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Lee H, Chaudhary DK, Kim DU. Paenibacillus gyeongsangnamensis sp. nov., Isolated from Soil. J Microbiol Biotechnol 2024; 34:1636-1641. [PMID: 39086223 PMCID: PMC11380503 DOI: 10.4014/jmb.2404.04038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2024] [Revised: 05/16/2024] [Accepted: 05/31/2024] [Indexed: 08/02/2024]
Abstract
A Gram-stain-positive, aerobic, white-coloured, rod-shaped bacteria, designated as a strain dW9T, was isolated from soil. Strain dW9T was catalase-positive and oxidase-negative. Strain dW9T grew at temperature of 20-37°C and at pH of 5.0-7.0. Phylogenetic and 16S rRNA gene analysis indicated that strain dW9T belonged to the genus Paenibacillus with its closest relative being Paenibacillus filicis S4T (97.4% sequence similarity). The genome size of dW9T was 7,787,916 bp with DNA G+C content of 51.3%. The digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) values of dW9T with its closest relatives were found to be <22.0% and <74.0%, respectively. The only respiratory quinone was MK-7, and the major fatty acids were antiso-C15:0 and iso-C16:0. Overall, the comprehensive taxonomic analysis revealed that strain dW9T met all the fundamental criteria to be classified as a novel species within the genus Paenibacillus. Accordingly, we propose the name Paenibacillus gyeongsangnamensis sp. nov., with the type strain dW9T (=KCTC 43431T =NBRC 116022T).
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Affiliation(s)
- Hyosun Lee
- Department of Biological Science, College of Science and Engineering, Sangji University, Wonju 26339, Republic of Korea
| | | | - Dong-Uk Kim
- Department of Biological Science, College of Science and Engineering, Sangji University, Wonju 26339, Republic of Korea
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2
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Liu X, Laipan M, Zhang C, Zhang M, Wang Z, Yuan M, Guo J. Microbial weathering of montmorillonite and its implication for Cd(II) immobilization. CHEMOSPHERE 2024; 349:140850. [PMID: 38043615 DOI: 10.1016/j.chemosphere.2023.140850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Revised: 11/27/2023] [Accepted: 11/28/2023] [Indexed: 12/05/2023]
Abstract
Interactions between silicate bacteria and silicates are very common in nature and hold great potential in altering their mutual physicochemical properties. But their interactions in regulating contaminants remediation involving performance and mechanisms are often overlooked. Here, we focused on the interactions between silicate bacteria (Paenibacillus polymyxa, PP; Bacillus circulans, BC) and a soil silicate montmorillonite (Mt), and their impact on Cd(II) immobilization. The obtained results showed that Mt greatly promoted the growth of the bacteria, resulting in a maximum 10.31 times increase in biomass production. In return, the bacteria strongly enhanced the Cd(II) adsorption on Mt, with adsorption capacities increased by 80.61%-104.45% in comparison to the raw Mt. Additionally, the bacteria-Mt interaction changed Cd(II) to a more stabilized state with a maximum reduction of 38.90%/g Mt in bioavailability. The enhancement of Cd(II) adsorption and immobilization on the bacterial modified Mt was caused by the following aspects: (1) the bacteria activities altered the aggregation state of Mt and made it better dispersed, thus more active sites were exposed; (2) the microbial activities brought about more rough and crumpled surface, as well as smaller Mt fragments; (3) a variety of microbial-derived functional groups were introduced onto the Mt surface, increasing its affinity for heavy metals; (4) the main Cd(II) immobilization mechanism was changed from ion exchange to the combination of ion exchange and functional groups induced adsorption. This work elucidates the potential ecological and evolutionary processes of silicate bacteria-soil clay mineral interactions, and bears direct implications for the clay-mediated bioremediation of heavy metals in natural environments.
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Affiliation(s)
- Xun Liu
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Minwang Laipan
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China.
| | - Chao Zhang
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Min Zhang
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Ziyu Wang
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Mengyao Yuan
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Junkang Guo
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China.
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3
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Genomic Insights and Functional Analysis Reveal Plant Growth Promotion Traits of Paenibacillus mucilaginosus G78. Genes (Basel) 2023; 14:genes14020392. [PMID: 36833318 PMCID: PMC9956331 DOI: 10.3390/genes14020392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 01/21/2023] [Accepted: 01/26/2023] [Indexed: 02/05/2023] Open
Abstract
Paenibacillus mucilaginosus has widely been reported as a plant growth-promoting rhizobacteria (PGPR). However, the important genomic insights into plant growth promotion in this species remain undescribed. In this study, the genome of P. mucilaginosus G78 was sequenced using Illumina NovaSeq PE150. It contains 8,576,872 bp with a GC content of 58.5%, and was taxonomically characterized. Additionally, a total of 7337 genes with 143 tRNAs, 41 rRNAs, and 5 ncRNAs were identified. This strain can prohibit the growth of the plant pathogen, but also has the capability to form biofilm, solubilize phosphate, and produce IAA. Twenty-six gene clusters encoding secondary metabolites were identified, and the genotypic characterization indirectly proved its resistant ability to ampicillin, bacitracin, polymyxin and chloramphenicol. The putative exopolysaccharide biosynthesis and biofilm formation gene clusters were explored. According to the genetic features, the potential monosaccharides of its exopolysaccharides for P. mucilaginosus G78 may include glucose, mannose, galactose, fucose, that can probably be acetylated and pyruvated. Conservation of the pelADEFG compared with other 40 Paenibacillus species suggests that Pel may be specific biofilm matrix component in P. mucilaginosus. Several genes relevant to plant growth-promoting traits, i.e., IAA production and phosphate solubilization are well conserved compared with other 40 other Paenibacillus strains. The current study can benefit for understanding the plant growth-promoting traits of P. mucilaginosus as well as its potential application in agriculture as PGPR.
