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Yadav A, Teware R, Bhatt A, Bhavsar Y, Maurya A, Thorat V, Vemuluri VR, Kirdat K. Ureibacillus aquaedulcis sp. nov., isolated from freshwater well and reclassification of Lysinibacillus yapensis and Lysinibacillus antri as Ureibacillus yapensis comb. nov. and Ureibacillus antri comb. Nov. Arch Microbiol 2024; 206:242. [PMID: 38698177 DOI: 10.1007/s00203-024-03970-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Accepted: 04/19/2024] [Indexed: 05/05/2024]
Abstract
A Gram-stain-positive aerobic, rod-shaped, spore-producing bacterium forming colonies with convex elevation and a smooth, intact margin was isolated from a freshwater sample collected from a well situated in an agricultural field. The 16S rRNA gene sequence of the isolated strain BA0131T showed the highest sequence similarity to Lysinibacillus yapensis ylb-03T (99.25%) followed by Ureibacillus chungkukjangi 2RL3-2T (98.91%) and U. sinduriensis BLB-1T (98.65%). The strain BA0131T was oxidase and catalase positive and urease negative. It also tested positive for esculin hydrolysis and reduction of potassium nitrate, unlike its phylogenetically closest relatives. The predominant fatty acids in strain BA0131T included were anteiso-C15:0, iso-C16:0, iso-C15:0, iso-C14:0 and the major polar lipids comprised were phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The respiratory quinones identified in strain BA0131T were MK8 (H2) (major) and MK8 (minor). The strain BA0131T shared the lowest dDDH values with L. yapensis ylb-03T (21%) followed by U. chungkukjangi 2RL3-2T (24.2%) and U. sinduriensis BLB-1T (26.4%) suggesting a closer genetic relationship U. sinduriensis BLB-1T. The ANI percentage supported the close relatedness with U. sinduriensis BLB-1T (83.61%) followed by U. chungkukjangi 2RL3-2T (82.03%) and U. yapensis ylb-03T (79.57%). The core genome-based phylogeny constructed using over 13,704 amino acid positions and 92 core genes revealed the distinct phylogenetic position of strain BA0131T among the genus Ureibacillus. The distinct physiological, biochemical characteristics and genotypic relatedness data indicate the strain BA0131T represents a novel species of the genus Ureibacillus for which the name Ureibacillus aquaedulcis sp. nov. (Type strain, BA0131T = MCC 5284 = JCM 36475) is proposed. Additionally, based on extensive genomic and phylogenetic analyses, we propose reclassification of two species, L. yapensis and L. antri, as U. yapensis comb. nov. (Type strain, ylb-03T = JCM 32871T = MCCC 1A12698T) and U. antri (Type strain, SYSU K30002T = CGMCC 1.13504T = KCTC 33955T).
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Affiliation(s)
- Amit Yadav
- National Centre for Microbial Resource, National Centre for Cell Science, Ganeshkhind, Pune, 411 007, India.
| | - Ruchi Teware
- Department of Microbiology, Fergusson College, Shivajinagar, Pune, 411 004, India
| | - Agrima Bhatt
- Department of Biosciences and Technology, School of Science and Environmental Studies, Dr. Vishwanath Karad MIT World Peace University, Pune, 411 038, India
| | - Yash Bhavsar
- Department of Microbiology, Fergusson College, Shivajinagar, Pune, 411 004, India
| | - Akanksha Maurya
- Khwaja Moinuddin Chishti Language University, Sitapur Hardoi Road, Lucknow, 226 013, India
| | - Vipool Thorat
- National Centre for Microbial Resource, National Centre for Cell Science, Ganeshkhind, Pune, 411 007, India
| | - Venkata Ramana Vemuluri
- Microbial Type Culture Collection and Gene Bank, CSIR-Institute of Microbial Technology, Sector-39A, Chandigarh, 160 003, India
| | - Kiran Kirdat
- National Centre for Microbial Resource, National Centre for Cell Science, Ganeshkhind, Pune, 411 007, India.
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Smith BR, Patch KB, Gupta A, Knoles EM, Unckless RL. The genetic basis of variation in immune defense against Lysinibacillus fusiformis infection in Drosophila melanogaster. PLoS Pathog 2023; 19:e1010934. [PMID: 37549163 PMCID: PMC10434897 DOI: 10.1371/journal.ppat.1010934] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Revised: 08/17/2023] [Accepted: 06/29/2023] [Indexed: 08/09/2023] Open
Abstract
The genetic causes of phenotypic variation often differ depending on the population examined, particularly if the populations were founded by relatively small numbers of genotypes. Similarly, the genetic causes of phenotypic variation among similar traits (resistance to different xenobiotic compounds or pathogens) may also be completely different or only partially overlapping. Differences in genetic causes for variation in the same trait among populations suggests context dependence for how selection acts on those traits. Similarities in the genetic causes of variation for different traits, on the other hand, suggests pleiotropy which would also influence how natural selection shapes variation in a trait. We characterized immune defense against a natural Drosophila pathogen, the Gram-positive bacterium Lysinibacillus fusiformis, in three different populations and found almost no overlap in the genetic architecture of variation in survival post infection. However, when comparing our results to a similar experiment with the fungal pathogen, B. bassiana, we found a convincing shared QTL peak for both pathogens. This peak contains the Bomanin cluster of Drosophila immune effectors. Loss of function mutants and RNAi knockdown experiments confirms a role of some of these genes in immune defense against both pathogens. This suggests that natural selection may act on the entire cluster of Bomanin genes (and the linked region under the QTL) or specific peptides for specific pathogens.
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Affiliation(s)
- Brittny R. Smith
- Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, United States of America
| | - Kistie B. Patch
- Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, United States of America
| | - Anjali Gupta
- Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, United States of America
| | - Emma M. Knoles
- Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, United States of America
| | - Robert L. Unckless
- Department of Molecular Biosciences, University of Kansas, Lawrence, Kansas, United States of America
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Iqbal S, Begum F, Rabaan AA, Aljeldah M, Al Shammari BR, Alawfi A, Alshengeti A, Sulaiman T, Khan A. Classification and Multifaceted Potential of Secondary Metabolites Produced by Bacillus subtilis Group: A Comprehensive Review. Molecules 2023; 28:molecules28030927. [PMID: 36770594 PMCID: PMC9919246 DOI: 10.3390/molecules28030927] [Citation(s) in RCA: 16] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 12/31/2022] [Accepted: 01/04/2023] [Indexed: 01/19/2023] Open
Abstract
Despite their remarkable biosynthetic potential, Bacillus subtilis have been widely overlooked. However, their capability to withstand harsh conditions (extreme temperature, Ultraviolet (UV) and γ-radiation, and dehydration) and the promiscuous metabolites they synthesize have created increased commercial interest in them as a therapeutic agent, a food preservative, and a plant-pathogen control agent. Nevertheless, the commercial-scale availability of these metabolites is constrained due to challenges in their accessibility via synthesis and low fermentation yields. In the context of this rising in interest, we comprehensively visualized the antimicrobial peptides produced by B. subtilis and highlighted their prospective applications in various industries. Moreover, we proposed and classified these metabolites produced by the B. subtilis group based on their biosynthetic pathways and chemical structures. The biosynthetic pathway, bioactivity, and chemical structure are discussed in detail for each class. We believe that this review will spark a renewed interest in the often disregarded B. subtilis and its remarkable biosynthetic capabilities.
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Affiliation(s)
- Sajid Iqbal
- Atta-ur-Rahman School of Applied Biosciences, National University of Sciences and Technology (NUST), Islamabad 44000, Pakistan
- Correspondence: or
| | - Farida Begum
- Department of Biochemistry, Abdul Wali Khan University Mardan (AWKUM), Mardan 23200, Pakistan
| | - Ali A. Rabaan
- Molecular Diagnostic Laboratory, Johns Hopkins Aramco Healthcare, Dhahran 31311, Saudi Arabia
- College of Medicine, Alfaisal University, Riyadh 11533, Saudi Arabia
- Department of Public Health and Nutrition, The University of Haripur, Haripur 22610, Pakistan
| | - Mohammed Aljeldah
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, University of Hafr Al Batin, Hafr Al Batin 39831, Saudi Arabia
| | - Basim R. Al Shammari
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, University of Hafr Al Batin, Hafr Al Batin 39831, Saudi Arabia
| | - Abdulsalam Alawfi
- Department of Pediatrics, College of Medicine, Taibah University, Al-Madinah 41491, Saudi Arabia
| | - Amer Alshengeti
- Department of Pediatrics, College of Medicine, Taibah University, Al-Madinah 41491, Saudi Arabia
- Department of Infection Prevention and Control, Prince Mohammad Bin Abdulaziz Hospital, National Guard Health Affairs, Al-Madinah 41491, Saudi Arabia
| | - Tarek Sulaiman
- Infectious Diseases Section, Medical Specialties Department, King Fahad Medical City, Riyadh 12231, Saudi Arabia
| | - Alam Khan
- Department of Life Sciences, Abasyn University Islamabad Campus, Islamabad 44000, Pakistan
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Inducible boron resistance via active efflux in Lysinibacillus and Enterococcus isolates from boron-contaminated agricultural soil. Biometals 2022; 35:215-228. [PMID: 35037170 DOI: 10.1007/s10534-021-00359-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Accepted: 12/08/2021] [Indexed: 11/02/2022]
Abstract
Phylogenetically diverse bacteria tolerate high boron concentrations while others require it for metabolic purposes despite the metalloid being toxic beyond a threshold. Boron resistance and plant growth promoting attributes of two bacterial strains, Lysinibacillus sp. OL1 and a novel Enterococcus sp. OL5, isolated from boron-fertilizer-amended cauliflower fields were investigated in this study. OL1 and OL5 grew efficiently in the presence of 210-230 mM boron, and resistance was found to be inducible by small amounts of the element: 5 to 50 mM boron pre-exposure progressively shortened the lag phase of growth in the presence of 200 mM boron. Intracellular boron accumulation was also found to be regulated by the level of pre-exposure: no induction or induction by small amounts led to higher levels of intracellular accumulation, whereas induction by high concentrations led to lower accumulation. These data, in the context of the strains' overall resistance towards 200 mM boron, indicated that induction by higher boron concentrations turned potential efflux mechanisms on, while resistance was eventually achieved by continuous cellular entry and exit of the ions. Involvement of solute efflux in boron resistance was corroborated by the genome content of the isolates (genes encoding proteins of the ATP-binding cassette, major facilitator, small multidrug resistance, multi antimicrobial extrusion, and resistance-nodulation-cell division, family/superfamily). Bacteria such as OL1 and OL5, which resist boron via influx-efflux, potentially lower boron bioavailability, and therefore toxicity, for the soil microbiota at large. These bacteria, by virtue of their plant-growth-promoting attributes, can also be used as biofertilizers.
