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Gao L, She TT, Liu YH, Chen ZY, Liu JY, Jiang HC, Fang BZ, Li WJ. Chelativorans salis sp. nov., a slightly halophilic bacterium isolated from an enrichment system with saline lake sediment. Int J Syst Evol Microbiol 2024; 74. [PMID: 38619977 DOI: 10.1099/ijsem.0.006340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/17/2024] Open
Abstract
A Gram-stain-negative, non-motile, and slightly halophilic alphaproteobacterium, designated strain EGI FJ00035T, was isolated from enrichment sediment samples of a saline lake in Xinjiang Uygur Autonomous Region, PR China. The taxonomic position of the isolate was determined using the polyphasic taxonomic and phylogenomic analyses. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain EGI FJ00035T formed a distinct clade with 'Chelativorans alearense' UJN715 and 'Chelativorans xinjiangense' lm93 with sequence similarities of 98.44 and 98.22 %, respectively, while sharing less than 96.7 % with other valid type strains. The novel isolate could be distinguished from other species of the genus Chelativorans by its distinct phenotypic, physiological, and genotypic characteristics. Optimal growth of strain EGI FJ00035T occurred on marine agar 2216 at pH 7.0 and 30 °C. The major respiratory quinone was Q-10, while the major fatty acids (>5 %) were C19 : 0 cyclo ω8c, summed feature 8 (C17 : 1 ω6c and/or C17 : 1 ω7c), C16 : 0, C18 : 0, and iso-C17 : 0. The detected polar lipids included diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, unidentified aminophospholipids, unidentified glycolipids, and an unidentified lipid. Based on its genome sequence, the G+C content of strain EGI FJ00035T was 63.2 mol%. The average nucleotide identity, average amino acid identity, and digital DNA-DNA hybridization values of strain EGI FJ00035T against related members of the genus Chelativorans were below the thresholds for delineation of a novel species. According our polyphasic taxonomic data, strain EGI FJ00035T represents a new species of the genus Chelativorans, for which the name Chelativorans salis sp. nov. is proposed. The type strain of the proposed novel isolate is EGI FJ00035T (=KCTC 92251T=CGMCC 1.19480T).
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Affiliation(s)
- Lei Gao
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- Xinjiang Key Laboratory of Biodiversity Conservation and Application in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Ting-Ting She
- Guangdong University of Education, Guangzhou, 510275, Guangdong, PR China
| | - Yong-Hong Liu
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- Xinjiang Key Laboratory of Biodiversity Conservation and Application in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
| | - Zhong-Yan Chen
- Guangdong University of Education, Guangzhou, 510275, Guangdong, PR China
| | - Jia-Yi Liu
- Guangdong University of Education, Guangzhou, 510275, Guangdong, PR China
| | - Hong-Chen Jiang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing 100083, PR China
| | - Bao-Zhu Fang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- Xinjiang Key Laboratory of Biodiversity Conservation and Application in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
| | - Wen-Jun Li
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- Xinjiang Key Laboratory of Biodiversity Conservation and Application in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, PR China
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, Guangdong, PR China
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Mustaq S, Moin A, Pandit B, Tiwary BK, Alam M. Phyllobacteriaceae: a family of ecologically and metabolically diverse bacteria with the potential for different applications. Folia Microbiol (Praha) 2024; 69:17-32. [PMID: 38038797 DOI: 10.1007/s12223-023-01107-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Accepted: 11/08/2023] [Indexed: 12/02/2023]
Abstract
The family Phyllobacteriaceae is a heterogeneous assemblage of more than 146 species of bacteria assigned to its existing 18 genera. Phylogenetic analyses have shown great phylogenetic diversity and also suggested about incorrect classification of several species that need to be reassessed for their proper phylogenetic classification. However, almost 50% of the family members belong to the genus Mesorhizobium only, of which the majority are symbiotic nitrogen fixers associated with different legumes. Other major genera are Phyllobacterium, Nitratireductor, Aquamicrobium, and Aminobacter. Nitrogen-fixing, legume nodulating members are present in Aminobacter and Phyllobacterium as well. Aquamicrobium spp. can degrade environmental pollutants, like 2,4-dichlorophenol, 4-chloro-2-methylphenol, and 4-chlorophenol. Chelativorans, Pseudaminobacter, Aquibium, and Oricola are the other genera that contain multiple species having diverse metabolic capacities, the rest being single-membered genera isolated from varied environments. In addition, heavy metal and antibiotic resistance, chemolithoautotrophy, poly-β-hydroxybutyrate storage, cellulase production, etc., are the other notable characteristics of some of the family members. In this report, we have comprehensively reviewed each of the species of the family Phyllobacteriaceae in their eco-physiological aspects and found that the family is rich with ecologically and metabolically highly diverse bacteria having great potential for human welfare and environmental clean-up.
