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Mao S, Li S, Guo B, Mu W, Hou X, Liu H, Wei S, Liu A, Kong L, Chen Z. Lysobacter selenitireducens sp. nov., isolated from river sediment. Int J Syst Evol Microbiol 2022; 72. [PMID: 36260505 DOI: 10.1099/ijsem.0.005550] [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] [Indexed: 06/16/2023] Open
Abstract
A Gram-stain-negative, yellow-pigmented, motile, flagellated and rod-shaped bacterium, designated as 13AT, was isolated from a river sediment sample of Fuyang River in Hengshui City, Hebei Province, PR China. Strain 13AT grew at 10-37 °C (optimum, 30 °C), at pH 5.0-11.0 (optimum, pH 7.0) and at 0-7 % (w/v) NaCl concentration (optimum, 0 %). Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain 13AT belongs to the genus Lysobacter, and was most closely related to Lysobacter spongiicola DSM 21749T (97.8 %), Lysobacter concretionis DSM 16239T (97.5 %), Lysobacter daejeonensis GIM 1.690T (97.3 %) and Lysobacter arseniciresistens CGMCC 1.10752T (96.9 %). Meanwhile, the type species Lysobacter enzymogenes ATCC 29487T was selected as a reference strain (95.2 %). The genomic size of strain 13AT was 3.0 Mb and the DNA G+C content was 69.0 %. The average nucleotide identity values between strain 13AT and each of the reference type strains L. spongiicola DSM 21749T, L. concretionis DSM 16239T, L. daejeonensis GIM 1.690T, L. arseniciresistens CGMCC 1.10752T and L. enzymogenes ATCC 29487T were 75.9, 76.1, 77.7, 78.0 and 73.2 %, respectively. The digital DNA-DNA hybridization values between strain 13AT and each of the reference type strains were 21.7, 22.2, 21.9, 22.7 and 23.2 %, respectively. The average amino acid identity values between strain 13AT and each of the reference type strains were 72.5, 72.9, 72.3, 75.0 and 69.2 %, respectively. The major fatty acids were iso-C15 : 0, iso-C16 : 0 and summed feature 9 (iso-C17 : 1 ω9c and/or C16 : 0 10-methyl). The sole respiratory quinone was identified as ubiquinone-8. The polar lipid profile contained phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid, an unidentified lipid, four unidentified phospholipids and two unidentified glycolipids. Based on the phenotypic, physiological, phylogenetic and chemotaxonomic data, strain 13AT represents a novel species of the genus Lysobacter, for which the name Lysobacter selenitireducens sp. nov. is proposed. The type strain is 13AT (=JCM 34786T=GDMCC 1.2722T).
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Affiliation(s)
- Sidi Mao
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Shucheng Li
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Bai Guo
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Weidong Mu
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Xiaoxiao Hou
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
- School of Life Sciences, Lanzhou University, Lanzhou,730000, Gansu Province, PR China
| | - Hongliang Liu
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
- Collaborative Innovation Center for Wetland Conservation and Green Development of Hebei Province, Hengshui, 053000, Hebei Province, PR China
| | - Shuzhen Wei
- Collaborative Innovation Center for Wetland Conservation and Green Development of Hebei Province, Hengshui, 053000, Hebei Province, PR China
- Center for Wetland Conservation and Research, Hengshui University, Hengshui, 053000, Hebei Province, PR China
- Hebei Key Laboratory of Wetland Ecology and Conservation, Hengshui, 053000, Hebei Province, PR China
| | - Aijv Liu
- Collaborative Innovation Center for Wetland Conservation and Green Development of Hebei Province, Hengshui, 053000, Hebei Province, PR China
- School of Resources and Environmental Engineering, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Ling Kong
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
| | - Zhiwei Chen
- Institute of Food and Nutrition Science, Shandong University of Technology, Zibo, 255000, Shandong Province, PR China
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Lysobacter ciconiae sp. nov., and Lysobacter avium sp. nov., isolated from the faeces of an Oriental stork. J Microbiol 2022; 60:469-477. [DOI: 10.1007/s12275-022-1647-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 02/09/2022] [Accepted: 02/11/2022] [Indexed: 10/18/2022]
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Lina F, Ting W, Lanfang W, Jun Y, Qi L, Yating W, Xing W, Guanghai J. Specific detection of Lysobacter antibioticus strains in agricultural soil using PCR and real-time PCR. FEMS Microbiol Lett 2019; 365:5094558. [PMID: 30202922 DOI: 10.1093/femsle/fny219] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Accepted: 09/07/2018] [Indexed: 11/13/2022] Open