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Fermentation of Palm Oil Mill Effluent in the Presence of Lysinibacillus sp. LC 556247 to Produce Alternative Biomass Fuel. SUSTAINABILITY 2021. [DOI: 10.3390/su132111915] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
A bacterial strain, identified as Lysinibacillus sp. LC 556247 POME, was isolated from palm oil mill effluent (POME). The present article highlights the potential utilization of POME as a sole fermentation medium by Lysinibacillus sp. LC 556247 to produce biomass fuel via aerobic fermentation. The fermentation was performed in a shake flask with a working volume of 300 mL, agitated at 180 rpm, incubated at 35 ± 2 °C for various fermentation hours, ranging from 1, 2, 3, 4, 24, 48, 72, 96, and 120 h, and was followed by a drying process. Elucidation of the POME characteristics, calorific energy values (CEV), moisture content (MC), oil and grease content, chemical oxygen demand (COD), biochemical oxygen demand (BOD), dissolved oxygen (DO), total suspended solids (TSS), pH, total nitrogen, and the colony-forming unit (CFU) were performed. The results demonstrate that the highest CEV, of 21.25 ± 0.19 MJ/kg, was obtained at 48 h fermentation. High amounts of extractable oil and nitrogen content were retrieved at the highest CEV reading of the fermented and dried POME samples, which were 17.95 ± 0.02% and 12.80 ± 0.08%, respectively. The maximum removal efficiencies for the COD (50.83%), the BOD (71.73%), and the TSS (42.99%) were achieved at 120 h of fermentation, with an operating pH ranging from 4.49–4.54. The XRF analysis reveals that the fermented and dried products consisted of elements that had a high amount of carbon and potassium, and a significantly low amount of silica, which is sufficient for the effective burning of biomass fuel in the boiler.
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Khadka S, Adhikari S, Thapa A, Panday R, Adhikari M, Sapkota S, Regmi RS, Adhikari NP, Proshad R, Koirala N. Screening and Optimization of Newly Isolated Thermotolerant Lysinibacillus fusiformis Strain SK for Protease and Antifungal Activity. Curr Microbiol 2020; 77:1558-1568. [PMID: 32248284 DOI: 10.1007/s00284-020-01976-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Accepted: 03/27/2020] [Indexed: 11/24/2022]
Abstract
The current study was designed to isolate, identify and characterize a Bacillus sp. capable of producing protease and exhibiting antifungal activity. A highly potent bacterium capable of producing protease abundantly was isolated from the soil collected from the waste pit near Microbiology Laboratory of Birendra Multiple Campus, Bharatpur and later on identified as Lysinibacillus fusiformis strain SK on the basis of morphological, physiological, biochemical and 16S rDNA gene sequencing techniques. The strain SK showed 98.36% similarity with L. fusiformis strain NBRC 15717. Using R-programming statistical analysis tool, the optimum incubation time for the highest average protease production (APP) (47.2 U/mL) was found to be 22 h at 50 °C and both incubation time and temperature showed a significant impact on the production of protease (P < 0.01). The maximum average relative protease activity (ARPA) was observed at pH 7.8 and 48 °C, whereas the least ARPA was observed in the presence of 80 g/L NaCl and 10 g/L HgCl2 (P < 0.01). The newly isolated bacterial strain also exhibited strong antifungal activity against aflatoxigenic Aspergillus flavus and Aspergillus parasiticus suggesting that it can be a potential candidate for protease production and activity over a wider range of temperature and pH as well as for synthesizing effective antifungal compounds.
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Affiliation(s)
- Sujan Khadka
- Department of Microbiology, Birendra Multiple Campus, Tribhuvan University, Chitwan, Bharatpur, 44200, Nepal.,State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Sanjib Adhikari
- Department of Microbiology, Birendra Multiple Campus, Tribhuvan University, Chitwan, Bharatpur, 44200, Nepal.
| | - Alina Thapa
- State Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100101, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Raju Panday
- Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China
| | - Manjila Adhikari
- Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China
| | - Sanjeep Sapkota
- Department of Microbiology, Birendra Multiple Campus, Tribhuvan University, Chitwan, Bharatpur, 44200, Nepal.,State Key Laboratory of Respiratory Disease, Guangzhou Institute of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, 510530, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Ramesh Sharma Regmi
- Department of Microbiology, Birendra Multiple Campus, Tribhuvan University, Chitwan, Bharatpur, 44200, Nepal
| | - Namita Paudel Adhikari
- State Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100101, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Ram Proshad
- Key Laboratory of Mountain Surface Process and Ecological Regulation, Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610041, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Niranjan Koirala
- Department of Natural Products Research, Dr. Koirala Research Institute for Biotechnology and Biodiversity, Kathmandu, 44613, Nepal.,Faculty of Science and Technology, University of Macau, Macau SAR, 999078, China
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7
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Lysinibacillus cavernae sp. nov., isolated from cave soil. Arch Microbiol 2020; 202:1529-1534. [DOI: 10.1007/s00203-020-01852-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 02/27/2020] [Accepted: 03/01/2020] [Indexed: 12/17/2022]
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8
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Isolation and characterization of a novel piezotolerant bacterium Lysinibacillus yapensis sp. nov., from deep-sea sediment of the Yap Trench, Pacific Ocean. J Microbiol 2019; 57:562-568. [PMID: 31124045 DOI: 10.1007/s12275-019-8709-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Revised: 02/20/2019] [Accepted: 02/20/2019] [Indexed: 10/26/2022]
Abstract
A Gram-positive, aerobic, rod-shaped, spore-forming bacterium, designated YLB-03T, with peritrichous flagella was isolated from deep-sea sediment of the Yap Trench at a depth of 4435 m. The bacterium was found to be catalase-positive but oxidase-negative. Growth of this bacterium was observed at 15-50°C (optimum 37°C), pH 5-10.5 (optimum 7), 0-5% NaCl (optimum 1%, w/v) and 0.1-50 MPa (optimum 0.1 MPa). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YLB-03T was a member of the genus Lysinibacillus. Strain YLB-03T was closely related to Lysinibacillus sinduriensis BLB-1T and Lysinibacillus chungkukjangi 2RL3-2T (98.4%), Lysinibacillus halotolerans LAM-612T (98.0%), Lysinibacillus telephonicus KT735049T (97.5%), Lysinibacillus endophyticus C9T (97.5%), Lysinibacillus composti NCCP-36T and Lysinibacillus massiliensis 4400831T (97.3%). The ANI and the GGDC DNA-DNA hybridization estimate values between strain YLB-03T and closely related type strains were 73.7-76.3% and 34.7-38.7%, respectively. The principal fatty acids were anteiso-C15:0 and iso-C15:0. The G+C content of the chromosomal DNA was 39.6 mol%. The respiratory quinone was determined to be MK-7. The diagnostic amino acids in the cell wall peptidoglycan contained Lys-Asp (type A4α) and the cell-wall sugars were glucose and xylose. The polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, and an unidentified phospholipid. The combined genotypic and phenotypic data showed that strain YLB-03T represents a novel species within the genus Lysinibacillus, for which the name Lysinibacillus yapensis sp. nov. is proposed, with the type strain YLB-03T (= MCCC 1A12698T = JCM 32871T).
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9
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Gong X, Tian W, Bai J, Qiao K, Zhao J, Wang L. Highly efficient deproteinization with an ammonifying bacteria Lysinibacillus fusiformis isolated from brewery spent diatomite. J Biosci Bioeng 2018; 127:326-332. [PMID: 30228039 DOI: 10.1016/j.jbiosc.2018.08.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2018] [Revised: 07/25/2018] [Accepted: 08/07/2018] [Indexed: 11/28/2022]
Abstract
To explore a new method for bio-regeneration of high-protein brewery spent diatomite, an ammonifying bacteria (BSD1) was screened out from it and identified as Lysinibacillus fusiformis. The protein degradation characteristics of BSD1 was studied with rice protein as the sole nitrogen source. Maximum protein degradation activity was obtained when BSD1 was inoculated with an inoculum of 5% into a medium with glucose as carbon source and initial pH value of 7.0 and incubated at 30°C for 48 h. In this optimal condition, protein concentration decreased from 156.8 mg/L to 19.2 mg/L, and protein degradation efficiency of BSD1 reached 88%. Free amino acid analysis showed that the content of Phe, Tyr, Pro, Ala, Lys, Thr and His increased in protein degradation process. After degradation, NH4+N concentration producing in medium supernatant reached 232.2 mg/L. These results indicated the strain BSD1 could transform proteins into free amino acids and eventually convert them to ammonium or ammonia. Furthermore, strain BSD1 could also be used for deproteinization of brewery spent diatomite and 51% of proteins in spent diatomite were degraded. After biological deproteinization the specific surface area and total pore volume of diatomite improved obviously. These results illustrated that the application of strain BSD1 for bio-regeneration of high-protein brewery spent diatomite was efficient and feasible.