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Wang Z, Koirala B, Hernandez Y, Zimmerman M, Brady SF. Bioinformatic prospecting and synthesis of a bifunctional lipopeptide antibiotic that evades resistance. Science 2022; 376:991-996. [PMID: 35617397 PMCID: PMC10904332 DOI: 10.1126/science.abn4213] [Citation(s) in RCA: 42] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Emerging resistance to currently used antibiotics is a global public health crisis. Because most of the biosynthetic capacity within the bacterial kingdom has remained silent in previous antibiotic discovery efforts, uncharacterized biosynthetic gene clusters found in bacterial genome-sequencing studies remain an appealing source of antibiotics with distinctive modes of action. Here, we report the discovery of a naturally inspired lipopeptide antibiotic called cilagicin, which we chemically synthesized on the basis of a detailed bioinformatic analysis of the cil biosynthetic gene cluster. Cilagicin's ability to sequester two distinct, indispensable undecaprenyl phosphates used in cell wall biosynthesis, together with the absence of detectable resistance in laboratory tests and among multidrug-resistant clinical isolates, makes it an appealing candidate for combating antibiotic-resistant pathogens.
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Affiliation(s)
- Zongqiang Wang
- Laboratory of Genetically Encoded Small Molecules, The Rockefeller University, New York, NY 10065, USA
| | - Bimal Koirala
- Laboratory of Genetically Encoded Small Molecules, The Rockefeller University, New York, NY 10065, USA
| | - Yozen Hernandez
- Laboratory of Genetically Encoded Small Molecules, The Rockefeller University, New York, NY 10065, USA
| | - Matthew Zimmerman
- Center for Discovery and Innovation, Hackensack Meridian Health, Nutley, NJ 07110, USA
| | - Sean F Brady
- Laboratory of Genetically Encoded Small Molecules, The Rockefeller University, New York, NY 10065, USA
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5
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Li Q, Zuo YZ, Gao M, Chen SF. Paenibacillus caui sp. nov., a nitrogen-fixing species isolated from the rhizosphere soil of a peach tree. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005216] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A nitrogen-fixing, endospore-forming, motile, rod-shaped, facultative aerobic bacterium, designated 81-11T, was isolated from rhizosphere soil of a peach tree collected from Handan, Hebei, PR China. From the comparison of 16S rRNA gene sequence, the strain is most closely related to
Paenibacillus phoenicis
DSM 27463T (96.9 %) and
Paenibacillus faecis
DSM 23593T (96.7 %). The genome size of strain 81-11T was 4.4 Mb, comprising 4879 predicted genes with a DNA G+C content of 50.0 mol%. The average nucleotide identity values of genome sequences between the novel isolate and the type strains of related species
P. phoenicis
DSM 27463T and
P. faecis
DSM 23593T were 71.8 and 72.1 %, respectively. The major cellular fatty acids were anteiso-C15 : 0(47.8 %), iso-C16 : 0 (15.5 %) and iso-C15 : 0 (13.0 %). Menaquinone-7 was the major respiratory quinone. The polar lipids contained phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, aminophospholipid, aminoglycopid, unknown polar lipids and unidentified aminophosphoglycolipid. Based on phylogenetic, genomic and phenotypic characteristics, strain 81-11T was classified as a novel species within the genus
Paenibacillus
, for which the name Paenibacillus caui sp. nov. is proposed. The type strain of Paenibacillus caui is 81-11T (=JCM 34618T=CGMCC 1.18907T).
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Affiliation(s)
- Qin Li
- State Key Laboratory for Agrobiotechnology, China Agricultural University, Beijing 100193, PR China
| | - Yin-zhao Zuo
- State Key Laboratory for Agrobiotechnology, China Agricultural University, Beijing 100193, PR China
| | - Miao Gao
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China
| | - San-feng Chen
- State Key Laboratory for Agrobiotechnology, China Agricultural University, Beijing 100193, PR China
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Guo Y, Teng Q, Yang Z, Sun B, Liu S. Investigation on bio-desilication process of fly ash based on a self-screened strain of Bacillus amyloliquefaciens and its metabolites. J Biotechnol 2021; 341:146-154. [PMID: 34599994 DOI: 10.1016/j.jbiotec.2021.09.016] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Revised: 08/22/2021] [Accepted: 09/26/2021] [Indexed: 11/16/2022]
Abstract
Bio-desilication of fly ash containing a large amount of crystalline and amorphous silicate compound by silicate bacteria had the advantages of energy-saving, environment-friendly, and controllable cost. In this study, a bacteria strain with desilication ability on fly ash was isolated from the soil and identified as Bacillus amyloliquefaciens by 16sRNA and named ZGW-12. Through the bio-leaching treatment of fly ash by ZGW-12, it was found that the concentration of Si was 306.26 mg/L and the concentration of Al3+ was 0.5 mg/L in the pulp. The mechanism of bio-leaching using ZGW-12 was investigated by XRD, HPLC, SEM, and FTIR. The organic acid and amino acid in the bacteria culture medium and the pulp were detected, and it was found that the content of the acidic metabolites in the pulp was much larger than that of the bacteria culture medium. The ore sample particles adsorbed a large number of bacteria cells and took place obvious corrosion. The surface of the ore sample undergone hydroxylation reaction, and the diffraction peak of the silicate crystal compound was unchanged. ZGW-12 exhibits good performance in retaining aluminum and extracting silicon aspect. AVAILABILITY OF DATA AND MATERIAL (DATA TRANSPARENCY): All data were true and valid.
