1
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Thakur V, Kumar V, Kumar V, Singh D. Xylooligosaccharides production using multi-substrate specific xylanases secreted by a psychrotolerant Paenibacillus sp. PCH8. CARBOHYDRATE POLYMER TECHNOLOGIES AND APPLICATIONS 2022. [DOI: 10.1016/j.carpta.2022.100215] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
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2
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Proenca AM, Oliveira MM, Neves PFR, Giongo A, de Oliveira RR, Ott CT, Marconatto L, de Barros Neto HMC, Ketzer JMM, Medina-Silva R. Genomic, biochemical, and phylogenetic evaluation of bacteria isolated from deep-sea sediment harboring methane hydrates. Arch Microbiol 2022; 204:205. [PMID: 35266047 DOI: 10.1007/s00203-022-02814-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Revised: 02/04/2022] [Accepted: 02/18/2022] [Indexed: 11/25/2022]
Abstract
Over half of the organic carbon on Earth's surface is trapped in marine sediment as methane hydrates. Ocean warming causes hydrate dissociation and methane leakage to the water column, rendering the characterization of microbes from hydrate depositions a pressing matter. Through genomic, phylogenetic, and biochemical assays, we characterize the first microorganisms isolated from the Rio Grande Cone (Brazil), reservoir responsible for massive methane releases to the water column. From sediment harboring rich benthic communities, we obtained 43 strains of Brevibacillus sp., Paenibacillus sp. and groups of Bacillus sp. Methane-enriched samples yielded strains of the Pseudomonas fluorescens complex, exhibiting fluorescent siderophore production and broad multi-carbon catabolism. Genomic characterization of a novel Pseudomonas sp. strain indicated 32 genes not identified in the closest related type-species, including proteins involved with mercury resistance. Our results provide phylogenetic and genomic insights on the first bacterial isolates retrieved from a poorly explored region of the South Atlantic Ocean.
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Affiliation(s)
- Audrey Menegaz Proenca
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil.,Immunology and Microbiology Laboratory, School of Health and Life Sciences, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil.,Institute of Biology, Freie Universität Berlin, Berlin, Germany
| | - Maiara Monteiro Oliveira
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil.,Immunology and Microbiology Laboratory, School of Health and Life Sciences, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | - Paula Fernanda Ribas Neves
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil.,Immunology and Microbiology Laboratory, School of Health and Life Sciences, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | - Adriana Giongo
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | - Rafael Rodrigues de Oliveira
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | - Carolina Telles Ott
- Immunology and Microbiology Laboratory, School of Health and Life Sciences, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | - Letícia Marconatto
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil
| | | | | | - Renata Medina-Silva
- Geobiology Research Group, Institute of Petroleum and Natural Resources, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil. .,Immunology and Microbiology Laboratory, School of Health and Life Sciences, Pontifical Catholic University of Rio Grande do Sul, PUCRS, Porto Alegre, Brazil.
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3
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Demko AM, Patin NV, Jensen PR. Microbial diversity in tropical marine sediments assessed using culture-dependent and culture-independent techniques. Environ Microbiol 2021; 23:6859-6875. [PMID: 34636122 DOI: 10.1111/1462-2920.15798] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Accepted: 09/28/2021] [Indexed: 01/04/2023]
Abstract
The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture-independent (CI) techniques capture the broadest perspective on community composition, culture-dependent (CD) methods can select for low abundance taxa that are missed using CI approaches. This study aimed to assess microbial diversity in tropical marine sediments at five shallow-water sites in Belize using both CD and CI techniques. The CD methods captured approximately 3% of the >800 genera detected across all sites using the CI approach. Additionally, 39 genera were only detected in culture, revealing rare taxa that were missed with the CI approach. Significantly different communities were detected across sites, with rare taxa playing an important role in distinguishing among communities. This study provides important baseline data describing shallow-water sediment microbial communities, evidence that standard cultivation techniques may be more effective than previously recognized, and the first steps towards identifying new taxa that are amenable to agar plate cultivation.