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Affiliation(s)
- Xiaoxi Gong
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
| | - Weijun Tian
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, China.
| | - Jie Bai
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, China
| | - Kaili Qiao
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
| | - Jing Zhao
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
| | - Liang Wang
- College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, China
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Failor KC, Schmale DG, Vinatzer BA, Monteil CL. Ice nucleation active bacteria in precipitation are genetically diverse and nucleate ice by employing different mechanisms. ISME JOURNAL 2017; 11:2740-2753. [PMID: 28753208 DOI: 10.1038/ismej.2017.124] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Revised: 06/02/2017] [Accepted: 06/15/2017] [Indexed: 11/09/2022]
Abstract
A growing body of circumstantial evidence suggests that ice nucleation active (Ice+) bacteria contribute to the initiation of precipitation by heterologous freezing of super-cooled water in clouds. However, little is known about the concentration of Ice+ bacteria in precipitation, their genetic and phenotypic diversity, and their relationship to air mass trajectories and precipitation chemistry. In this study, 23 precipitation events were collected over 15 months in Virginia, USA. Air mass trajectories and water chemistry were determined and 33 134 isolates were screened for ice nucleation activity (INA) at -8 °C. Of 1144 isolates that tested positive during initial screening, 593 had confirmed INA at -8 °C in repeated tests. Concentrations of Ice+ strains in precipitation were found to range from 0 to 13 219 colony forming units per liter, with a mean of 384±147. Most Ice+ bacteria were identified as members of known and unknown Ice+ species in the Pseudomonadaceae, Enterobacteriaceae and Xanthomonadaceae families, which nucleate ice employing the well-characterized membrane-bound INA protein. Two Ice+ strains, however, were identified as Lysinibacillus, a Gram-positive genus not previously known to include Ice+ bacteria. INA of the Lysinibacillus strains is due to a nanometer-sized molecule that is heat resistant, lysozyme and proteinase resistant, and secreted. Ice+ bacteria and the INA mechanisms they employ are thus more diverse than expected. We discuss to what extent the concentration of culturable Ice+ bacteria in precipitation and the identification of a new heat-resistant biological INA mechanism support a role for Ice+ bacteria in the initiation of precipitation.
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Affiliation(s)
- K C Failor
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA, USA
| | - D G Schmale
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA, USA
| | - B A Vinatzer
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA, USA
| | - C L Monteil
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA, USA.,CNRS/CEA/Aix-Marseille Université, UMR7265 Institut de biosciences et biotechnologies, Laboratoire de Bioénergétique Cellulaire, Saint-Paul-lès-Durance, France.,INRA, UR0407 Pathologie Végétale, Montfavet cedex, France
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11
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Rahi P, Kurli R, Khairnar M, Jagtap S, Pansare AN, Dastager SG, Shouche YS. Description of Lysinibacillus telephonicus sp. nov., isolated from the screen of a cellular phone. Int J Syst Evol Microbiol 2017; 67:2289-2295. [PMID: 28699866 DOI: 10.1099/ijsem.0.001943] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterial strain, designated S5H2222T, was isolated form the screen of a cellular phone. The cells were Gram-stain-positive, rod-shaped, aerobic and motile, and endospores are formed. S5H2222T grew as pale white colonies on trypticase soy agar and the best growth was observed at 37 °C (10-55 °C) and at pH 7.0 (5.0-9.0). S5H2222T could tolerate up to 10 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences placed this strain within the genus Lysinibacillus and it exhibited high 16S rRNA gene sequence similarity to Lysinibacillus halotolerans LAM612T (97.8 %), Lysinibacillus chungkukjangi 2RL3-2T (97.4 %) and Lysinibacillus sinduriensis BLB-1T (97.2 %). The DNA-DNA relatedness of the strain with L. halotolerans JCM 19611T, L. chungkukjangi KACC 16626T and L. sinduriensis KACC 16611T was 57, 64 and 55 % respectively. The genomic DNA G+C content was 39.8 mol%. The major fatty acids of S5H2222T were iso-C15 : 0, anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. MK-7 was the only menaquinone and the main polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine, four unidentified polar lipids were also present. The diagnostic amino acids in the cell wall peptidoglycan contained Lys-Asp (type A4α). On the basis of the results of the phenotypic and genotypic characterizations, it was concluded that S5H2222T represents a novel species of the genus Lysinibacillus, for which the name Lysinibacillus telephonicus sp. nov. is proposed. The type strain is S5H2222T (=MCC 3065T=KACC 18714T=LMG 29294T).
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Affiliation(s)
- Praveen Rahi
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
| | - Rashmi Kurli
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
| | - Mitesh Khairnar
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
| | - Shubhangi Jagtap
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
| | - Aabeejjeet N Pansare
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
| | - Syed G Dastager
- NCIM-Resource Center, CSIR-National Chemical Laboratory, Pune-411008, Maharashtra, India
| | - Yogesh S Shouche
- Microbial Culture Collection, National Centre for Cell Science, Pune, Maharashtra 411007, India
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12
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Shafi S, Kamili AN, Shah MA, Bandh SA, Dar R. Dynamics of bacterial class Bacilli in the deepest valley lake of Kashmir-the Manasbal Lake. Microb Pathog 2017; 104:78-83. [DOI: 10.1016/j.micpath.2017.01.018] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Revised: 01/07/2017] [Accepted: 01/10/2017] [Indexed: 10/20/2022]
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13
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Sun JQ, Xu L, Wu XL. Lysinibacillus alkalisoli sp. nov., isolated from saline–alkaline soil. Int J Syst Evol Microbiol 2017; 67:67-71. [PMID: 27902208 DOI: 10.1099/ijsem.0.001571] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Ji-Quan Sun
- Institute of Innovation (Baotou), Peking University, Baotou 014030, PR China
- College of Engineering, Peking University, Beijing 100871, PR China
| | - Lian Xu
- Institute of Innovation (Baotou), Peking University, Baotou 014030, PR China
| | - Xiao-Lei Wu
- College of Engineering, Peking University, Beijing 100871, PR China
- Institute of Innovation (Baotou), Peking University, Baotou 014030, PR China
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14
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Ren Y, Chen SY, Yao HY, Deng LJ. Lysinibacillus cresolivorans sp. nov., an m-cresol-degrading bacterium isolated from coking wastewater treatment aerobic sludge. Int J Syst Evol Microbiol 2015; 65:4250-4255. [PMID: 26333922 DOI: 10.1099/ijsem.0.000569] [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-positive, rod-shaped, facultatively anaerobic, endospore-forming bacterium (designated strain SC03T) was isolated from the aerobic treatment sludge of a coking plant (Shaoguan City, China). The optimal pH and temperature for growth were pH 7.0 and 35 °C. On the basis of 16S rRNA gene sequence analysis, strain SC03T was related to the genus Lysinibacillus and the similarity between strain SC03T and the most closely related type strain, Lysinibacillus macroides LMG 18474T, was 94.4 %. The genomic G+C content of the DNA of strain SC03T was 41.2 mol%. Chemotaxonomic data supported the affiliation of strain SC03T to the genus Lysinibacillus. These properties include MK-7 as the predominant menaquinone; iso-C15 : 0 and iso-C16 : 0 as major fatty acids; A4α (l-Lys-d-Asp) as the cell-wall peptidoglycan type; and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine plus three unknown phospholipids as polar lipids. The phenotypic, phylogenetic and chemotaxonomic characters enable the differentiation of strain SC03T from recognized Lysinibacillus species. Thus, strain SC03T represents a novel species of the genus Lysinibacillus, for which the name Lysinibacillus cresolivorans sp. nov. is proposed. The type strain is SC03T ( = NRRL B-59352T = CCTCC M 208210T).