Abstract
Lysobacter antibioticus is an important biocontrol bacteria against phytopathogens in soil, and with the ability to produce nonvolatile antimicrobial metabolites has been extensively characterised. It is important to establish applicable techniques to detect and monitor L. antibioticus directly and accurately in soil samples. We developed and tested 13 primer sets according to phenazine gene (phzA, phzB, phzD, phzF, phzS) and the cyclohexanone monooxygenase gene (phzNO1); a pair of primer phzNO1 F1/phzNO1 R1 based on the cyclohexanone monooxygenase (phzNO1) gene of L. antibioticus strain OH13 was selected and optimized polymerase chain reaction (PCR) amplification conditions for rapid and accurate detection. After screening eight strains of L. antibioticus, two strains of Lysobacter enzymogenes, one strain of Lysobacter capsici, Arthrobacterium, Bacillus, Microbacterium, Burkholderia, Pseudomonas and other bacterial strains isolated from different agricultural soils, the phzNO1 F1/phzNO1 R1 primers amplified a single PCR band of about 229 bp from L. antibioticus. The detection sensitivity with primers phzNO1 F1/phzNO1 R1 was 5.14 × 104 fg/25μL of genomic DNA and 2.254 × 1010 to 2.254 × 1011 colony-forming units/mL for the soil samples. Quantitative PCR assays were to develope as a specific method to monitor the L. antibioticus population in soil as well as guide soil micro-ecological management.
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Affiliation(s)
- Fu Lina
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Wang Ting
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Wei Lanfang
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Yang Jun
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Liu Qi
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Wang Yating
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Wang Xing
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Ji Guanghai
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management under the Ministry of Education, Yunnan Agricultural University, Kunming 650201, P. R. China
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Chhetri G, Kim J, Kim I, Seo T. Lysobacter caseinilyticus, sp. nov., a casein hydrolyzing bacterium isolated from sea water. Antonie van Leeuwenhoek 2019; 112:1349-1356. [DOI: 10.1007/s10482-019-01267-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Accepted: 04/12/2019] [Indexed: 10/27/2022]
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Lysobacter silvestris sp. nov., isolated from alpine forest soil, and reclassification of Luteimonas tolerans as Lysobacter tolerans comb. nov. Int J Syst Evol Microbiol 2018; 68:1571-1577. [DOI: 10.1099/ijsem.0.002710] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Kim SJ, Ahn JH, Weon HY, Joa JH, Hong SB, Seok SJ, Kim JS, Kwon SW. Lysobacter solanacearum sp. nov., isolated from rhizosphere of tomato. Int J Syst Evol Microbiol 2017; 67:1102-1106. [DOI: 10.1099/ijsem.0.001729] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Soo-Jin Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Jae-Hyung Ahn
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Hang-Yeon Weon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Jae-Ho Joa
- National Institute of Horticultural and Herbal Science, Rural Development Administration, Jeju 63240, Republic of Korea
| | - Seung-Beom Hong
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Soon-Ja Seok
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Jeong-Seon Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
| | - Soon-Wo Kwon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju-gun, Jeollabuk-do 55365, Republic of Korea
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Jeong SE, Lee HJ, Jeon CO. Lysobacter aestuarii sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 2016; 66:1346-1351. [DOI: 10.1099/ijsem.0.000884] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Sang Eun Jeong
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
| | - Hyo Jung Lee
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
| | - Che Ok Jeon
- Department of Life Science, Chung-Ang University,Seoul 06974,Republic of Korea
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Puopolo G, Tomada S, Sonego P, Moretto M, Engelen K, Perazzolli M, Pertot I. The Lysobacter capsici AZ78 Genome Has a Gene Pool Enabling it to Interact Successfully with Phytopathogenic Microorganisms and Environmental Factors. Front Microbiol 2016; 7:96. [PMID: 26903975 PMCID: PMC4742617 DOI: 10.3389/fmicb.2016.00096] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2015] [Accepted: 01/18/2016] [Indexed: 01/26/2023] Open