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Affiliation(s)
- Alyssa M Demko
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
| | - Nastassia V Patin
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
| | - Paul R Jensen
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.,Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA
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4
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Chen YF, Ye L, Huang HQ, Jiang MG, Hu YH, Sun DM, Mo KL. Paenibacillus oceani sp. nov. , isolated from surface seawater. Int J Syst Evol Microbiol 2021; 71. [PMID: 34559622 DOI: 10.1099/ijsem.0.005024] [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
A Gram-stain-positive and motile bacterial strain, designated IB182363T, was isolated from surface seawater of the South China Sea. Cells grew at pH 5.0-9.5 (optimum, pH 7.0-8.0), 20-40 °C (optimum, 30 °C) and with 1-8 % (w/v) NaCl (optimum, 2-4 %). On the basis of 16S rRNA gene sequence analysis, strain IB182363T was affiliated to the genus Paenibacillus and the closest phylogenetically related species was Paenibacillus ginsengarvi DSM18677T with 96.9 % sequence similarity. The values of whole genome average nucleotide identity analysis and digital DNA-DNA hybridization between the isolate and the closely related type strains were less than 86.3 and 25.6 %, respectively. Chemotaxonomic analysis revealed that strain IB182363T possessed meso-diaminopimelic acid in the cell-wall peptidoglycan and contained menaquinone MK-7 as the predominant isoprenoid quinone. The major cellular fatty acids were anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. The polar lipids comprised phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, one unidentified glycolipid, two unidentified aminolipids, two unidentified phospholipids and four unidentified aminophospholipids. The genomic DNA G+C content was 54.5 mol%. On the basis of the above results, strain IB182363T represents a novel species of the genus Paenibacillus, for which we propose the name Paenibacillus oceani sp. nov. with the type strain IB182363T (=MCCC 1K04630T=JCM 34214T).
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Affiliation(s)
- Yu-Feng Chen
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, 163000, PR China.,Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, PR China.,Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, PR China
| | - Lin Ye
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, PR China.,Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, PR China
| | - Hui-Qin Huang
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, PR China.,Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, PR China
| | - Ming-Guo Jiang
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, School of Marine Sciences and Biotechnology, Guangxi University for Nationalities, Nanning 530008, PR China
| | - Yong-Hua Hu
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, PR China.,Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, PR China
| | - Dong-Mei Sun
- College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, 163000, PR China
| | - Kun-Lian Mo
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, PR China.,Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, PR China
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5
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Zhu J, Mo K, Zheng Z, Wang Z, Hu Y, Zou X, Gu H, Wang H, Bao S, Huang H. Paenibacillus algicola sp. nov., a novel alginate lyase-producing marine bacterium. Int J Syst Evol Microbiol 2020; 70:5087-5092. [PMID: 32790602 DOI: 10.1099/ijsem.0.004385] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-variable, facultatively anaerobic, endospore-forming, rod-shaped bacterium, designated HB172198T, was isolated from brown alga collected at Qishui Bay, Hainan, PR China. Phylogenetic analysis of 16S rRNA gene sequences indicated that strain HB172198T belonged to the genus Paenibacillus, and the closest phylogenetically related species was Paenibacillus lemnae NBRC 109972T (97.6% similarity). The other 16S rRNA gene sequence similarities were under 97.0%. The whole genome average nucleotide identity value between strain HB172198T and the closest type strain was 75.3% and the in silico DNA-DNA hybridization value was 20.2%. The predominant isoprenoid quinone was menaquinone 7 and the major fatty acids were anteiso-C15:0, C16:0, anteiso-C17:0, iso C16:0 and C16:1 ω11c. The combined phylogenetic relatedness, phenotypic and genotypic features supported the conclusion that strain HB172198T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus algicola sp. nov. is proposed. The type strain is HB172198T (=CGMCC 1.13583T=JCM 32683T).
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Affiliation(s)
- Jun Zhu
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Kunlian Mo
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Zhiguo Zheng
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Zixu Wang
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Yonghua Hu
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Xiaoxiao Zou
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Hanjie Gu
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Hongyu Wang
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
| | - Shixiang Bao
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
| | - Huiqin Huang
- Institute of Tropical Bioscience and Biotechnology, Hainan Academy of Tropical Agricultural Resource, CATAS, Haikou 571101, Hainan, P. R. China
- Hainan Provincial Key Laboratory for Functional Components Research and Utilization of Marine Bioresources, Haikou 571101, Hainan, P. R. China
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6
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Aerobic microbial life persists in oxic marine sediment as old as 101.5 million years. Nat Commun 2020; 11:3626. [PMID: 32724059 PMCID: PMC7387439 DOI: 10.1038/s41467-020-17330-1] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2019] [Accepted: 06/22/2020] [Indexed: 01/20/2023] Open
Abstract
Sparse microbial populations persist from seafloor to basement in the slowly accumulating oxic sediment of the oligotrophic South Pacific Gyre (SPG). The physiological status of these communities, including their substrate metabolism, is previously unconstrained. Here we show that diverse aerobic members of communities in SPG sediments (4.3‒101.5 Ma) are capable of readily incorporating carbon and nitrogen substrates and dividing. Most of the 6986 individual cells analyzed with nanometer-scale secondary ion mass spectrometry (NanoSIMS) actively incorporated isotope-labeled substrates. Many cells responded rapidly to incubation conditions, increasing total numbers by 4 orders of magnitude and taking up labeled carbon and nitrogen within 68 days after incubation. The response was generally faster (on average, 3.09 times) for nitrogen incorporation than for carbon incorporation. In contrast, anaerobic microbes were only minimally revived from this oxic sediment. Our results suggest that microbial communities widely distributed in organic-poor abyssal sediment consist mainly of aerobes that retain their metabolic potential under extremely low-energy conditions for up to 101.5 Ma. The discovery of aerobic microbial communities in nutrient-poor sediments below the seafloor begs the question of the mechanisms for their persistence. Here the authors investigate subseafloor sediment in the South Pacific Gyre abyssal plain, showing that aerobic microbial life can be revived and retain metabolic potential even from 101.5 Ma-old sediment.