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Affiliation(s)
- Yuan Ren
- Key Laboratory of Environmental Protection and Eco-Remediation of Guangdong Regular Higher Education Institutions, PR China.,School of Environment and Energy, South China University of Technology, Panyu District, Guangzhou 510006, PR China.,Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, PR China
| | - Shao-Yi Chen
- School of Environment and Energy, South China University of Technology, Panyu District, Guangzhou 510006, PR China
| | - Hai-Yan Yao
- School of Environment and Energy, South China University of Technology, Panyu District, Guangzhou 510006, PR China
| | - Liu-Jie Deng
- School of Environment and Energy, South China University of Technology, Panyu District, Guangzhou 510006, PR China
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15
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Ouoba LII, Vouidibio Mbozo AB, Thorsen L, Anyogu A, Nielsen DS, Kobawila SC, Sutherland JP. Lysinibacillus louembei sp. nov., a spore-forming bacterium isolated from Ntoba Mbodi, alkaline fermented leaves of cassava from the Republic of the Congo. Int J Syst Evol Microbiol 2015; 65:4256-4262. [PMID: 26333923 DOI: 10.1099/ijsem.0.000570] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Investigation of the microbial diversity of Ntoba Mbodi, an African food made from the alkaline fermentation of cassava leaves, revealed the presence of a Gram-positive, catalase-positive, aerobic, motile and rod-shaped endospore-forming bacterium (NM73) with unusual phenotypic and genotypic characteristics. The analysis of the 16S rRNA gene sequence revealed that the isolate was most closely related to Lysinibacillus meyeri WS 4626T (98.93%), Lysinibacillus xylanilyticus XDB9T (96.95%) and Lysinibacillus odysseyi 34hs-1T (96.94%). The DNA-DNA relatedness of the isolate with L. meyeri LMG 26643T, L. xylanilyticus DSM 23493T and L. odysseyi DSM 18869T was 41%, 16% and 15%, respectively. The internal transcribed spacer-PCR profile of the isolate was different from those of closely related bacteria. The cell-wall peptidoglycan type was A4α, L-Lys-D-Asp and the major fatty acids were iso-C15:0, anteiso-C15:0, anteiso-C17:0 and iso-C17:0 and iso-C17:1ω10c. The polar lipids included phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphoaminolipid, aminolipid, two phospholipids and two unknown lipids. The predominant menaquinones were MK-7 and MK-6. Ribose was the only whole-cell sugar detected. The DNA G+C content was 38 mol%. Based on the results of the phenotypic and genotypic characterization, it was concluded that the isolate represents a novel species of the genus Lysinibacillus, for which the name of Lysinibacillus louembei sp. nov. is proposed. NM73T ( = DSM 25583T = LMG 26837T) represents the type strain.
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Affiliation(s)
- Labia Irène I Ouoba
- Ouoba-Consulting, London, United Kingdom.,Microbiology Research Unit, School of Human Sciences, Faculty of Life Sciences and Computing, London Metropolitan University, 166-220 Holloway Road, London N7 8DB, United Kingdom
| | | | - Line Thorsen
- Department of Food Science, Faculty of Science, University of Copenhagen, Rolighedsvej 26, 1958 Frederiksberg C, Denmark
| | - Amarachukwu Anyogu
- Microbiology Research Unit, School of Human Sciences, Faculty of Life Sciences and Computing, London Metropolitan University, 166-220 Holloway Road, London N7 8DB, United Kingdom
| | - Dennis S Nielsen
- Department of Food Science, Faculty of Science, University of Copenhagen, Rolighedsvej 26, 1958 Frederiksberg C, Denmark
| | - Simon C Kobawila
- Faculté des Sciences, Université Marien N'Gouabi, BP: 69 Brazzaville, Republic of the Congo
| | - Jane P Sutherland
- Microbiology Research Unit, School of Human Sciences, Faculty of Life Sciences and Computing, London Metropolitan University, 166-220 Holloway Road, London N7 8DB, United Kingdom
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16
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Suriyanarayanan B, Lakshmi PP, Santhosh RS, Dhevendaran K, Priya B, Krishna S. Streptomycin affinity depends on 13 amino acids forming a loop in homology modelled ribosomal S12 protein (rpsL gene) of Lysinibacillus sphaericus DSLS5 associated with marine sponge (Tedania anhelans). J Biomol Struct Dyn 2015. [PMID: 26198082 DOI: 10.1080/07391102.2015.1073633] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Streptomycin, an antibiotic used against microbial infections, inhibits the protein synthesis by binding to ribosomal protein S12, encoded by rpsL12 gene, and associated mutations cause streptomycin resistance. A streptomycin resistant, Lysinibacillus sphaericus DSLS5 (MIC >300 µg/mL for streptomycin), was isolated from a marine sponge (Tedania anhelans). The characterisation of rpsL12 gene showed a region having similarity to long terminal repeat sequences of murine lukemia virus which added 13 amino acids for loop formation in RpsL12; in addition, a K56R mutation which corresponds to K43R mutation present in streptomycin-resistant Escherichia coli is also present. The RpsL12 protein was modelled and compared with that of Lysinibacillus boronitolerans, Escherichia coli and Mycobacterium tuberculosis. The modelled proteins docked with streptomycin indicate compound had less affinity. The effect of loop on streptomycin resistance was analysed by constructing three different models of RpsL12 by, (i) removing both loop and mutation, (ii) removing the loop alone while retaining the mutation and (iii) without mutation having loop. The results showed that the presence of loop causes streptomycin resistance (decreases the affinity), and it further enhanced in the presence of mutation at 56th codon. Further study will help in understanding the evolution of streptomycin resistance in organisms.
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Affiliation(s)
| | | | - Ramachandran Sarojini Santhosh
- a School of Chemical and Biotechnology , SASTRA University , Thanjavur 613401 , Tamilnadu , India.,b Genetic Engineering Laboratory, Anusandhan Kendra, SASTRA Hub for Research and Innovation (SHRI) , SASTRA University , Thanjavur 613401 , Tamilnadu , India
| | - Kandasamy Dhevendaran
- a School of Chemical and Biotechnology , SASTRA University , Thanjavur 613401 , Tamilnadu , India
| | - Balakrishnan Priya
- a School of Chemical and Biotechnology , SASTRA University , Thanjavur 613401 , Tamilnadu , India
| | - Shivaani Krishna
- a School of Chemical and Biotechnology , SASTRA University , Thanjavur 613401 , Tamilnadu , India
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17
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Draft Genome Sequence of Lysinibacillus sp. Strain A1, Isolated from Malaysian Tropical Soil. GENOME ANNOUNCEMENTS 2015; 3:3/2/e00095-15. [PMID: 25814592 PMCID: PMC4384132 DOI: 10.1128/genomea.00095-15] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
ABSTRACT
In this work, we describe the genome of Lysinibacillus sp. strain A1, which was isolated from tropical soil. Analysis of its genome sequence shows the presence of a gene encoding for a putative peptidase responsible for nitrogen compounds.
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18
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Zhao F, Feng Y, Chen R, Zhang J, Lin X. Lysinibacillus alkaliphilus sp. nov., an extremely alkaliphilic bacterium, and emended description of genus Lysinibacillus. Int J Syst Evol Microbiol 2015; 65:2426-2431. [PMID: 25908711 DOI: 10.1099/ijs.0.000280] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel aerobic, alkaliphilic, Gram-staining-positive, endospore-forming bacterium, strain OMN17T, was isolated from a typical sandy loam soil under long-term OMN fertilization (half organic manure N plus half mineral N fertilizer) in northern China and was subjected to a polyphasic taxonomic study. The best growth was achieved at 30 °C and pH 8-10 in medium containing 0.5% (w/v) NaCl. The cell-wall peptidoglycan of strain OMN17T was type A4α; (l-Lys-Gly-d-Asp) and the cell-wall sugars were ribose, traces of galactose and arabinose. The only respiratory quinone found in strain OMN17T was menaquinone 7 (MK-7). The major cellular fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The major polar lipids were found to be phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Phylogenetic analysis of strain OMN17T based on the 16S rRNA gene sequence showed that the strain was most closely related to Lysinibacillus halotolerans (97.8%), Lysinibacillus sinduriensis (97.5%), Lysinibacillus chungkukjangi (97.4%) and Lysinibacillus xylanilyticus (97.0%). The DNA-DNA hybridization results indicated that this strain was distinct from other species of the genus Lysinibacillus, the degree of relatedness being 21.8 ± 0.2% with L. halotolerans, 45.6 ± 1.8% with L. sinduriensis, 33.7 ± 1.2% with L. chungkukjangi and 23.7 ± 0.7% with L. xylanilyticus. The DNA G+C content of strain OMN17T was 38.1 mol%. The phenotypic, chemotaxonomic and genetic analyses identified strain OMN17T as a novel species of the genus Lysinibacillus, for which the name Lysinibacillus alkaliphilus sp. nov. is proposed. The type strain is OMN17T ( = DSM 28019T = CCTCC AB 2014073T). An emended description of the genus Lysinibacillus is also provided.