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Affiliation(s)
- Yongjie Guo
- College of Mining Engineering, Taiyuan University of Technology, Taiyuan 030024, China
| | - Qing Teng
- College of Mining Engineering, Taiyuan University of Technology, Taiyuan 030024, China.
| | - Zhichao Yang
- College of Mining Engineering, Taiyuan University of Technology, Taiyuan 030024, China.
| | - Beilei Sun
- College of Mining Engineering, Taiyuan University of Technology, Taiyuan 030024, China
| | - Shengyu Liu
- College of Mining Engineering, Taiyuan University of Technology, Taiyuan 030024, China; Key Laboratory of In-situ Property-improving Mining of Ministry of Education, Taiyuan University of Technology, Taiyuan 030024, China
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7
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Paenibacillus sinensis sp. nov., a nitrogen-fixing species isolated from plant rhizospheres. Antonie van Leeuwenhoek 2021; 115:7-18. [PMID: 34718908 DOI: 10.1007/s10482-021-01677-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Accepted: 10/18/2021] [Indexed: 10/19/2022]
Abstract
Two strains HN-1T and 39 were isolated from rhizospheres of different plants grown in different regions of PR China. The two strains exhibited high nitrogenase activities and possessed almost identical 16S rRNA gene sequences. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between the two strains were 99.9 and 99.8%, respectively, suggesting that they belong to one species. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strains HN-1T and 39 are the members of the genus Paenibacillus and both strains exhibited 99.5% similarity to Paenibacillus stellifer DSM 14472T and the both strains represented a separate lineage from all other Paenibacillus species. However, the ANI of type strain HN-1T with P. stellifer DSM 14472T was 90.69, which was below the recommended threshold value (< 95-96% ANI). The dDDH showed 42.1% relatedness between strain HN-1T and P. stellifer DSM 14472T, which was lower than the recommended threshold value (dDDH < 70%). The strain HN-1T contain anteiso-C15:0 as major fatty acids and MK-7 as predominant isoprenoid quinone. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, four aminophospholipids and an unidentified glycolipid. Unlike the most closely related P. stellifer DSM 14472T, strain HN-1T or 39 was positive for catalase reaction. Distinct phenotypic and genomic characterisations from previously described taxa support the classification of strains HN-1T or 39 as representatives of a novel species of the genus Paenibacillus, for which the name Paenibacillus sinensis is proposed, with type strains HN-1T (=CGMCC 1.18902, JCM 34,620), and reference strain 39 (=CGMCC 1.18879, JCM 34,616), respectively.
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8
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Kämpfer P, Busse HJ, McInroy JA, Clermont D, Criscuolo A, Glaeser SP. Paenibacillus allorhizosphaerae sp. nov., from soil of the rhizosphere of Zea mays. Int J Syst Evol Microbiol 2021; 71. [PMID: 34672916 DOI: 10.1099/ijsem.0.005051] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
Abstract
A Gram-stain-positive, aerobic, endospore-forming bacterial strain, isolated from the rhizosphere of Zea mays, was studied for its detailed taxonomic allocation. Based on 16S rRNA gene sequence similarity comparisons, strain JJ-447T was shown to be a member of the genus Paenibacillus, most closely related to the type strain of Paenibacillus solanacearum (97.8 %). The 16S rRNA gene sequence similarity values to all other Paenibacillus species were below 97.0 %. DNA-DNA hybridization (DDH) values with the type strain of P. solanacearum were 35.9 % (reciprocal 27%), respectively. The average nucleotide identity and in silico DDH values with the type strain of P. solanacearum were 84.86 and 28.9 %, respectively. The quinone system of strain JJ-447T consisted exclusively of menaquinones and the major component was MK-7 (96.4 %) but minor amounts of MK-6 (3.6 %) were detected as well. The polar lipid profile consisted of the major components diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminolipid. Major fatty acids were iso- and anteiso-branched with the major compounds anteiso-C15 : 0 and iso-C15 : 0. Physiological and biochemical characteristics allowed a further phenotypic differentiation of strain JJ-447T from the most closely related species on the basis of d-glucose, l-arabinose and d-mannose assimilation and other physiological tests. Thus, JJ-447T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus allorhizosphaerae sp. nov. is proposed, with JJ-447T (=LMG 31601T=CCM 9021T=CIP 111802T) as the type strain.