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7
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Ripa FA, Tong S, Cao WD, Wang ET, Wang T, Liu HC, Gao JL, Sun JG. Paenibacillus rhizophilus sp. nov., a nitrogen-fixing bacterium isolated from the rhizosphere of wheat ( Triticum aestivum L.). Int J Syst Evol Microbiol 2019; 69:3689-3695. [PMID: 31647399 DOI: 10.1099/ijsem.0.003472] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-stain-variable, endospore-forming, motile, rod-shaped, facultative aerobic bacterium, designated 7197T, was isolated from rhizosphere soil of wheat (Triticum aestivum L.) collected from Yakeshi County, Inner Mongolia, PR China. This isolate was found to have the highest 16S rRNA gene sequence similarity to Paenibacillussabinae T27T (98.0 %), followed by Paenibacillussophorae S27T (97.9 %) and Paenibacillusforsythiae T98T (97.7 %). To ascertain the genomic relatedness of this strain to its phylogenetic neighbours, its genome sequence was determined. The average nucleotide identity values of genome sequences between the novel isolate and the type strains of related species P. sabinae T27T, P. sophorae S27T and P. forsythiae T98T were 87.9 %, 85.8 and 83.9 %, respectively. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, four unidentified aminophospholipids and one unidentified aminolipid. The major cellular fatty acids were anteiso-C15 : 0 (56.3 %), C16 : 0 (15.7 %) and iso-C15 : 0 (14.1 %).The genome size of strain 7197T was 5.21 Mb, comprising 4879 predicted genes with a DNA G+C content of 51.9 mol%. Menaquinone-7 was reported as the major respiratory quinone. The diamino acid in the cell-wall peptidoglycan was found to be meso-diaminopimelic acid. Based on phylogenetic, genomic, chemotaxonomic and phenotypic characteristics, strain 7197T was classified as a novel species within the genus Paenibacillus, for which the name Paenibacillus rhizophilus sp. nov. is proposed. The type strain of Paenibacillus rhizophilus is 7197T (=DSM 103168T=CGMCC 1.15699T).
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Affiliation(s)
- Farhana Alam Ripa
- Key Laboratory of Microbial Resources, Ministry of Agriculture and Rural Affairs/ Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - Shuai Tong
- Key Laboratory of Microbial Resources, Ministry of Agriculture and Rural Affairs/ Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - Wei-Dong Cao
- Key Laboratory of Microbial Resources, Ministry of Agriculture and Rural Affairs/ Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - En Tao Wang
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, México D. F. 11340, México
| | - Tianyu Wang
- Beijing Agro-Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing 100097, PR China.,Key Laboratory of Microbial Resources, Ministry of Agriculture and Rural Affairs/ Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - Hong Can Liu
- Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Jun-Lian Gao
- Beijing Agro-Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing 100097, PR China
| | - Jian-Guang Sun
- Key Laboratory of Microbial Resources, Ministry of Agriculture and Rural Affairs/ Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
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8
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Shin SK, Kim E, Yi H. Paenibacillus crassostreae sp. nov., isolated from the Pacific oyster Crassostrea gigas. Int J Syst Evol Microbiol 2017; 68:58-63. [PMID: 29068277 DOI: 10.1099/ijsem.0.002444] [Citation(s) in RCA: 8] [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-positive, endospore-forming, rod-shaped, aerobic bacterium, designated LPB0068T, was isolated from a Pacific oyster (Crassostrea gigas) in Korea. This isolate was found to share the highest 16S rRNA gene sequence similarity with Paenibacillus macquariensis subsp. macquariensis DSM 2T (98.1 %) and Paenibacillus macquariensis subsp. defensor JCM 14954T (98.0 %). To establish the genomic relatedness of this isolate to its phylogenetic neighbours, its genome sequence and those of Paenibacillus antarcticus CECT 5836T, P. macquariensis subsp. macquariensis DSM 2T, P. macquariensis subsp. defensor JCM 14954T, and Paenibacillus glacialis DSM 22343T were determined. The low average nucleotide identity and digital DNA-DNA hybridization values exhibited by LPB0068T in relation to the other strains in this analysis revealed that it is distinct from other Paenibacillus species. The genome of strain LPB0068T consists of one chromosome and three circular plasmids, and had a DNA G+C content of 40.0 mol%. The major respiratory quinone was menaquinone-7 and the diagnostic diamino acid in the cell-wall peptidoglycan was meso-diaminopimelic acid. The major polar lipids consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, one unidentified phospholipid, one unidentified glycolipid, and two unidentified polar lipids. The major cellular fatty acids were anteiso-C15 : 0, C14 : 0, and C16 : 0. Based on genomic, phylogenetic, and phenotypic characteristics, this strain was clearly distinguished from other Paenibacillus species with validly published names and should therefore be classified as a novel species of the genus. The name Paenibacillus crassostreae sp. nov. is proposed, the type strain of which is LPB0068T (=KACC 18694T=JCM 31183T).