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Affiliation(s)
- Fei Zhao
- State Key Laboratory Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China.,Joint Open Laboratory of Soil and the Environment, Hong Kong Baptist University & Institute of Soil Science, Chinese Academy of Sciences, Nanjing, PR China
| | - Youzhi Feng
- State Key Laboratory Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China.,Joint Open Laboratory of Soil and the Environment, Hong Kong Baptist University & Institute of Soil Science, Chinese Academy of Sciences, Nanjing, PR China
| | - Ruirui Chen
- State Key Laboratory Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China.,Joint Open Laboratory of Soil and the Environment, Hong Kong Baptist University & Institute of Soil Science, Chinese Academy of Sciences, Nanjing, PR China
| | - Jianwei Zhang
- State Key Laboratory Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China.,Joint Open Laboratory of Soil and the Environment, Hong Kong Baptist University & Institute of Soil Science, Chinese Academy of Sciences, Nanjing, PR China
| | - Xiangui Lin
- Joint Open Laboratory of Soil and the Environment, Hong Kong Baptist University & Institute of Soil Science, Chinese Academy of Sciences, Nanjing, PR China.,State Key Laboratory Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China
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19
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Zhu C, Sun G, Chen X, Guo J, Xu M. Lysinibacillus varians sp. nov., an endospore-forming bacterium with a filament-to-rod cell cycle. Int J Syst Evol Microbiol 2014; 64:3644-3649. [DOI: 10.1099/ijs.0.068320-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Six Gram-stain-positive, motile, filamentous and/or rod-shaped, spherical spore-forming bacteria (strains GY32T, L31, F01, F03, F06 and F07) showing polybrominated diphenyl ether transformation were investigated to determine their taxonomic status. After spore germination, these organisms could grow more than one hundred microns long as intact single cells and then divide into rod cells and form endospores in 33 h. The cell-wall peptidoglycan of these strains was type A4α, the predominant menaquinone was MK-7 and the major fatty acids were iso-C16 : 0, iso-C15 : 0 and C16 : 1ω7C. Diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine were detected in the polar lipid profile. Analysis of the 16S rRNA gene sequences indicated that these strains should be placed in the genus
Lysinibacillus
and they were most closely related to
Lysinibacillus sphaericus
DSM 28T (99 % 16S rRNA gene sequence similarity). The gyrB sequence similarity and DNA–DNA relatedness between strain GY32T and
L. sphaericus
JCM 2502T were 81 % and 52 %, respectively. The G+C content of the genomic DNA of strain GY32T was 43.2 mol%. In addition, strain GY32T showed differences in nitrate reduction, starch and gelatin hydrolysis, carbon resource utilization and cell morphology. The phylogenetic distance from its closest relative measured by DNA–DNA relatedness and DNA G+C content, and its phenotypic properties demonstrated that strain GY32T represents a novel species of the genus
Lysinibacillus
, for which the name Lysinibacillus varians sp. nov. is proposed. The type strain is GY32T ( = NBRC 109424T = CGMCC 1.12212T = CCTCC M 2011307T).
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Affiliation(s)
- Chunjie Zhu
- State Key Laboratory of Applied Microbiology, Southern China (The Ministry–Guangdong Province Joint Development), 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- School of Bioscience and Bioengineering, South China University of Technology, Guangzhou Higher Education Mega Centre, Guangzhou 510006, PR China
| | - Guoping Sun
- State Key Laboratory of Applied Microbiology, Southern China (The Ministry–Guangdong Province Joint Development), 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
| | - Xingjuan Chen
- State Key Laboratory of Applied Microbiology, Southern China (The Ministry–Guangdong Province Joint Development), 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
| | - Jun Guo
- State Key Laboratory of Applied Microbiology, Southern China (The Ministry–Guangdong Province Joint Development), 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
| | - Meiying Xu
- State Key Laboratory of Applied Microbiology, Southern China (The Ministry–Guangdong Province Joint Development), 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, 100 Xianlie Road, Yuexiu District, Guangzhou 510070, PR China
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20
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Cheng M, Zhang H, Zhang J, Hu G, Zhang J, He J, Huang X. Lysinibacillus fluoroglycofenilyticus sp. nov., a bacterium isolated from fluoroglycofen contaminated soil. Antonie van Leeuwenhoek 2014; 107:157-64. [PMID: 25348875 DOI: 10.1007/s10482-014-0313-2] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2014] [Accepted: 10/20/2014] [Indexed: 11/25/2022]
Abstract
A novel Gram-positive, fluoroglycofen-degrading bacterium, designated cmg86(T), was isolated from herbicide contaminated soil collected from Tongjing, Jiangsu province, China. Strain cmg86(T) was found to be aerobic, motile, endospore-forming rods. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain cmg86(T) belongs to the genus Lysinibacillus and showed the highest sequence similarity to Lysinibacillus meyeri DSM 25057(T) (97.9 %) and Lysinibacillus odysseyi KCTC 3961(T) (96.6 %). The cell-wall peptidoglycan type was determined to be A4α (L-Lys-D-Asp), which is consistent with the cell-wall characteristics of the genus Lysinibacillus. The predominant respiratory quinones were identified as menaquinone-7 (MK-7, 89.5 %) and meanaquinone-6 (MK-6, 8.9 %), and the major fatty acids were identified as iso-C15:0, anteiso-C15:0 and antesio-C17:0. The major polar lipids were found to be phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The genomic DNA G+C content of strain cmg86(T) was determined to be 37.6 mol%. The results of this study support the conclusion that strain cmg86(T) represents a novel species of the genus Lysinibacillus for which the name and Lysinibacillus fluoroglycofenilyticus sp. nov. is proposed. The type strain is cmg86(T) (=KCTC 33183(T) = CCTCC AB 2013247(T)).
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Affiliation(s)
- Minggen Cheng
- Key Laboratory of Microbiological Engineering of Agricultural Environment, Ministry of Agriculture, Life Sciences College of Nanjing Agricultural University, Nanjing, 210095, People's Republic of China
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21
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Ahmad V, Muhammad Zafar Iqbal A, Haseeb M, Khan MS. Antimicrobial potential of bacteriocin producing Lysinibacillus jx416856 against foodborne bacterial and fungal pathogens, isolated from fruits and vegetable waste. Anaerobe 2014; 27:87-95. [DOI: 10.1016/j.anaerobe.2014.04.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2014] [Revised: 03/25/2014] [Accepted: 04/02/2014] [Indexed: 10/25/2022]
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22
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Kong D, Wang Y, Zhao B, Li Y, Song J, Zhai Y, Zhang C, Wang H, Chen X, Zhao B, Ruan Z. Lysinibacillus halotolerans sp. nov., isolated from saline-alkaline soil. Int J Syst Evol Microbiol 2014; 64:2593-2598. [PMID: 24814335 DOI: 10.1099/ijs.0.061465-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel aerobic, halotolerant bacterium, designated strain LAM612(T), was isolated from saline-alkaline soil samples from Lingxian County, Shandong Province, China. Cells of strain LAM612(T) were Gram-reaction-positive, endospore-forming, motile and rod-shaped. The optimal temperature and pH for growth were 35 °C and pH 6.0, respectively. Strain LAM612(T) could grow in the presence of up to 10% (w/v) NaCl. The genomic DNA G+C conten was 36.4 mol% as detected by the T(m) method. Comparative analysis of 16S rRNA gene sequences revealed that LAM612(T) was closely related to Lysinibacillus sinduriensis KACC 16611(T) (98.0%), L. chungkukjangi KACC 16626(T) (97.5%), L. massiliensis KCTC 13178(T) (97.4%), L. xylanilyticus KACC 15113(T) (97.2%), L. macroides DSM 54(T) (97.0%) and L. manganicus DSM 26584(T) (96.5%). The DNA-DNA hybridization values between strain LAM612(T) and its closest relatives ranged from 20.6% to 41.9%. The major fatty acids of strain LAM612(T) were iso-C(15 : 0) (40.8%), iso-C(16 : 0) (15.2%) and anteiso-C(15 : 0) (10.8%). The cell-wall peptidoglycan content was A4α (L-Lys-D-Asp). The predominant menaquinone was MK-7 and the main polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, three unknown phospholipids, five unknown glycolipids and an unknown lipid. Based on the DNA-DNA hybridization results and phenotypic, phylogenetic and chemotaxonomic properties, strain LAM612(T) could be distinguished from the recognized species of the genus Lysinibacillus, and was suggested to represent a novel species of this genus, for which the name Lysinibacillus halotolerans sp. nov. is proposed. The type strain is LAM612(T) ( = ACCC 00718(T) = JCM 19611(T)).
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Affiliation(s)
- Delong Kong
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Yanwei Wang
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Bingqiang Zhao
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Yanting Li
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Jinlong Song
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yi Zhai
- Agricultural Engineering Institute, Chongqing Academy of Agricultural Sciences, Chongqing 401329, PR China
| | - Chi Zhang
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Huimin Wang
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Xiaorong Chen
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Bin Zhao
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Zhiyong Ruan
- Key Laboratory of Microbial Resources (Ministry of Agriculture, China), Institute of Agricultural Resources and Regional Planning, CAAS, Beijing 100081, PR China
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23
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Kim JY, Park SH, Oh DC, Kim YJ. Lysinibacillus jejuensis sp. nov., isolated from swinery waste. J Microbiol 2013; 51:872-6. [DOI: 10.1007/s12275-013-2500-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2012] [Accepted: 05/22/2013] [Indexed: 10/25/2022]
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24
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Hayat R, Ahmed I, Paek J, Sin Y, Ehsan M, Iqbal M, Yokota A, Chang YH. Lysinibacillus composti sp. nov., isolated from compost. ANN MICROBIOL 2013. [DOI: 10.1007/s13213-013-0747-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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25
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Liu H, Song Y, Chen F, Zheng S, Wang G. Lysinibacillus
manganicus sp. nov., isolated from manganese mining soil. Int J Syst Evol Microbiol 2013; 63:3568-3573. [DOI: 10.1099/ijs.0.050492-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-positive, aerobic, motile, rod-shaped bacterium, designated strain Mn1-7T, was isolated from manganese mining soil in Tianjin, China. The closest phylogenetic relatives were
Lysinibacillus massiliensis
CCUG 49529T (97.2 % 16S rRNA gene sequence similarity),
L. xylanilyticus
XDB9T (96.7 %),
L. sinduriensis
JCM 15800T (96.2 %),
L. odysseyi
NBRC 100172T (95.9 %) and
L. boronitolerans
NBRC 103108T (95.4 %) (the type species of the genus). DNA–DNA hybridization values for strain Mn1-7T with the type strains of
L. massiliensis
and
L. sinduriensis
were 24.9 and 27.7 %, respectively. The genomic DNA G+C content was 38.4 mol%. The major menaquinone was MK-7 and the major fatty acids were iso-C15 : 0, iso-C16 : 0 and iso-C14 : 0. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The cell-wall peptidoglycan was type A4α (l-Lys–d-Asp), and the predominant cell-wall sugar was xylose. DNA–DNA hybridization results and comparison of phenotypic and chemotaxonomic characters between strain Mn1-7T and the phylogenetically most closely related strains revealed that the isolate represents a novel species of the genus
Lysinibacillus
, for which the name
Lysinibacillus
manganicus sp. nov. is proposed. The type strain is Mn1-7T ( = DSM 26584T = CCTCC AB 2012916T).