Abstract
Lysobacter capsici AZ78 has considerable potential for biocontrol of phytopathogenic microorganisms. However, lack of information about genetic cues regarding its biological characteristics may slow down its exploitation as a biofungicide. In order to obtain a comprehensive overview of genetic features, the L. capsici AZ78 genome was sequenced, annotated and compared with the phylogenetically related pathogens Stenotrophomonas malthophilia K729a and Xanthomonas campestris pv. campestris ATCC 33913. Whole genome comparison, supported by functional analysis, indicated that L. capsici AZ78 has a larger number of genes responsible for interaction with phytopathogens and environmental stress than S. malthophilia K729a and X. c. pv. campestris ATCC 33913. Genes involved in the production of antibiotics, lytic enzymes and siderophores were specific for L. capsici AZ78, as well as genes involved in resistance to antibiotics, environmental stressors, fungicides and heavy metals. The L. capsici AZ78 genome did not encompass genes involved in infection of humans and plants included in the S. malthophilia K729a and X. c. pv. campestris ATCC 33913 genomes, respectively. The L. capsici AZ78 genome provides a genetic framework for detailed analysis of other L. capsici members and the development of novel biofungicides based on this bacterial strain.
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Affiliation(s)
- Gerardo Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Selena Tomada
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy; Department of Agricultural and Environmental Science (DISA), PhD School of Agricultural Science and Biotechnology, University of UdineUdine, Italy
| | - Paolo Sonego
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Marco Moretto
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Kristof Engelen
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Michele Perazzolli
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
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Siddiqi MZ, Im WT. Lysobacter hankyongensis sp. nov., isolated from activated sludge and Lysobacter sediminicola sp. nov., isolated from freshwater sediment. Int J Syst Evol Microbiol 2015; 66:212-218. [PMID: 26498466 DOI: 10.1099/ijsem.0.000699] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Two novel strains, designated KTCe-2T and 7C-9T, isolated from an activated sludge and freshwater sediment, respectively in South Korea, were characterized by a polyphasic approach to clarify their taxonomic positions. Phylogenetic analysis based on 16S rRNA gene sequences indicated that both isolates belong to the genus Lysobacter and are most closely related to 'Lysobacter daecheongensis' Dae 08 (98.5 % and 97.6 % similarity for strains KTCe-2T and 7C-9T, respectively), Lysobacter brunescens KCTC 12130T (98.4 % and 97.2 %), and Lysobacter oligotrophicus JCM 18257T (97.1 % and 96.8 %). The G+C content of the genomic DNA of strains KTCe-2T and 7C-9T was 68.6 % and 71.5 mol%, respectively. Strains KTCe-2T and 7C-9T possessed ubiquinone-8 as the sole respiratory quinone, and a fatty acid profile with iso-C15 : 0 and iso-C16 : 0 as the major fatty acids supported the affiliation of the two strains to the genus Lysobacter. Moreover, the physiological and biochemical results and low DNA-DNA relatedness values allowed the phenotypic and genotypic differentiation of strains KTCe-2T and 7C-9T from other species of the genus Lysobacter with validly published names. Therefore, the two isolates represent two novel species of the genus Lysobacter, for which the name Lysobacter hankyongensis sp. nov. (type strain KTCe-2T = JCM 18204T = KACC 16618T) and Lysobacter sediminicola sp. nov. (type strain 7C-9T = JCM 18205T = KACC 16617T) are proposed.
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Affiliation(s)
- Muhammad Zubair Siddiqi
- Department of Biotechnology, Hankyoung National University, 327 Chungang-no Anseong-si, Kyonggi-do 456-749, Republic of Korea
| | - Wan-Taek Im
- Department of Biotechnology, Hankyoung National University, 327 Chungang-no Anseong-si, Kyonggi-do 456-749, Republic of Korea.,Genomic Informatics Center, Hankyong National University, 327 Chungang-no Anseong-si, Kyonggi-do, 14 456-749, Republic of Korea
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