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Affiliation(s)
- Su-Kyoung Shin
- Department of Public Health Sciences, BK21PLUS Program in Embodiment: Health-Society Interaction, Graduate School, Korea University, Seoul, Republic of Korea
| | - Eunji Kim
- Department of Public Health Sciences, BK21PLUS Program in Embodiment: Health-Society Interaction, Graduate School, Korea University, Seoul, Republic of Korea
| | - Hana Yi
- Department of Public Health Sciences, BK21PLUS Program in Embodiment: Health-Society Interaction, Graduate School, Korea University, Seoul, Republic of Korea.,School of Biosystem and Biomedical Science, Korea University, Seoul, Republic of Korea
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9
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Yun JH, Lee JY, Kim PS, Jung MJ, Bae JW. Paenibacillus apis sp. nov. and Paenibacillus intestini sp. nov., isolated from the intestine of the honey bee Apis mellifera. Int J Syst Evol Microbiol 2017; 67:1918-1924. [DOI: 10.1099/ijsem.0.001887] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Ji-Hyun Yun
- Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul 130-701, Republic of Korea
| | - June-Young Lee
- Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul 130-701, Republic of Korea
| | - Pil Soo Kim
- Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul 130-701, Republic of Korea
| | - Mi-Ja Jung
- Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul 130-701, Republic of Korea
| | - Jin-Woo Bae
- Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul 130-701, Republic of Korea
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10
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Hwang YJ, Ghim SY. Paenibacillus aceris sp. nov., isolated from the rhizosphere of Acer okamotoanum, a plant native to Ulleungdo Island, Republic of Korea. Int J Syst Evol Microbiol 2017; 67:1039-1045. [PMID: 27995861 DOI: 10.1099/ijsem.0.001748] [Citation(s) in RCA: 14] [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
Strain KUDC4121T was isolated from the rhizosphere of Acer okamotoanum, a plant native to the Korean island of Ulleungdo. The strain was a Gram-stain-positive, non-spore-forming, non-motile, rod-shaped bacterium that can grow at 18-37 °C and pH 6.0-7.5, with optimum growth at 30 °C and pH 7.0. It grew on tryptic soy agar containing less than 0.5 % (w/v) NaCl and in R2A broth. Cell length ranged from 2.0 to 2.5 µm. Strain KUDC4121T was oxidase- and catalase-positive and did not hydrolyse starch or casein. The genomic G+C content was 48.8 mol%. The major fatty acids were anteiso-C15 : 0 and iso-C16 : 0. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KUDC4121T belongs to the genus Paenibacillus. The closest type strain was Paenibacillus chondroitinus DSM 5051T, with 97.8 % similarity, followed by Paenibacillus alginolyticus DSM 5050T (97.6 %), Paenibacillus ferrarius CY1T (97.5 %), Paenibacillus pocheonensis Gsoil 1138T (97.5 %), Paenibacillus frigoriresistens YIM 016T (97.5 %), Paenibacillus pectinilyticus RCB-08T (97.2 %) and Paenibacillus aestuarii CJ25T (96.9 %). Based on its phenotypic properties and phylogenetic and genetic data, strain KUDC4121T should be considered to represent a novel species of the genus Paenibacillus, for which the name Paenibacillus aceris sp. nov. is proposed. The type strain is KUDC4121T (=KCTC 13870T=DSM 24950T).