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Affiliation(s)
- Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität, Wien A-1210, Austria
| | - John A McInroy
- Department of Entomology and Plant Pathology, Auburn University, Alabama, USA
| | | | - Alexis Criscuolo
- Hub de Bioinformatique et Biostatistique - Département Biologie Computationnelle, Institut Pasteur, Paris, France
| | - Stefanie P Glaeser
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
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9
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Lv Y, Li J, Chen Z, Ye H, Du D, Shao L, Ma M. Species identification and mutation breeding of silicon-activating bacteria isolated from electrolytic manganese residue. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:1491-1501. [PMID: 32839912 DOI: 10.1007/s11356-020-10526-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 08/13/2020] [Indexed: 06/11/2023]
Abstract
A strain of silicon-activating bacteria was isolated from electrolytic manganese residue (EMR); identified as a species of Ochrobactrum by integrated microscopic morphological characteristics, biochemical index determination, and clone analysis (i.e., results of 16S rRNA sequence); and temporarily named as Ochrobactrum sp. T-07 (T-07). The optimal growth conditions of the strain T-07 were obtained as follows: temperature of 30 °C, initial pH of 7.0, shaking speed of 180 rev. min-1, and loading volume of 100 mL. In order to enhance its activation activity of silicon, T-07 went through the ultraviolet (UV) mutagenesis and nitrosoguanidine (NTG) mutagenesis breeding, and the mutant strain T-07-B with higher activity was obtained. Under the optimal fermentation condition (leaching time of 20 days, temperature of 30 °C, initial pH of 7, pulp concentration of 5%, shaking speed of 180 rev. min-1, and particle diameter of EMR ≤ 180 μm), the available silicon content in the supernatant reached 98.8 mg L-1, which was 2.4 times of the original strain T-07. Therefore, T-07 can be used as a good backup in developing biological silicon fertilizer for plants.
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Affiliation(s)
- Ying Lv
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Jia Li
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China.
- School of Forestry & Environmental Studies, Yale University, New Haven, CT, 06511, USA.
| | - Zhenxing Chen
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Hengpeng Ye
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Dongyun Du
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Li Shao
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Mengyu Ma
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
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Lv Y, Li J, Ye H, Du D, Sun P, Ma M, Zhang TC. Bioleaching of silicon in electrolytic manganese residue (EMR) by Paenibacillus mucilaginosus: Impact of silicate mineral structures. CHEMOSPHERE 2020; 256:127043. [PMID: 32445999 DOI: 10.1016/j.chemosphere.2020.127043] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2019] [Revised: 04/26/2020] [Accepted: 05/09/2020] [Indexed: 06/11/2023]
Abstract
Electrolytic manganese residue (EMR) is characterized by high silicon content, and thus, is an important silicon source. While considerable research has been conducted on bioleaching EMR for silicon recovery, sufficient information is not available on the impact of specific silicate mineral structures in EMR on silicon bioleaching. In the present study, the mineral composition of EMR was determined firstly, and then the leaching effect of Paenibacillus mucilaginosus on these different silicate minerals were investigated by shake flask experiments. Results showed that the silicon in EMR was mainly composed of quartz, sericite, muscovite, biotite, olivine and rhodonite; Paenibacillus mucilaginosus had a significantly different weathering and decomposition effects on different silicate minerals. Among them, sericite, muscovite and biotite with layered structure had the most obvious silicon leaching effect, followed by rhodonite with island structure, while silicon leaching from olivine with chained structure and quartz with frame structure was much more difficult. One can roughly judge the adaptability of bioleaching of silicon in EMR using Paenibacillus mucilaginosus if the main form of silicate minerals in EMR is determined.
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Affiliation(s)
- Ying Lv
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China
| | - Jia Li
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China; School of Forestry & Environmental Studies, Yale University, New Haven, 06511, CT, United States.
| | - Hengpeng Ye
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China
| | - Dongyun Du
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China
| | - Peng Sun
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China
| | - Mengyu Ma
- College of Resource and Environmental Science, South-Central University for Nationalities, Wuhan, 430074, PR China
| | - Tian C Zhang
- Civil Engineering Department, University of Nebraska-Lincoln (Omaha Campus), Omaha, NE, 68182, USA
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11
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Lv Y, Li J, Ye H, Du D, Gan C, Wuri L, Sun P, Wen J. Bioleaching of silicon in electrolytic manganese residue using single and mixed silicate bacteria. Bioprocess Biosyst Eng 2019; 42:1819-1828. [PMID: 31435737 DOI: 10.1007/s00449-019-02178-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2019] [Accepted: 07/15/2019] [Indexed: 10/26/2022]
Abstract
Electrolytic manganese residue (EMR) is a type of industrial solid waste with a high silicon content. The silicon in EMR can be used as an essential nutrient for plant growth, but most of the silicon is found in silicate minerals with very low water solubility, that is, it is inactive silicon and cannot be absorbed and used by plants directly. Thus, developing a highly effective and environmentally friendly process for the activation of silicon in EMR is important both for reusing solid waste and environmental sustainability. The aim of this study was to investigate the desilication of EMR using cultures of Paenibacillus mucilaginosus (PM) and Bacillus circulans (BC). The results showed that the two types of silicate bacteria and a mixed strain of them were all able to extract silicon from EMR with a high efficiency, but the desilication performance of the mixed PM and BC was the best. Fourier transform infrared spectroscopy indicated that silicate bacteria can induce a suitable micro-environment near the EMR particles and release Si into the solution through their metabolism. X-ray diffraction analysis confirmed that layered crystal minerals, such as muscovite and diopside, were more likely to be destroyed by the bacterial action than quartz, which has a frame structure. Scanning electron microscopy-energy dispersive spectrometry proved that the silicate structures were destroyed and that Si in the residue was decreased, indicating the dissolution of silicon under the action of these microorganisms. This study suggests that bioleaching may be a promising method for the activation of silicon in EMR.