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Affiliation(s)
- Hongliang Liu
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Yumei Song
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Fang Chen
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Shixue Zheng
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Gejiao Wang
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
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Kämpfer P, Martin K, Glaeser SP. Lysinibacillus
contaminans sp. nov., isolated from surface water. Int J Syst Evol Microbiol 2013; 63:3148-3153. [DOI: 10.1099/ijs.0.049593-0] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-positive-staining, aerobic, endospore-forming bacterium, isolated as a contamination from an enrichment of enteric bacteria from surface water, was studied using a polyphasic taxonomic approach. 16S rRNA gene sequence similarity comparisons revealed that strain FSt3AT was grouped in the genus
Lysinibacillus
, most closely related to
Lysinibacillus xylanilyticus
XDB9T (98.1 %),
Lysinibacillus parviboronicapiens
BAM-582T and
Lysinibacillus sphaericus
DSM 28T (both 98.0 %). The 16S rRNA gene sequence similarity to other species of the genus
Lysinibacillus
was <97.5 %. The allocation to the genus
Lysinibacillus
was supported by a detailed chemotaxonomic characterization revealing a cell wall containing alanine, glutamic acid, aspartic acid and the diagnostic diamino acid lysine in a molar ratio of 1.6 : 1 : 0.9 : 0.8 (peptidoglycan type A4α), the major menaquinones MK-7 and MK-6, and polar lipids consisting of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, four unknown phospholipids, one unknown aminophospholipid and one unidentified aminolipid. The major fatty acids were iso- and anteiso-branched fatty acids. DNA–DNA hybridizations with the type strains of the most closely related species,
L. parviboronicapiens
DSM 25242T,
L. xylanilyticus
DSM 23493T and
L. sphaericus
DSM 28T, in addition to the results of physiological and biochemical tests, allowed genotypic and phenotypic differentiation of strain FSt3AT from these related species. Thus, FSt3AT represents a novel species of the genus
Lysinibacillus
, for which the name
Lysinibacillus
contaminans sp. nov. is proposed, with FSt3AT ( = CCM 8383T = DSM 25560T = CIP 110362T) as the type strain.
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Affiliation(s)
- Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
| | - Karin Martin
- Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V., Hans-Knöll-Institut, Jena, Germany
| | - Stefanie P. Glaeser
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
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27
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Edward Raja C, Omine K. Characterization of boron tolerant bacteria isolated from a fly ash dumping site for bacterial boron remediation. ENVIRONMENTAL GEOCHEMISTRY AND HEALTH 2013; 35:431-438. [PMID: 23212536 DOI: 10.1007/s10653-012-9505-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2012] [Accepted: 11/23/2012] [Indexed: 06/01/2023]
Abstract
Boron is an essential micronutrient for plants, but can above certain concentrations be toxic to living organisms. A major environmental concern is the removal of boron from contaminated water and fly ash. For this purpose, the samples were collected from a fly ash dumping site, Nagasaki prefecture, Japan. The chemical characteristics and heavy metal concentration of the samples were performed by X-ray fluorescent analysis and leaching test. For bacterial analysis, samples were collected in sterile plastic sheets and isolation was carried out by serial dilution method. The boron tolerant isolates that showed values of maximum inhibitory concentration toward boron ranging from 100 to 260 mM level were screened. Based on 16S rRNA sequencing and phylogenetic analysis, the isolates were most closely related to the genera Bacillus, Lysinibacillus, Microbacterium and Ralstonia. The boron tolerance of these strains was also associated with resistant to several heavy metals, such as As (III), Cr (VI), Cd, Cu, Pb, Ni, Se (III) and Zn. Indeed, these strains were arsenic oxidizing bacteria confirmed by silver nitrate test. These strains exhibited their salt resistances ranging from 4 to 15 % were determined in Trypticase soy agar medium. The boron tolerant strains were capable of removing 0.1-2.0 and 2.7-3.7 mg l(-1) boron from the medium and fly ash at 168 h. Thus, we have successfully identified the boron tolerant and removal bacteria from a fly ash dumping site for boron remediation.
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Affiliation(s)
- Chellaiah Edward Raja
- Department of Civil Engineering, School of Engineering, Kyushu University, 744 Motooka, Nishi-Ku, Fukuoka 819-0395, Japan.
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28
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Duan YQ, He ST, Li QQ, Wang MF, Wang WY, Zhe W, Cao YH, Mo MH, Zhai YL, Li WJ. Lysinibacillus tabacifolii sp. nov., a novel endophytic bacterium isolated from Nicotiana tabacum leaves. J Microbiol 2013; 51:289-94. [PMID: 23812807 DOI: 10.1007/s12275-013-2338-z] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2012] [Accepted: 02/07/2013] [Indexed: 11/25/2022]
Abstract
A Gram-positive, catalase- and oxidase-positive, strictly aerobic, endospore-forming rod bacterium, designated K3514(T), was isolated from the leaves of Nicotiana tabacum. The strain was able to grow at temperatures of 8-40°C, pH 5.0-10.0 and NaCl concentrations of 0-7%. The predominant quinones (>30%) of this strain were MK-7(H2) and MK-7. Phylogenetic analysis of 16S rRNA gene sequence showed that strain K3514(T) was affiliated to the genus Lysinibacillus, with its closest relatives being Lysinibacillus mangiferihumi (98.3% sequence similarity), Lysinibacillus sphaericus (97.9% sequence similarity), Lysinibacillus fusiformis (97.4% sequence similarity), and Lysinibacillus xylanilyticus (97.3% sequence similarity). However, low levels of DNA-DNA relatedness values suggested that the isolate was distinct from the other closest Lysinibacillus species. Additionally, based on analysis of morphological, physiological, and biochemical characteristics, the isolate could be differentiated from the closest known relatives. Therefore, based on polyphasic taxonomic data, the novel isolate likely represents a novel species, for which the name Lysinibacillus tabacifolii sp. nov. and the type strain K3514(T) (=KCTC 33042(T) =CCTCC AB 2012050(T)) are proposed.
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Affiliation(s)
- Yan-Qing Duan
- Technology Center of Hongyun Honghe Tobacco Group Co, Ltd, Kunming 650202, PR China
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29
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Kim SJ, Jang YH, Hamada M, Ahn JH, Weon HY, Suzuki KI, Whang KS, Kwon SW. Lysinibacillus chungkukjangi sp. nov., isolated from Chungkukjang, Korean fermented soybean food. J Microbiol 2013; 51:400-4. [PMID: 23812821 DOI: 10.1007/s12275-013-2664-1] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2012] [Accepted: 03/06/2013] [Indexed: 11/28/2022]
Abstract
One bacterial strain 2RL3-2(T) was isolated from Chungkukjang, a traditional Korean fermented food made from soybeans, and determined to be a Gram-positive, aerobic, spore-forming rod. Growth of the novel strain was optimal at 30°C and pH 7.0. The 16S rRNA gene of strain 2RL3-2(T) showed the highest level of sequence similarity to Lysinibacillus sinduriensis BLB-1(T) (99.0%), Lysinibacillus massiliensis 4400831(T) (97.1%), Lysinibacillus xylanilyticus XDB9(T) (97.0%), and Lysinibacillus odysseyi 34hs-1(T) (96.8%). Phylogenetic analysis showed that strain 2RL3-2(T) formed a robust cluster with L. sinduriensis BLB-1(T), L. massiliensis 4400831(T), and L. odyssey 34hs-1(T). The major fatty acids were anteiso-C15:0 (47.3%), iso-C16:0 (16.3%), and anteiso-C17:0 (11.3%), and the only menaquinone was MK-7. Diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine were the major polar lipids, along with an unknown phospholipid and two unknown lipids. The peptidoglycan type was A4α, with an interpeptide bridge of l-Lys-d-Asp. DNA-DNA hybridization values between strain 2RL3-2(T) and closely related Lysinibacillus species were below 43±4%. Therefore, based on phenotypic, chemotaxonomic, and phylogenetic characteristics, it was determined that strain 2RL3-2(T) represents a novel species of the genus Lysinibacillus, for which the name Lysinibacillus chungkukjangi sp. nov. is proposed. The type strain is 2RL3-2(T) (=KACC 16626(T) =NBRC 108948(T)).