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Affiliation(s)
- Ye-Ji Hwang
- Republic of Korea School of Life Sciences, BK21 Plus KNU Creative BioResearch Group and Research Institute for Dok-do and Ulleung-do Island, Kyungpook National University, 80 Daehakro, Bukgu, Daegu 41566, Republic of Korea
| | - Sa-Youl Ghim
- Republic of Korea School of Life Sciences, BK21 Plus KNU Creative BioResearch Group and Research Institute for Dok-do and Ulleung-do Island, Kyungpook National University, 80 Daehakro, Bukgu, Daegu 41566, Republic of Korea
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11
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Huang H, Zhang F, Liu M, Cui Y, Sun Q, Zhu J, Zou X, Bao S. Paenibacillus silvae sp. nov., isolated from a tropical rainforest soil. Int J Syst Evol Microbiol 2017; 67:795-799. [DOI: 10.1099/ijsem.0.001608] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Huiqin Huang
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Fute Zhang
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Min Liu
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Ying Cui
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Qianguang Sun
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Jun Zhu
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Xiaoxiao Zou
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
| | - Shixiang Bao
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, PR China
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12
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Paenibacillus segetis sp. nov., isolated from soil of a tropical rainforest. Int J Syst Evol Microbiol 2016; 66:3703-3707. [DOI: 10.1099/ijsem.0.001258] [Citation(s) in RCA: 6] [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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13
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Ai HX, Che YC, Wang L, Zhang L, Gu Y, Tan YN, Chang AK, Liu HS. Paenibacillusliaoningensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2016; 66:3150-3156. [PMID: 27189475 DOI: 10.1099/ijsem.0.001159] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterial strain, designated as LNUB461T, was isolated from soil sample taken from the countryside of Shenyang, Liaoning Province, China. The isolate was a Gram-stain-positive, aerobiotic, motile, endospore-forming and rod-shaped bacterium. The organism grew optimally at 30-33 °C, pH 6.5-7.0 and in the absence of NaCl. Phylogenetic analysis based on the nearly full-length 16S rRNA gene sequence revealed high sequence similarity with Paenibacillus algorifonticola XJ259T (98.5 %), Paenibacillus xinjiangensis B538T (96.8 %), Paenibacillus glycanilyticus DS-1T (96.1 %) and Paenibacillus lupini RLAHU15T (96.1 %). The predominant cellular fatty acid and the only menaquinone were anteiso-C15:0 and MK-7, respectively. The main polar lipids of LNUB461T included phosphatidylethanolamine (PE), phosphatidylglycerol (PG), phosphatidylcholine (PC) and two unknown amino phospholipids (APL), and the cell-wall peptidoglycan was meso-diaminopimelic acid (A1γ). The DNA G+C content of LNUB461T was 49.1 mol%. The DNA-DNA hybridization value between LNUB461T and the most closely related species (P. algorifonticola) was 41.8 %. On the basis of these data, LNUB461T was classified as representing a novel species of the genus Paenibacillus, for which the name Paenibacillus liaoningensis sp. nov was proposed. The type strain is LNUB461T (=JCM 30712T=CGMCC 1.15101T).
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Affiliation(s)
- Hai-Xin Ai
- School of Life Science, Liaoning University, Shenyang 110036, PR China.,Liaoning Engineering Laboratory for Molecular Simulation and Designing of Drug Molecules, Shenyang 110036, PR China.,Research Center for Computer Simulating and Information Processing of Bio-macromolecules of Liaoning, Shenyang 110036, PR China
| | - Yu-Chen Che
- School of Basic Medical Science, Shenyang Medical College, Shenyang 110034, PR China
| | - Li Wang
- School of Pharmacy, Liaoning University, Shenyang 110036, PR China
| | - Li Zhang
- School of Life Science, Liaoning University, Shenyang 110036, PR China.,Research Center for Computer Simulating and Information Processing of Bio-macromolecules of Liaoning, Shenyang 110036, PR China
| | - Ying Gu
- School of Life Science, Liaoning University, Shenyang 110036, PR China
| | - Yan-Ni Tan
- School of Life Science, Liaoning University, Shenyang 110036, PR China
| | - Alan K Chang
- School of Life Science, Liaoning University, Shenyang 110036, PR China
| | - Hong-Sheng Liu
- Research Center for Computer Simulating and Information Processing of Bio-macromolecules of Liaoning, Shenyang 110036, PR China.,Liaoning Engineering Laboratory for Molecular Simulation and Designing of Drug Molecules, Shenyang 110036, PR China.,School of Life Science, Liaoning University, Shenyang 110036, PR China
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14
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Lai WA, Hameed A, Lin SY, Hung MH, Hsu YH, Liu YC, Shahina M, Shen FT, Young CC. Paenibacillus medicaginis sp. nov. a chitinolytic endophyte isolated from a root nodule of alfalfa (Medicago sativa L.). Int J Syst Evol Microbiol 2015; 65:3853-3860. [PMID: 28875919 DOI: 10.1099/ijsem.0.000505] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-variable, short-rod-shaped, endospore-forming, strictly aerobic, non-motile, chitinolytic and endophytic bacterium, designated strain CC-Alfalfa-19T, exhibiting unusual bipolar appendages was isolated from a root nodule of alfalfa (Medicago sativa L.) in Taiwan and subjected to a polyphasic taxonomic study. Based on 16S rRNA gene sequence analysis, strain CC-Alfalfa-19T was found to be most closely related to Paenibacillus puldeungensis CAU 9324T (95.2 %), whereas other species of the genus Paenibacillus shared ≤ 95.0 % sequence similarity. The phylogenetic analysis revealed a distinct phyletic lineage established by strain CC-Alfalfa-19T with respect to other species of the genus Paenibacillus. Fatty acids comprised predominantly anteiso-C15 : 0, C16 : 0, anteiso-C17 : 0 and iso-C16 : 0. Menaquinone 7 (MK-7) was identified as the sole respiratory quinone and the genomic DNA G+C content was 42.7 mol%. Polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, an unidentified glycolipid and an unidentified lipid. The diagnostic diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on the polyphasic taxonomic evidence that was in line with the genus Paenibacillus and additional distinguishing characteristics, strain CC-Alfalfa-19T is considered to represent a novel species, for which the name Paenibacillus medicaginis sp. nov. (type strain CC-Alfalfa-19T = BCRC 80441T = JCM 18446T) is proposed.