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Affiliation(s)
- Ying Lv
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Jia Li
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China. .,Hubei Province Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Wuhan, 430074, People's Republic of China.
| | - Hengpeng Ye
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China.,Hubei Province Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Wuhan, 430074, People's Republic of China
| | - Dongyun Du
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China.,Hubei Province Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Wuhan, 430074, People's Republic of China
| | - Cai Gan
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Lage Wuri
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Peng Sun
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
| | - Jianxin Wen
- College of Chemical Engineering, South-Central University for Nationalities, Wuhan, 430074, People's Republic of China
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12
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Characterization of an exopolysaccharide with distinct rheological properties from Paenibacillus edaphicus NUST16. Int J Biol Macromol 2017; 105:1-8. [DOI: 10.1016/j.ijbiomac.2017.06.030] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2016] [Revised: 05/25/2017] [Accepted: 06/06/2017] [Indexed: 12/29/2022]
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13
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Paenibacillus solanacearum sp. nov., isolated from rhizosphere soil of a tomato plant. Int J Syst Evol Microbiol 2017; 67:5046-5050. [DOI: 10.1099/ijsem.0.002410] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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14
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Vardanian A, Kurzbaum E, Farber Y, Butnariu M, Armon R. Facilitated enumeration of the silicate bacterium Paenibacillus mucilaginosus comb. nov. (formerly Bacillus mucilaginosus) via tetrazolium chloride incorporation into a double agar-based solid growth medium. Folia Microbiol (Praha) 2017; 63:401-404. [PMID: 29170991 DOI: 10.1007/s12223-017-0567-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2017] [Accepted: 11/08/2017] [Indexed: 10/18/2022]
Abstract
Accurate enumeration of Paenibacillus mucilaginosus (formerly Bacillus mucilaginosus) bacterium from environmental samples on solid medium is challenging owing to its extensive extracellular polysaccharides (EPS) excretion. In the present study, P. mucilaginosus enumeration has been facilitated by a simple modification: addition of triphenyl tetrazolium chloride (TTC) to growth medium and application of a second soft agar layer. Results show distinctively better and accurate colonies' count. This method can be applied to all bacterial species that produce excessive EPS that may interfere with direct count.
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Affiliation(s)
- Annie Vardanian
- Faculty of Civil and Environmental Engineering, Technion - Israel Institute of Technology, 32000, Haifa, Israel
| | - Eyal Kurzbaum
- Shamir Research Institute, University of Haifa, P.O. Box 97, 12900, Qatzrin, Israel.
| | - Yair Farber
- Faculty of Civil and Environmental Engineering, Technion - Israel Institute of Technology, 32000, Haifa, Israel
| | - Monica Butnariu
- Banat University of Agronomical Sciences and Veterinary Medicine, Timișoara, Romania
| | - Robert Armon
- Faculty of Civil and Environmental Engineering, Technion - Israel Institute of Technology, 32000, Haifa, Israel
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15
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Kim YJ, Sukweenadhi J, Seok JW, Kang CH, Choi ES, Subramaniyam S, Yang DC. Complete genome sequence of Paenibacillus yonginensis DCY84 T, a novel plant Symbiont that promotes growth via induced systemic resistance. Stand Genomic Sci 2017; 12:63. [PMID: 29046742 PMCID: PMC5640943 DOI: 10.1186/s40793-017-0277-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Accepted: 09/27/2017] [Indexed: 11/10/2022] Open
Abstract
This article reports the full genome sequence of Paenibacillus yonginensis DCY84T (KCTC33428, JCM19885), which is a Gram-positive rod-shaped bacterium isolated from humus soil of Yongin Forest in Gyeonggi Province, South Korea. The genome sequence of strain DCY84T provides greater understanding of the Paenibacillus species for practical use. This bacterium displays plant growth promotion via induced systemic resistance of abiotic stresses.
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Affiliation(s)
- Yeon-Ju Kim
- Graduate School of Biotechnology, College of Life Science, Kyung Hee University, Yongin, 446-701 South Korea
| | - Johan Sukweenadhi
- Graduate School of Biotechnology, College of Life Science, Kyung Hee University, Yongin, 446-701 South Korea
| | | | - Chang Ho Kang
- Division of Applied Life Science and PMBBRC, Gyeongsang National University, Jinju, South Korea
| | - Eul-Su Choi
- Graduate School of Biotechnology, College of Life Science, Kyung Hee University, Yongin, 446-701 South Korea
| | - Sathiyamoorthy Subramaniyam
- Graduate School of Biotechnology, College of Life Science, Kyung Hee University, Yongin, 446-701 South Korea
| | - Deok Chun Yang
- Graduate School of Biotechnology, College of Life Science, Kyung Hee University, Yongin, 446-701 South Korea
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16
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Xiao B, Sun YF, Lian B, Chen TM. Complete genome sequence and comparative genome analysis of the Paenibacillus mucilaginosus K02. Microb Pathog 2016; 93:194-203. [PMID: 26802523 DOI: 10.1016/j.micpath.2016.01.016] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2015] [Revised: 01/14/2016] [Accepted: 01/19/2016] [Indexed: 11/29/2022]
Abstract
AIM Paenibacillus mucilaginosus (P. mucilaginosus) K02 is implicated in mineral weathering. However, relevant molecular mechanisms remain obscure. The study aims to uncover the bacterium's physiological processes using genomic approaches. METHODS AND RESULTS Genomic DNA from P. mucilaginosus K02 was sequenced using high-throughput Solexa sequencing technology and then conducted for Clusters of Orthologous Group (COG) annotation. Thereafter, genome sequences of K02 were compared with two strains, 3016 and KNP414. Mummer was applied for collinearity analysis of three P. mucilaginosus genomes. BLAST was used to identify pan and core genes in these strains. Finally, a phylogenetic tree was constructed using the maximum likelihood method by TreeBeST. Complete genome sequence of P. mucilaginosus K02 indicated the strain comprises one circular chromosome with 8,819,200 bases containing 58.3% GC content and 84.75% coding regions. A total of 7299 predicted ORFs were identified in the genome, among them, several genes were related to carbonic anhydrase (CA), and exopolysaccharide biosynthesis and secretion. Moreover, proteins of the predicted genes were annotated in COG categories such as "Carbohydrate transport and metabolism" and "Inorganic ion transport and metabolism." In comparison with KNP414 and 3016, K02 exhibited chromosomal recombination or transposition. A total of 6662 core genes were identified among three P. mucilaginosus strains. The phylogenomic study indicated that P. mucilaginosus K02 was clustered with P. mucilaginosus strains 3016 and KNP414. CONCLUSIONS In P. mucilaginosus K02, genes related to CA and exopolysaccharide biosynthesis and secretion, and that involved in metabolism-related processes might play significant roles in mineral weathering.