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Affiliation(s)
- Soo-Jin Kim
- Agricultural Microbiology Division, National Academy of Agricultural Science, Rural Development Administration, Suwon 441-707, Republic of Korea
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30
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Moraga NB, Poma HR, Amoroso MJ, Rajal VB. Isolation and characterization of indigenousStreptomycesandLentzeastrains from soils containing boron compounds in Argentina. J Basic Microbiol 2013; 54:568-77. [DOI: 10.1002/jobm.201200714] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2012] [Accepted: 01/19/2013] [Indexed: 11/08/2022]
Affiliation(s)
- Norma Beatriz Moraga
- Instituto de Investigaciones para la Industria Química (INIQUI); CONICET-UNSa; Salta Argentina
- Facultad de Ingeniería; Universidad Nacional de Salta; Salta Argentina
| | - Hugo Ramiro Poma
- Instituto de Investigaciones para la Industria Química (INIQUI); CONICET-UNSa; Salta Argentina
| | - María Julia Amoroso
- Planta de Procesos Industriales y Microbiológicos (PROIMI); CONICET; Tucumán Argentina
- Facultad de Bioquímica; Química y Farmacia, Universidad Nacional de Tucumán; Tucumán Argentina
| | - Verónica Beatriz Rajal
- Instituto de Investigaciones para la Industria Química (INIQUI); CONICET-UNSa; Salta Argentina
- Facultad de Ingeniería; Universidad Nacional de Salta; Salta Argentina
- Fogarty International Center; University of California in Davis; Davis CA USA
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31
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Seiler H, Scherer S, Wenning M. Lysinibacillus meyeri sp. nov., isolated from a medical practice. Int J Syst Evol Microbiol 2013; 63:1512-1518. [DOI: 10.1099/ijs.0.039420-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-positive, oxidase- and catalase-positive, strictly aerobic and motile bacterium, designated WS 4626T, was isolated from a medical practice. Spherical endospores were formed terminally in swollen rods. The genomic DNA G+C content was 37.1 mol%. Cells contained iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 1ω10c, anteiso-C17 : 0 and iso-C17 : 0 as the predominant cellular fatty acids and MK-7 and MK-6 as the major isoprenoid quinones. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol, the cell-wall peptidoglycan was type A4α, l-Lys-d-Asp and the major cell-wall sugar was xylose. The closest phylogenetic relatives were
Lysinibacillus xylanilyticus
XDB9T (96.7 % 16S rRNA gene sequence similarity) and
Lysinibacillus odysseyi
34hs-1T (96.5 %). DNA–DNA relatedness between the isolate and
L. odysseyi
DSM 18869T was very low (6 %). On the basis of the data presented, strain WS 4626T represents a novel species of the genus
Lysinibacillus
, for which the name Lysinibacillus meyeri sp. nov. is proposed. The type strain is WS 4626T ( = DSM 25057T = LMG 26643T).
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Affiliation(s)
- Herbert Seiler
- Department of Microbiology (ZIEL), Technische Universität München, Weihenstephaner Berg 3, D-85350 Freising, Germany
| | - Siegfried Scherer
- Lehrstuhl für Mikrobielle Ökologie, Technische Universität München, Weihenstephaner Berg 3, D-85350 Freising, Germany
- Department of Microbiology (ZIEL), Technische Universität München, Weihenstephaner Berg 3, D-85350 Freising, Germany
| | - Mareike Wenning
- Department of Microbiology (ZIEL), Technische Universität München, Weihenstephaner Berg 3, D-85350 Freising, Germany
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32
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Lozano LC, Dussán J. Metal tolerance and larvicidal activity of Lysinibacillus sphaericus. World J Microbiol Biotechnol 2013; 29:1383-9. [DOI: 10.1007/s11274-013-1301-9] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2012] [Accepted: 02/20/2013] [Indexed: 10/27/2022]
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33
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Nam YD, Seo MJ, Lim SI, Lee SY. Genome sequence of Lysinibacillus boronitolerans F1182, isolated from a traditional Korean fermented soybean product. J Bacteriol 2012; 194:5988. [PMID: 23045499 PMCID: PMC3486081 DOI: 10.1128/jb.01485-12] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2012] [Accepted: 08/17/2012] [Indexed: 11/20/2022] Open
Abstract
Lysinibacillus is a Gram-positive, rod-shaped, and round-spore-forming bacterial genus of the family Bacillaceae. We analyzed the genome sequence of Lysinibacillus boronitolerans F1182, isolated from a traditional Korean fermented soybean product. The genome sequence contained 4.46 Mbp with a G+C content of 37.5%. This is the first report of an L. boronitolerans genome.
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Affiliation(s)
- Young-Do Nam
- Fermentation and Functionality Research Group, Korea Food Research Institute, Sungnam, Republic of Korea
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34
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Wang K, Yan PS, Ding QL, Wu QX, Wang ZB, Peng J. Diversity of culturable root-associated/endophytic bacteria and their chitinolytic and aflatoxin inhibition activity of peanut plant in China. World J Microbiol Biotechnol 2012; 29:1-10. [PMID: 23108663 DOI: 10.1007/s11274-012-1135-x] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2012] [Accepted: 07/14/2012] [Indexed: 10/27/2022]
Abstract
A total of 72 isolates of root-associated/endophytic (RAE) bacteria were isolated from peanut plants grown in the main producing areas of 6 provinces in China. The 16S rRNA gene sequences of these isolates were determined and phylogenetic analyses revealed that 72 isolates belonged to the classes Bacilli (49 isolates) and Gammaproteobacteria (23 isolates). The majority of RAE bacteria in Bacilli belonged to 2 genera, Bacillus and Lysinibacillus (48 and 1) while those in Gammaproteobacteria belonged to the genera Enterobacter, Serratia, Stenotrophomonas, and Pseudomonas (7, 11, 3 and 2 isolates, respectively). This is the first report of Lysinibacillus xylanilyticus isolate as biocontrol agent against AFs. All of the selected RAE bacteria showed inhibitory activities against Aspergillus parasiticus (A. parasiticus) growth and/or aflatoxins (AFs) production by visual agar plate assay and tip culture method. Most of the RAE bacteria strains (96 % strains) were determined to have decreased mycelia growth or AFs production levels by >50 % (p < 0.05). Bacterial isolates were further characterized for chitinolytic activity and 22 strains (30 % strains) of identified RAE bacteria degraded colloidal chitin on the chitin medium plate. Ten selected chitinolytic RAE bacteria were tested for antifungal activity on peanuts and most of them significantly decreased mycelial growth and AFs production levels by >90 %. These results showed a wide distribution of biological control bacteria against AFs in Chinese peanut main producing areas and the selected RAE bacteria could potentially be utilized for the biocontrol of toxicogenic fungi.
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Affiliation(s)
- Kai Wang
- School of Municipal & Environmental Engineering, Harbin Institute of Technology, 150090 Harbin, China.
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35
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Jung MY, Kim JS, Paek WK, Styrak I, Park IS, Sin Y, Paek J, Park KA, Kim H, Kim HL, Chang YH. Description of
Lysinibacillus sinduriensis
sp. nov., and transfer of
Bacillus massiliensis
and
Bacillus odysseyi
to the genus
Lysinibacillus
as
Lysinibacillus massiliensis
comb. nov. and
Lysinibacillus odysseyi
comb. nov. with emended description of the genus
Lysinibacillus. Int J Syst Evol Microbiol 2012; 62:2347-2355. [DOI: 10.1099/ijs.0.033837-0] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-positive, rod-shaped, endospore-forming bacterium, designated strain BLB-1T, was isolated from samples of tidal flat sediment from the Yellow Sea. 16S rRNA gene sequence analysis demonstrated that the isolate belonged to the
Bacillus
rRNA group 2 and was closely related to
Bacillus massiliensis
CIP 108446T (97.4 %),
Bacillus odysseyi
ATCC PTA-4993T (96.7 %),
Lysinibacillus fusiformis
DSM 2898T (96.2 %) and
Lysinibacillus boronitolerans
DSM 17140T (95.9 %). Sequence similarities with related species in other genera, including
Caryophanon
,
Sporosarcina
and
Solibacillus
, were <96.1 %. Chemotaxonomic data supported the affiliation of strain BLB-1T with the genus
Lysinibacillus
. The major menaquinone was MK-7, the cell-wall sugars were glucose and xylose, the cell-wall peptidoglycan type was A4α (l-Lys–d-Asp), the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown phospholipids, and the major fatty acids were anteiso-C15 : 0 (35.6 %), iso-C15 : 0 (25.6 %) and anteiso-C17 : 0 (16.5 %). The most closely related species,
Bacillus massiliensis
and
Bacillus odysseyi
, were also assigned to this genus based on phylogenetic analysis and phenotypic data. The results of DNA–DNA hybridizations and phenotypic tests supported the differentiation of all three taxa from species of the genus
Lysinibacillus
with validly published names. Thus, strain BLB-1T ( = KCTC 13296T = JCM 15800T) represents a novel species, for which the name
Lysinibacillus sinduriensis
sp. nov. is proposed. It is also proposed that
Bacillus massiliensis
CIP 108446T ( = 4400831T = CCUG49529T = KCTC 13178T) and
Bacillus odysseyi
NBRC 100172T ( = 34hs-1T = ATCC PTA-4993T = NRRL B-30641T = DSM 18869T = CIP 108263T = KCTC 3961T) be transferred to the genus
Lysinibacillus
as
Lysinibacillus massiliensis
comb. nov. and
Lysinibacillus odysseyi
comb. nov., respectively.