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Affiliation(s)
- Wei-An Lai
- Agricultural Biotechnology Center, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Asif Hameed
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Shih-Yao Lin
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Mei-Hua Hung
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Yi-Han Hsu
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - You-Cheng Liu
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Mariyan Shahina
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Fo-Ting Shen
- Agricultural Biotechnology Center, National Chung Hsing University, Taichung City 402, Taiwan, ROC
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
| | - Chiu-Chung Young
- Agricultural Biotechnology Center, National Chung Hsing University, Taichung City 402, Taiwan, ROC
- Department of Soil and Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung City 402, Taiwan, ROC
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15
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Gao JL, Lv FY, Wang XM, Qiu TL, Yuan M, Li JW, Zhou Y, Sun JG. Paenibacillus wenxiniae sp. nov., a nifH gene -harbouring endophytic bacterium isolated from maize. Antonie van Leeuwenhoek 2015; 108:1015-22. [PMID: 26346477 DOI: 10.1007/s10482-015-0554-8] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2015] [Accepted: 08/11/2015] [Indexed: 11/25/2022]
Abstract
A novel Gram-positive, aerobic, motile, endospore-forming, rod-shaped bacterium, designated 373(T) was isolated from surface-sterilised root tissue of a maize planted in Fangshan District of Beijing, Peopole's Republic of China. A polyphasic taxonomic study was performed on the new isolate. On the basis of 16S rRNA gene sequence similarity studies, this isolate belongs to the genus Paenibacillus. The highest 16S rRNA gene sequence similarity was found between strain 373(T) and Paenibacillus hunanensis (98.1%), meanwhile the 16S rRNA gene sequence similarity between strain 373(T) and the type strains of other recognised members of the genus Paenibacillus were all below 95.6%. However, the DNA-DNA hybridization values between strain 373(T) and the type strain P. hunanensis DSM 22170(T) was 30.2%. The DNA G+C content of strain 373(T) was determined to be 46.0 mol%. The predominant respiratory quinone was identified as menaquinone-7 and the polar lipid profile was found to be composed of the major lipids diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The major fatty acids were found to consist of anteiso-C15: 0 (59.6%), anteiso-C17: 0 (12.8%) and C16: 0 (6.7%). The results of physiological and biochemical tests and minor differences in the fatty acid profiles allowed a clear phenotypic differentiation of strain 373(T) from the closely related species in this genus Paenibacillus. Strain 373(T) is concluded to represent a novel species within the genus Paenibacillus, for which the name Paenibacillus wenxiniae sp. nov. is proposed, with the type strain 373(T) (= CGMCC 1.15007 (T) = DSM100576 ).
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Affiliation(s)
- Jun-lian Gao
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Fan-yang Lv
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
| | - Xu-ming Wang
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Tian-lei Qiu
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Mei Yuan
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
| | - Ji-wei Li
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
- College of Agriculture, Yangtze University, Jingzhou, Hubei, 434025, People's Republic of China
| | - Yi Zhou
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
- College of Agriculture, Yangtze University, Jingzhou, Hubei, 434025, People's Republic of China
| | - Jian-guang Sun
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China.