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Affiliation(s)
- Bo Xiao
- Key Laboratory for Ecology and Pollution Control of Coastal Wetlands, School of Environmental Science and Engineering, Yancheng Institute of Technology, Yancheng 224051, China; Institute of Biology and Medical Sciences, Soochow University, Suzhou 215123, China.
| | - Yu-Fang Sun
- Institute of Biology and Medical Sciences, Soochow University, Suzhou 215123, China.
| | - Bin Lian
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Microbiology, College of Life Science, Nanjing Normal University, Nanjing 210023, China.
| | - Tian-Ming Chen
- Key Laboratory for Ecology and Pollution Control of Coastal Wetlands, School of Environmental Science and Engineering, Yancheng Institute of Technology, Yancheng 224051, China.
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17
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Nguyen NL, Kim YJ, Hoang VA, Kang JP, Singh P, Yang DC. Paenibacillus panaciterrae sp. nov., isolated from ginseng-cultivated soil. Int J Syst Evol Microbiol 2015; 65:4080-4086. [DOI: 10.1099/ijsem.0.000540] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
A novel bacterium, designated DCY95T, was isolated from ginseng-cultivated soil in Quang Nam province, Vietnam. On the basis of 16S rRNA and gyrB gene sequence analysis, this isolate was assigned to the genus Paenibacillus and found to be closely related to Paenibacillus sacheonensis SY01T (97.1 % 16S rRNA gene sequence similarity) and Paenibacillus taihuensis THMBG22T (96.4 %). The partial gyrB gene of DCY95T possessed 69.6–83.9 % sequence identity to those of other members of the genus Paenibacillus. Strain DCY95T was Gram-reaction-negative, catalase-negative, oxidase-positive, strictly aerobic, rod-shaped and motile by means of peritrichous flagella. Ellipsoidal free spores or subterminal endospores were produced in sporangia. MK-7 was the diagnostic menaquinone. The cell-wall peptidoglycan contained meso-diamonopimelic acid as the diamino acid. Whole-cell sugars comprised ribose, mannose and glucose. The major cellular fatty acids were anteiso-C15 : 0, iso-C16 : 0 and C16 : 0. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, three unidentified aminophospholipids, and two unidentified phospholipids. The genomic DNA G+C content was 60.7 ± 0.9 mol%. Phenotypic and chemotaxonomic results placed strain DCY95T within the genus Paenibacillus. However, DNA–DNA relatedness values between strain DCY95T and P. sacheonensis KACC 14895T or P. taihuensis NBRC 108766T were lower than 36 %. The low DNA relatedness data in combination with phylogenetic and (GTG)5-PCR analyses, as well as biochemical tests, indicated that strain DCY95T could not be assigned to any recognized species. In conclusion, the results in this study support the classification of strain DCY95T as a representative of a novel species within the genus Paenibacillus, for which the name Paenibacillus panaciterrae is proposed. The type strain is DCY95T ( = KCTC 33581T = DSM 29477T).