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Affiliation(s)
- Min Young Jung
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
| | - Joong-Su Kim
- Jeonbuk Branch Institute, Molecular Bioprocess Research Center, KRIBB, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do 580-185, Republic of Korea
| | - Woon Kee Paek
- National Science Museum, 32-2 Guseong-dong, Yuseong-gu, Daejeon 305-705, Republic of Korea
| | - Igor Styrak
- Department of Biotechnology, Institute of Geotechnics, Watsonova 45, 043 53 Kosice, Slovakia
- Department of Microbiology, Institute of Animal Physiology, Soltesovej 4-6, 04001 Kosice, Slovakia
| | - In-Soon Park
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
| | - Yeseul Sin
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
| | - Jayoung Paek
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
| | - Keun Ae Park
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
| | - Hongik Kim
- R&D Division, Vitabio Inc., Yongjeon-dong 21-3, Daejeon 300-824, Republic of Korea
| | - Hong Lim Kim
- Namhae Sub-Station, National Horticultural Research Institute, RDA, Namhae, 668-812, Republic of Korea
| | - Young-Hyo Chang
- Korean Collection for Type Cultures, Biological Resource Center, KRIBB, 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea
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36
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Verce MF, Stiles AR, Chong KC, Terry N. Isolation of an extremely boron-tolerant strain of Bacillus firmus. Can J Microbiol 2012; 58:811-4. [DOI: 10.1139/w2012-049] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A strain of Bacillus firmus (designated strain KC) isolated from a boron (B) mine in California exhibited extreme tolerance to B, provided it was first acclimated at intermediate B supply concentrations. Strain KC tolerated up to 1000 mmol/L B (boric acid-B) and 1800 mmol/L B (sodium tetraborate-B), and attained the greatest growth (as measured by absorbance) at 300 mmol/L B. Despite its extreme tolerance to high B, there was no evidence that it was able to remove significant quantities of B from the growth media, suggesting that strain KC is not likely to be useful for the removal of B from wastewaters in an engineered bioreactor.
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Affiliation(s)
- Matthew F. Verce
- Department of Plant and Microbial Biology, University of California, Berkeley, 111 Koshland Hall, Berkeley, CA 94720-3102, USA
| | - Amanda R. Stiles
- Department of Plant and Microbial Biology, University of California, Berkeley, 111 Koshland Hall, Berkeley, CA 94720-3102, USA
| | - Karen C. Chong
- Department of Plant and Microbial Biology, University of California, Berkeley, 111 Koshland Hall, Berkeley, CA 94720-3102, USA
| | - Norman Terry
- Department of Plant and Microbial Biology, University of California, Berkeley, 111 Koshland Hall, Berkeley, CA 94720-3102, USA
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37
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Comparison of bacterial diversity in proglacial soil from Kafni Glacier, Himalayan Mountain ranges, India, with the bacterial diversity of other glaciers in the world. Extremophiles 2011; 15:673-90. [PMID: 21918795 DOI: 10.1007/s00792-011-0398-8] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2011] [Accepted: 08/26/2011] [Indexed: 10/17/2022]
Abstract
Two 16S rRNA gene clone libraries (KF and KS) were constructed using two soil samples (K7s and K8s) collected near Kafni Glacier, Himalayas. The two libraries yielded a total of 648 clones. Phyla Actinobacteria, Bacteroidetes, Chloroflexi Firmicutes, Proteobacteria, Spirochaetae, Tenericutes and Verrucomicrobia were common to the two libraries. Phyla Acidobacteria, Chlamydiae and Nitrospirae were present only in KF library, whereas Lentisphaerae and TM7 were detected only in KS. In the two libraries, clones belonging to phyla Bacteroidetes and Proteobacteria were the most predominant. Principal component analysis (PCA) revealed that KF and KS were different and arsenic content influenced the differences in the percentage of OTUs. PCA indicated that high water content in the K8s sample results in high total bacterial count. PCA also indicated that bacterial diversity of KF and KS was similar to soils from the Pindari Glacier, Himalayas; Samoylov Island, Siberia; Schrimacher Oasis, Antarctica and Siberian tundra. The eleven bacterial strains isolated from the above two soil samples were phylogenetically related to six different genera. All the isolates were psychro-, halo- and alkalitolerant. Amylase, lipase and urease activities were detected in the majority of the strains. Long chain, saturated, unsaturated and branched fatty acids were predominant in the psychrotolerant bacteria.
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38
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Coorevits A, Dinsdale AE, Heyrman J, Schumann P, Van Landschoot A, Logan NA, De Vos P. Lysinibacillus macroides sp. nov., nom. rev. Int J Syst Evol Microbiol 2011; 62:1121-1127. [PMID: 21724959 DOI: 10.1099/ijs.0.027995-0] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
'Bacillus macroides' ATCC 12905(T) ( = DSM 54(T) = LMG 18474(T)), isolated in 1947 from cow dung, was not included in the Approved Lists of Bacterial Names and so it lost standing in bacteriological nomenclature. Reinvestigation of the strain, including DNA-DNA relatedness experiments, revealed that 'Bacillus macroides' is genomically distinct from its closest relatives Lysinibacillus xylanilyticus, Lysinibacillus boronitolerans and Lysinibacillus fusiformis (as determined by 16S rRNA gene sequence analysis, with pairwise similarity values of 99.2, 98.8 and 98.5 %, respectively, with the type strains of these species). Further analysis showed that 'Bacillus macroides' shares the A4α L-Lys-D-Asp peptidoglycan type with other members of the genus Lysinibacillus and can thus be attributed to this genus. These results, combined with additional phenotypic data, justify the description of strain LMG 18474(T) ( = DSM 54(T) = ATCC 12905(T)) as Lysinibacillus macroides sp. nov., nom. rev.
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Affiliation(s)
- An Coorevits
- Laboratory of Microbiology (LM-UGent), Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium.,Laboratory of Biochemistry and Brewing, Faculty of Applied Engineering Sciences, University College Ghent, Valentin Vaerwyckweg 1, 9000 Ghent, Belgium
| | - Anna E Dinsdale
- Department of Biological and Biomedical Sciences, Glasgow Caledonian University, Cowcaddens Road, Glasgow G4 0BA, UK
| | - Jeroen Heyrman
- Laboratory of Microbiology (LM-UGent), Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium
| | - Peter Schumann
- DSMZ - German Collection of Microorganisms and Cell Cultures, Inhoffenstr. 7B, D-38124 Braunschweig, Germany
| | - Anita Van Landschoot
- Laboratory of Microbiology (LM-UGent), Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium.,Laboratory of Biochemistry and Brewing, Faculty of Applied Engineering Sciences, University College Ghent, Valentin Vaerwyckweg 1, 9000 Ghent, Belgium
| | - Niall A Logan
- Department of Biological and Biomedical Sciences, Glasgow Caledonian University, Cowcaddens Road, Glasgow G4 0BA, UK
| | - Paul De Vos
- Laboratory of Microbiology (LM-UGent), Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium
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In vivo evolutionary engineering of a boron-resistant bacterium: Bacillus boroniphilus. Antonie van Leeuwenhoek 2011; 99:825-35. [DOI: 10.1007/s10482-011-9557-2] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2010] [Accepted: 01/19/2011] [Indexed: 10/18/2022]
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Lee CS, Jung YT, Park S, Oh TK, Yoon JH. Lysinibacillus xylanilyticus sp. nov., a xylan-degrading bacterium isolated from forest humus. Int J Syst Evol Microbiol 2010; 60:281-286. [DOI: 10.1099/ijs.0.013367-0] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel xylan-degrading bacterium, designated XDB9T, was isolated from forest humus collected from Gyeryong Mountain in Korea. Cells were Gram-positive, aerobic, motile and endospore-forming rods. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain XDB9T was most closely related to members of the genus Lysinibacillus. 16S rRNA gene sequence similarities between strain XDB9T and the type strains of species of the genus Lysinibacillus ranged from 98.0 to 98.5 %. The cell-wall peptidoglycan type of strain XDB9T was A4α, which is based on l-Lys–d-Asp. Strain XDB9T contained iso-C15 : 0 and C16 : 1
ω7c alcohol as the major fatty acids and MK-7 as the predominant menaquinone. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 37.2 mol%. The DNA–DNA hybridization results and differential phenotypic properties showed that strain XDB9T could be distinguished from recognized species of the genus Lysinibacillus. It was concluded that strain XDB9T represents a new taxon for which the name Lysinibacillus xylanilyticus sp. nov. is proposed. The type strain is XDB9T (=KCTC 13423T=CCUG 57438T).
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Affiliation(s)
- Chang Soo Lee
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yusong, Taejon, Republic of Korea
| | - Yong-Taek Jung
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yusong, Taejon, Republic of Korea
| | - Sooyeon Park
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yusong, Taejon, Republic of Korea
| | - Tae-Kwang Oh
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yusong, Taejon, Republic of Korea
| | - Jung-Hoon Yoon
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), PO Box 115, Yusong, Taejon, Republic of Korea
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Abstract
Boron (B) is toxic to living cells at levels above a certain threshold. We isolated several B-tolerant bacterial strains from soil samples and studied them for possible mechanisms of B tolerance. 16S rRNA gene sequencing and comparative phylogenetic analysis demonstrated that the isolates belong to the following 6 genera: Arthrobacter, Rhodococcus, Lysinibacillus, Algoriphagus, Gracilibacillus, and Bacillus. These isolates exhibited B-tolerance levels of 80, 100, 150, 300, 450, and 450 mmol/L, respectively, whilst maintaining a significantly lower intracellular B concentration than in the medium. Statistical analysis showed a negative correlation between the protoplasmic B concentration and the degree of tolerance to a high external B concentration. The kinetic assays suggest that the high B efflux and (or) exclusion are the tolerance mechanisms against a high external B concentration in the isolated bacteria.
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Affiliation(s)
- Iftikhar Ahmed
- Plant Biotechnology Program, Institute of Agricultural Biotechnology and Genetic Resources, National Agricultural Research Centre, Park Road, Islamabad 45500, Pakistan.
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