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16
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Kim TS, Han JH, Joung Y, Kim SB. Paenibacillus oenotherae sp. nov. and Paenibacillus hemerocallicola sp. nov., isolated from the roots of herbaceous plants. Int J Syst Evol Microbiol 2015; 65:2717-2725. [DOI: 10.1099/ijs.0.000329] [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
Two Gram-staining-positive, aerobic, endospore-forming, motile bacteria, strains DT7-4T and DLE-12T, were isolated from roots of evening primrose (Oenothera biennis) and day lily (Hemerocallis fulva), respectively, and subjected to taxonomic characterization. Analysis of 16S rRNA gene sequences indicated that the two strains fell into two distinct phylogenetic clusters belonging to the genus Paenibacillus. Strain DT7-4T was most closely related to Paenibacillus phyllosphaerae PALXIL04T and Paenibacillus taihuensis THMBG22T, with 96.3 % 16S rRNA gene sequence similarity to each, and strain DLE-12T was most closely related to Paenibacillus ginsengarvi Gsoil 139T and Paenibacillus hodogayensis SGT, with 96.6 and 93.3 % sequence similarity, respectively. Both isolates contained anteiso-C15 : 0 as the dominant fatty acid, meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan and MK-7 as the respiratory menaquinone. The cellular polar lipids were composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and unidentified polar lipids. The DNA G+C contents of strains DT7-4T and DLE-12T were 50.1 ± 0.7 and 55.2 ± 0.5 mol%, respectively. The chemotaxonomic properties of both isolates were typical of members of the genus Paenibacillus. However, our biochemical and phylogenetic analyses distinguished each isolate from related species. Based on our polyphasic taxonomic analysis, strains DT7-4T and DLE-12T should be recognized as representatives of novel species of Paenibacillus, for which the names Paenibacillus oenotherae sp. nov. (type strain DT7-4T = KCTC 33186T = JCM 19573T) and Paenibacillus hemerocallicola sp. nov. (type strain DLE-12T = KCTC 33185T = JCM 19572T) are proposed.
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Affiliation(s)
- Tae-Su Kim
- Department of Microbiology and Molecular Biology, College of Bioscience and Biotechnology, Chungnam National University, 220 Gung-Dong, Yuseong, Daejeon 305-764, Republic of Korea
| | - Ji-Hye Han
- Department of Microbiology and Molecular Biology, College of Bioscience and Biotechnology, Chungnam National University, 220 Gung-Dong, Yuseong, Daejeon 305-764, Republic of Korea
| | - Yochan Joung
- Department of Microbiology and Molecular Biology, College of Bioscience and Biotechnology, Chungnam National University, 220 Gung-Dong, Yuseong, Daejeon 305-764, Republic of Korea
| | - Seung Bum Kim
- Department of Microbiology and Molecular Biology, College of Bioscience and Biotechnology, Chungnam National University, 220 Gung-Dong, Yuseong, Daejeon 305-764, Republic of Korea
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17
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Chen L, Wang L, Sheng XF. Paenibacillus qingshengii sp. nov., isolated from a lead-zinc tailing. Int J Syst Evol Microbiol 2015; 65:2161-2166. [PMID: 25858246 DOI: 10.1099/ijs.0.000232] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterial strain, S1-9(T), was isolated from a lead-zinc tailing in Nanjing, Jiangsu Province, China. Cells of strain S1-9(T) were Gram-stain-negative, ellipsoidal endospore-forming, aerobic rods and motile by means of peritrichous flagella. On the basis of 16S rRNA gene sequence analysis, strain S1-9(T) was shown to belong to the genus Paenibacillus and the closest phylogenetic relatives were Paenibacillus glucanolyticus DSM 5162(T) (96.8% similarity), Paenibacillus lautus NRRL NRS-666(T) (96.5%) and Paenibacillus lactis MB 1871(T) (95.4%). The predominant menaquinone was MK-7. The major cellular fatty acids were anteiso-C15:0 and iso-C16:0. The polar lipid profile contained phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, two unknown phospholipids and two unknown lipids. The total DNA G+C content of strain S1-9(T) was 49.9 mol%. Based on the low levels of DNA-DNA relatedness (ranging from 21.8 to 48.4%) to the type strains of the above species of the genus Paenibacillus and unique phenotypic characteristics, strain S1-9(T) is considered to represent a novel species of the genus Paenibacillus, for which the name Paenibacillus qingshengii sp. nov. is proposed. The type strain is S1-9(T) ( = CCTCC AB 2014290(T) = JCM 30613(T)).