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Affiliation(s)
- Ngoc-Lan Nguyen
- Department of Oriental Medicinal Biotechnology, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Yeon-Ju Kim
- Department of Oriental Medicinal Biotechnology, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Van-An Hoang
- Department of Oriental Medicinal Biotechnology, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Jong-Pyo Kang
- Department of Oriental Medicinal Biotechnology, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Priyanka Singh
- Graduate School of Biotechnology and Ginseng Bank, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Deok-Chun Yang
- Department of Oriental Medicinal Biotechnology, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
- Graduate School of Biotechnology and Ginseng Bank, College of Life Sciences, Kyung Hee University, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
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18
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Gao JL, Lv FY, Wang XM, Qiu TL, Yuan M, Li JW, Zhou Y, Sun JG. Paenibacillus wenxiniae sp. nov., a nifH gene -harbouring endophytic bacterium isolated from maize. Antonie van Leeuwenhoek 2015; 108:1015-22. [PMID: 26346477 DOI: 10.1007/s10482-015-0554-8] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2015] [Accepted: 08/11/2015] [Indexed: 11/25/2022]
Abstract
A novel Gram-positive, aerobic, motile, endospore-forming, rod-shaped bacterium, designated 373(T) was isolated from surface-sterilised root tissue of a maize planted in Fangshan District of Beijing, Peopole's Republic of China. A polyphasic taxonomic study was performed on the new isolate. On the basis of 16S rRNA gene sequence similarity studies, this isolate belongs to the genus Paenibacillus. The highest 16S rRNA gene sequence similarity was found between strain 373(T) and Paenibacillus hunanensis (98.1%), meanwhile the 16S rRNA gene sequence similarity between strain 373(T) and the type strains of other recognised members of the genus Paenibacillus were all below 95.6%. However, the DNA-DNA hybridization values between strain 373(T) and the type strain P. hunanensis DSM 22170(T) was 30.2%. The DNA G+C content of strain 373(T) was determined to be 46.0 mol%. The predominant respiratory quinone was identified as menaquinone-7 and the polar lipid profile was found to be composed of the major lipids diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The major fatty acids were found to consist of anteiso-C15: 0 (59.6%), anteiso-C17: 0 (12.8%) and C16: 0 (6.7%). The results of physiological and biochemical tests and minor differences in the fatty acid profiles allowed a clear phenotypic differentiation of strain 373(T) from the closely related species in this genus Paenibacillus. Strain 373(T) is concluded to represent a novel species within the genus Paenibacillus, for which the name Paenibacillus wenxiniae sp. nov. is proposed, with the type strain 373(T) (= CGMCC 1.15007 (T) = DSM100576 ).
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Affiliation(s)
- Jun-lian Gao
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Fan-yang Lv
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
| | - Xu-ming Wang
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Tian-lei Qiu
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
| | - Mei Yuan
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
| | - Ji-wei Li
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
- College of Agriculture, Yangtze University, Jingzhou, Hubei, 434025, People's Republic of China
| | - Yi Zhou
- Beijing Agro- Biotechnology Research Center, Beijing Academy of Agriculture and Forestry/Beijing Municipal Key Laboratory of Agricultural Gene Resources and Biotechnology, Beijing, 100097, People's Republic of China
- College of Agriculture, Yangtze University, Jingzhou, Hubei, 434025, People's Republic of China
| | - Jian-guang Sun
- Key Laboratory of Microbial Resources, Ministry of Agriculture/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China.
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19
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Asare PT, Jeong TY, Ryu S, Klumpp J, Loessner MJ, Merrill BD, Kim KP. Putative type 1 thymidylate synthase and dihydrofolate reductase as signature genes of a novel Bastille-like group of phages in the subfamily Spounavirinae. BMC Genomics 2015; 16:582. [PMID: 26250905 PMCID: PMC4528723 DOI: 10.1186/s12864-015-1757-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2015] [Accepted: 07/07/2015] [Indexed: 12/12/2022] Open
Abstract
Background Spounavirinae viruses have received an increasing interest as tools for the control of harmful bacteria due to their relatively broad host range and strictly virulent phenotype. Results In this study, we collected and analyzed the complete genome sequences of 61 published phages, either ICTV-classified or candidate members of the Spounavirinae subfamily of the Myoviridae. A set of comparative analyses identified a distinct, recently proposed Bastille-like phage group within the Spounavirinae. More importantly, type 1 thymidylate synthase (TS1) and dihydrofolate reductase (DHFR) genes were shown to be unique for the members of the proposed Bastille-like phage group, and are suitable as molecular markers. We also show that the members of this group encode beta-lactamase and/or sporulation-related SpoIIIE homologs, possibly questioning their suitability as biocontrol agents. Conclusions We confirm the creation of a new genus—the “Bastille-like group”—in Spounavirinae, and propose that the presence of TS1- and DHFR-encoding genes could serve as signatures for the new Bastille-like group. In addition, the presence of metallo-beta-lactamase and/or SpoIIIE homologs in all members of Bastille-like group phages makes questionable their suitability for use in biocontrol. Electronic supplementary material The online version of this article (doi:10.1186/s12864-015-1757-0) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Paul Tetteh Asare
- Department of Food Science and Technology, College of Agriculture and Life Sciences, Chonbuk National University, Jeonju, Jeollabuk-do, 561-756, Korea.
| | - Tae-Yong Jeong
- Department of Food Science and Technology, College of Agriculture and Life Sciences, Chonbuk National University, Jeonju, Jeollabuk-do, 561-756, Korea.
| | - Sangryeol Ryu
- Department of Food and Animal Biotechnology, Seoul National University, Seoul, Korea. .,Department of Agricultural Biotechnology, Center for Agricultural Biomaterials, Seoul National University, Seoul, Korea. .,Research Institute for Agriculture and Life Sciences, Seoul National University, Seoul, Korea.
| | - Jochen Klumpp
- Institute of Food, Nutrition and Health, ETH Zurich, Schmelzbergstrasse 7, 8092, Zurich, Switzerland.
| | - Martin J Loessner
- Institute of Food, Nutrition and Health, ETH Zurich, Schmelzbergstrasse 7, 8092, Zurich, Switzerland.
| | - Bryan D Merrill
- Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, USA.
| | - Kwang-Pyo Kim
- Department of Food Science and Technology, College of Agriculture and Life Sciences, Chonbuk National University, Jeonju, Jeollabuk-do, 561-756, Korea.
