid quinone was Q-8 and the DNA G+C content was 46.5 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmonomethylethanolamine, one uncharacterized phospholipid, two uncharacterized aminophospholipids and five uncharacterized lipids. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain K7T formed a distinct lineage with respect to closely related genera in the family Alteromonadaceae. Strain K7T was most closely related to Aestuariibacter, Aliiglaciecola, Paraglaciecola and Glaciecola, and the levels of 16S rRNA gene sequence similarity with respect to the type species of related genera were less than 95 %. On the basis of the genotypic and phenotypic data, strain K7T represents a novel species of a new genus of the family Alteromonadaceae, for which the name Planctobacterium marinum gen. nov., sp. nov. is proposed. The type strain of Planctobacterium marinum is K7T (=BCRC 80901T=LMG 28835T=KCTC 42657T).
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Affiliation(s)
- Der-Shyan Sheu
- Department of Marine Biotechnology, National KaohsiungMarine University, No. 142, Hai-ChuanRd. Nan-Tzu, Kaohsiung City 811, Taiwan ROC
| | - Shih-Yi Sheu
- Department of Marine Biotechnology, National KaohsiungMarine University, No. 142, Hai-ChuanRd. Nan-Tzu, Kaohsiung City 811, Taiwan ROC
| | - Kai-Rou Lin
- Laboratoryof Microbiology, Department of Seafood Science, National Kaohsiung Marine University, No. 142, Hai-Chuan Rd. Nan-Tzu, Kaohsiung City 811, Taiwan ROC
| | - Yuh-Ling Lee Chen
- Department of Oceanography, National Sun Yat-sen University, Kaohsiung 80424, Taiwan ROC
| | - Wen-Ming Chen
- Laboratoryof Microbiology, Department of Seafood Science, National Kaohsiung Marine University, No. 142, Hai-Chuan Rd. Nan-Tzu, Kaohsiung City 811, Taiwan ROC
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Zhong ZP, Liu Y, Wang F, Zhou YG, Liu HC, Liu ZP. Lacimicrobium alkaliphilum gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from a salt lake. Int J Syst Evol Microbiol 2016; 66:422-429. [DOI: 10.1099/ijsem.0.000735] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Zhi-Ping Zhong
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
- University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Ying Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Fang Wang
- State Key Laboratory of Simulation and Regulation of Water Cycle in River Basin, China Institute of Water Resources and Hydropower Research, Beijing 100089, PR China
| | - Yu-Guang Zhou
- China General Microbiological Culture Collection Center, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Hong-Can Liu
- China General Microbiological Culture Collection Center, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Zhi-Pei Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
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Mi Jin H, Hyun Kim K, Ok Jeon C. Alteromonas naphthalenivorans sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from tidal-flat sediment. Int J Syst Evol Microbiol 2015; 65:4208-4214. [DOI: 10.1099/ijsem.0.000563] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-negative and halotolerant bacterium, designated SN2T, capable of biodegrading polycyclic aromatic hydrocarbons, was isolated from a tidal flat contaminated with crude oil in Korea. Cells were strictly aerobic, catalase- and oxidase-positive, motile rods, with a single polar flagellum. Growth was observed at 4–37 °C (optimum, 25–30 °C) at pH 6.0–9.0 (optimum, pH 7.0–7.5) and in the presence of 0.5–9.0 % (w/v) NaCl (optimum, 2.0 %). Only ubiquinone 8 was detected as the isoprenoid quinone, and summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0, C18 : 1ω7c and C12 : 0 were observed as the major cellular fatty acids. The major polar lipids consisted of phosphatidylethanolamine, phosphatidylglycerol, a glycolipid, an aminolipid and three unidentified lipids. The DNA G+C content was 43.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SN2T formed a phylogenetic lineage with Alteromonas stellipolaris and Alteromonas addita within the genus Alteromonas, which was consistent with multilocus phylogenetic and MALDI-TOF MS analyses. Strain SN2T was most closely related to the type strains of A. stellipolaris, A. addita and Alteromonas macleodii, with 16S rRNA gene sequence similarities of 99.5, 99.3 and 98.4 % and DNA–DNA relatedness of 48.7 ± 6.6, 24.9 ± 7.5 and 27.9 ± 8.4 %, respectively. In conclusion, strain SN2T represents a novel species of the genus Alteromonas, for which the name Alteromonas naphthalenivorans sp. nov. is proposed. The type strain is SN2T ( = KCTC 11700BPT = JCM 17741T = KACC 18427T).
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Affiliation(s)
- Hyun Mi Jin
- Department of Life Science, Chung-Ang University, Seoul 156-756, Republic of Korea
| | - Kyung Hyun Kim
- 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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Taek Oh Y, Avedoza C, Lee SS, Jeong SE, Jia B, Jeon CO. Celeribacter naphthalenivorans sp. nov., a naphthalene-degrading bacterium from tidal flat sediment. Int J Syst Evol Microbiol 2015; 65:3073-3078. [DOI: 10.1099/ijs.0.000381] [Citation(s) in RCA: 11] [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, aerobic and moderately halophilic bacterium, designated strain EMB201T, was isolated from tidal flat sediment of the South Sea in Korea. Cells were motile rods with a single polar flagellum and had catalase- and oxidase-positive activities. Growth of strain EMB201T was observed at 15–37 °C (optimum, 30 °C), at pH 5.0–9.5 (optimum, pH 7.0–7.5) and in the presence of 1–7 % (w/v) NaCl (optimum, 2–3 %). Strain EMB201T contained ubiquinone-10 as the sole isoprenoid quinone and summed feature 8 (comprising C18 : 1ω7c/ω6c), C18 : 0ω7c 11-methyl and C10 : 0 3-OH as the major fatty acids. Phosphatidylglycerol and an unidentified amino lipid were identified as the major polar lipids and an unidentified phospholipid and three unidentified lipids were detected as minor components. The G+C content of the genomic DNA was approximately 58.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain EMB201T formed a phylogenetic lineage with members of the genus Celeribacter. Strain EMB201T was related most closely to Celeribacter halophilus ZXM137T with a 16S rRNA gene sequence similarity of 98.3 %, and the level of DNA–DNA relatedness between the two strains was 17.0 ± 2.0 %. The combined chemotaxonomic and molecular properties suggest that strain EMB201T represents a novel species of the genus Celeribacter, for which the name Celeribacter naphthalenivorans sp. nov. is proposed. The type strain is EMB201T ( = KACC 18393T = JCM 30679T).
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Affiliation(s)
- Young Taek Oh
- Department of Microbiology and Immunology, Yonsei University, Seoul 120-752, Republic of Korea
| | - Catherine Avedoza
- Department of Animal Science & Technology, Sunchon National University, Sunchon 540-742, Republic of Korea
| | - Sang-Suk Lee
- Department of Animal Science & Technology, Sunchon National University, Sunchon 540-742, Republic of Korea
| | - Sang Eun Jeong
- Department of Life Science, Chung-Ang University, Seoul 156-756, Republic of Korea
| | - Baolei Jia
- 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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