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Affiliation(s)
- Ling Chen
- Key Laboratory of Agricultural Environment Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, PR China
| | - Lu Wang
- Key Laboratory of Agricultural Environment Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, PR China
| | - Xia-Fang Sheng
- Key Laboratory of Agricultural Environment Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, PR China
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18
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Kim JH, Kang H, Kim W. Paenibacillus doosanensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2014; 64:1271-1277. [DOI: 10.1099/ijs.0.050716-0] [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-positive, aerobic, endospore-forming bacterium, designated CAU 1055T, was isolated from soil and its taxonomic position was investigated using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequence comparison revealed that the strain formed a distinct lineage within the genus
Paenibacillus
and was most closely related to
Paenibacillus contaminans
CKOBP-6T (similarity, 95.2 %) and
Paenibacillus terrigena
A35T (similarity, 95.2 %). The levels of 16S rRNA gene sequence similarity with other species of the genus
Paenibacillus
, including the type species of the genus,
Paenibacillus polymyxa
IAM 13419T (similarity, 91.7 %), were all <94.6 %. Strain CAU 1055T contained MK-7 as the only isoprenoid quinone and anteiso-C15 : 0 and iso-C16 : 0 as the major fatty acids. The cell-wall peptidoglycan of strain CAU 1055T contained meso-diaminopimelic acid. The polar lipids were composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, lysyl-phospatidylglycerol and three unidentified aminophospholipids. The DNA G+C content was 48.3 mol%. The results of physiological and biochemical tests allowed phenotypic differentiation of strain CAU 1055T from closely related recognized species. On the basis of phenotypic data and phylogenetic inference, strain CAU 1055T should be classified in the genus
Paenibacillus
, as a member of a novel species, for which the name Paenibacillus doosanensis sp. nov. is proposed. The type strain is CAU 1055T ( = KCTC 33036T = CCUG 63270T).
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Affiliation(s)
- Jong-Hwa Kim
- Department of Microbiology, Chung-Ang University College of Medicine, Seoul, Republic of Korea
| | - Hyeonji Kang
- Department of Microbiology, Chung-Ang University College of Medicine, Seoul, Republic of Korea
| | - Wonyong Kim
- Department of Microbiology, Chung-Ang University College of Medicine, Seoul, Republic of Korea
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19
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Han KI, Patnaik BB, Kim YH, Kwon HJ, Han YS, Han MD. Isolation and Characterization of Chitinase-ProducingBacillusandPaenibacillusStrains from Salted and Fermented Shrimp,Acetes japonicus. J Food Sci 2014; 79:M665-74. [DOI: 10.1111/1750-3841.12387] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2013] [Accepted: 01/07/2014] [Indexed: 11/26/2022]
Affiliation(s)
- Kook-Il Han
- Dept. of Biology; Soonchunhyang Univ; Asan Chungnam 336-745 Republic of Korea
| | - Bharat Bhusan Patnaik
- Div. of Plant Biotechnology; College of Agriculture and Life Science; Chonnam Natl. Univ; Gwangju 500-757 Republic of Korea
| | - Yong Hyun Kim
- Dept. of Biology; Soonchunhyang Univ; Asan Chungnam 336-745 Republic of Korea
| | - Hyun-Jung Kwon
- Dept. of Biology; Soonchunhyang Univ; Asan Chungnam 336-745 Republic of Korea
| | - Yeon Soo Han
- Div. of Plant Biotechnology; College of Agriculture and Life Science; Chonnam Natl. Univ; Gwangju 500-757 Republic of Korea
| | - Man-Deuk Han
- Dept. of Biology; Soonchunhyang Univ; Asan Chungnam 336-745 Republic of Korea
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Lee YJ, Lee SJ, Jeong H, Kim HJ, Ryu N, Kim BC, Lee HS, Lee DW, Lee SJ. Draft genome sequence of Bacillus oceanisediminis 2691. J Bacteriol 2012; 194:6351-2. [PMID: 23105082 PMCID: PMC3486353 DOI: 10.1128/jb.01643-12] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2012] [Accepted: 09/12/2012] [Indexed: 11/20/2022] Open
Abstract
Bacillus oceanisediminis 2691 is an aerobic, Gram-positive, spore-forming, and moderately halophilic bacterium that was isolated from marine sediment of the Yellow Sea coast of South Korea. Here, we report the draft genome sequence of B. oceanisediminis 2691 that may have an important role in the bioremediation of marine sediment.
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Affiliation(s)
- Yong-Jik Lee
- Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
| | - Sang-Jae Lee
- Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
| | - Haeyoung Jeong
- Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
- Biosystems and Bioengineering Program, University of Science and Technology, Daejeon, Republic of Korea
| | - Hyun Ju Kim
- Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
- Biosystems and Bioengineering Program, University of Science and Technology, Daejeon, Republic of Korea
| | - Naeun Ryu
- College of Medical and Life Sciences, Silla University, Busan, Republic of Korea
| | - Byoung-Chan Kim
- Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
| | - Han-Seung Lee
- College of Medical and Life Sciences, Silla University, Busan, Republic of Korea
| | - Dong-Woo Lee
- Division of Applied Biology and Chemistry, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, Republic of Korea
| | - Sang Jun Lee
- Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea
- Biosystems and Bioengineering Program, University of Science and Technology, Daejeon, Republic of Korea
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