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20
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Wu N, Pan HX, Qiu D, Zhang YM. Feasibility of EPS-producing bacterial inoculation to speed up the sand aggregation in the Gurbantunggut Desert, Northwestern China. J Basic Microbiol 2014; 54:1378-86. [PMID: 25224518 DOI: 10.1002/jobm.201400355] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2014] [Accepted: 07/05/2014] [Indexed: 11/10/2022]
Abstract
Exopolymers are known to be useful in improving sand aggregation and the development of biological soil crusts (BSCs). A facultative bacterium KLBB0001 was isolated from BSCs in the Gurbantunggut Desert in northwestern China. With the strong effective production of extracellular polymeric substances (EPS), this strain exhibits a multifunctional role for sand stabilization and maintenance of water under laboratory conditions. Practical testing of the feasibility of its inoculation to speed up BSC recovery in the field was also conducted in this experiment. This strain stimulated the heterotrophic community assembly in the topsoil layer (0-2 cm) before the commencement of autotrophic cyanobacteria, while also significantly increasing the number of bacteria, actinomycetes, and content of total phosphorus, available nitrogen, and available phosphorus. However, the low nitrogenase activity (NA) (0.57 µmol/h) that was observed caused us to doubt the previous identification as Azotobacter Beijerinck that was based on physiological and biochemical properties. A phylogenetic analysis based on 16S rRNA gene sequences revealed that this strain was a member of the genus Paenibacillus. It exhibited the closest phylogenetic affinity and highest sequence similarity to the strain Paenibacillus mucilaginosus VKPM B-7519 (sequence similarity 99.698%), which is well known as a typical silicate-weathering bacteria that releases lots of nutritional ions from minerals and the soil. Because P. mucilaginosus can excrete carbonic anhydrase (CA) to capture atmospheric CO2 through hydration of CO2 , it is possible that KLBB0001 might use a similar strategy for heterotrophs in the BSCs to sequester CO2 from the air. Because of its potential role in the reestablishment of the BSC ecosystem due to its ability to improve water relations, sand stabilization, and chemical erosion, EPS-producing bacterial inoculation was concluded to be a suitable and effective treatment for BSC recovery, especially in environments with limited water and nutrients.
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Affiliation(s)
- Nan Wu
- Key Laboratory of Biogeography and Bioresources in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
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21
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Genome Sequence of Growth-Improving Paenibacillus mucilaginosus Strain KNP414. GENOME ANNOUNCEMENTS 2013; 1:1/5/e00881-13. [PMID: 24158556 PMCID: PMC3813186 DOI: 10.1128/genomea.00881-13] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Paenibacillus mucilaginosus is a critical growth-improving silicate bacterium. Here, we report the complete genome sequence of P. mucilaginosus strain KNP414. This information will provide us with the opportunity to understand its molecular mechanisms and develop more effective utilization of the strain.
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Complete genome sequence of Paenibacillus mucilaginosus 3016, a bacterium functional as microbial fertilizer. J Bacteriol 2012; 194:2777-8. [PMID: 22535950 DOI: 10.1128/jb.00323-12] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Paenibacillus mucilaginosus is a ubiquitous functional bacterium in microbial fertilizer. Here we report the complete sequence of P. mucilaginosus 3016. Multiple sets of functional genes have been found in the genome. To the best of our knowledge, this is the first announcement about the complete genome sequence of a P. mucilaginosus strain.
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Dong F, Zhang X, Li Y, Wang J, Zhang S, Hu X, Chen J. Characterization of the endophytic antagonist pY11T-3-1 against bacterial soft rot of Pinellia ternata. Lett Appl Microbiol 2010; 50:611-7. [DOI: 10.1111/j.1472-765x.2010.02841.x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Wu JG, Wang JF, Zhang XH, Zhang SS, Hu XF, Chen JS. A gyrB-targeted PCR for rapid identification of Paenibacillus mucilaginosus. Appl Microbiol Biotechnol 2010; 87:739-47. [PMID: 20221758 DOI: 10.1007/s00253-010-2501-y] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2009] [Revised: 02/06/2010] [Accepted: 02/09/2010] [Indexed: 11/25/2022]
Abstract
Paenibacillus mucilaginosus, one of the typical silicate bacteria, has long been used as a biofertilizer in agriculture and has recently shown potential in bioleaching and wastewater engineering. There has been considerable research involving the isolation of P. mucilaginosus for various utilizations; therefore, rapid identification of this species is of great interest. Herein, we describe a specific polymerase chain reaction (PCR) method developed for a rapid identification of P. mucilaginosus, which might provide potential utilization in the investigation of populations, detection of biofertilizers, and identification of novel isolates on a large scale. A gyrB-targeted species-specific primer pair, F2 (5'-ACG GAT ATC TCC CAG ACG TTC AT-3') and R5 (5'-ACG GGC ACG CTG CGC CTG TAC G-3'), was successfully designed to selectively amplify a 519-bp amplicon from P. mucilaginosus. Good specificity was demonstrated by both reference strains and total soil deoxyribonucleic acid, from which only the gyrB gene of P. mucilaginosus was amplified. The detection limit was 4-10 cells per assay. Using the culture-PCR method, 20 of 26 soil isolates on a nitrogen-free medium were rapidly identified as P. mucilaginosus, which was confirmed by sequencing of the gyrB gene.
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Affiliation(s)
- Jin-Guang Wu
- Institute of Bioengineering, Zhejiang Sci-Tech University, Road 2, Xiasha, Hangzhou, People's Republic of China
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