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Affiliation(s)
- Saqlain Mustaq
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, 700160, Kolkata, West Bengal, India
| | - Abdul Moin
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, 700160, Kolkata, West Bengal, India
| | - Baishali Pandit
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, 700160, Kolkata, West Bengal, India
- Department of Botany, Surendranath College, 24/2 MG Road, 700009, Kolkata, West Bengal, India
| | - Bipransh Kumar Tiwary
- Department of Microbiology, North Bengal St. Xavier's College, Rajganj, 735135, Jalpaiguri, West Bengal, India
| | - Masrure Alam
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, 700160, Kolkata, West Bengal, India.
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Park Y, Ten LN, Maeng S, Chang Y, Jung HY, Kim MK. Phyllobacterium pellucidum sp. nov., isolated from soil. Arch Microbiol 2021; 203:2647-2652. [PMID: 33710380 DOI: 10.1007/s00203-021-02205-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Revised: 01/26/2021] [Accepted: 02/08/2021] [Indexed: 11/25/2022]
Abstract
A bacterial strain, BT25T, was isolated from soil in Korea. The bacterial cells were Gram-negative and rod-shaped. Phylogenetic analysis using 16S rRNA gene sequences showed that the BT25T strain was related to the genus Phyllobacterium. BT25T was 96.6 and 96.5% similar to Phyllobacterium brassicacearum STM 196T and Phyllobacterium myrsinacearum DSM 5892T, respectively. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between BT25T and the two closest phylogenetic neighbors were calculated to be 78.5 and 77.7, 21.1 and 21.2%, respectively. The major cellular fatty acids were summed feature 8 (C18:1 ω7c/C18:1 ω6c) (29.3%), cyclo-C19:0 ω8c (27.5%), and C16:0 (16.5%). The BT25T strain had menaquinone Q-10 as the predominant quinone, as well as phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, and phosphatidylcholine as the major polar lipids. Based on the phenotypic, phylogenetic, and chemotaxonomic data, the BT25T strain was classified as a novel Phyllobacterium species. The name Phyllobacterium pellucidum sp. nov. was proposed. The type strain is BT25T (= KCTC 62765T = NBRC 114381T).
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Affiliation(s)
- Yuna Park
- Department of Bio and Environmental Technology, College of Natural Science, Seoul Women's University, Seoul, 01797, Republic of Korea
| | - Leonid N Ten
- School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Soohyun Maeng
- Department of Bio and Environmental Technology, College of Natural Science, Seoul Women's University, Seoul, 01797, Republic of Korea
| | - Yoonjee Chang
- Department of Food and Nutrition, Kookmin University, Seoul, 02707, Republic of Korea.
| | - Hee-Young Jung
- School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Republic of Korea.
- Institute of Plant Medicine, Kyungpook National University, Daegu, 41566, Republic of Korea.
| | - Myung Kyum Kim
- Department of Bio and Environmental Technology, College of Natural Science, Seoul Women's University, Seoul, 01797, Republic of Korea.
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Halliwell T, Fisher K, Payne KAP, Rigby SEJ, Leys D. Heterologous expression of cobalamin dependent class-III enzymes. Protein Expr Purif 2021; 177:105743. [PMID: 32871253 PMCID: PMC7585037 DOI: 10.1016/j.pep.2020.105743] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Revised: 08/25/2020] [Accepted: 08/26/2020] [Indexed: 11/29/2022]
Abstract
The family of cobalamin class-III dependent enzymes is composed of the reductive dehalogenases (RDases) and related epoxyqueuosine reductases. RDases are crucial for the energy conserving process of organohalide respiration. These enzymes have the ability to reductively cleave carbon-halogen bonds, present in a number of environmentally hazardous pollutants, making them of significant interest for bioremediation applications. Unfortunately, it is difficult to obtain sufficient yields of pure RDase isolated from organohalide respiring bacteria for biochemical studies. Hence, robust heterologous expression systems are required that yield the active holo-enzyme which requires both iron-sulphur cluster and cobalamin incorporation. We present a comparative study of the heterologous expression strains Bacillus megaterium, Escherichia coli HMS174(DE3), Shimwellia blattae and a commercial strain of Vibrio natrigenes, for cobalamin class-III dependent enzymes expression. The Nitratireductor pacificus pht-3B reductive dehalogenase (NpRdhA) and the epoxyqueuosine reductase from Streptococcus thermophilus (StoQ) were used as model enzymes. We also analysed whether co-expression of the cobalamin transporter BtuB, supports increased cobalamin incorporation into these enzymes in E. coli. We conclude that while expression in Bacillus megaterium resulted in the highest levels of cofactor incorporation, co-expression of BtuB in E. coli presents an appropriate balance between cofactor incorporation and protein yield in both cases.
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Affiliation(s)
- Tom Halliwell
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Karl Fisher
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Karl A P Payne
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK; Future Biomanufacturing Research Hub (FutureBRH), Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Stephen E J Rigby
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - David Leys
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK.
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Yang WL, Dai ZL, Cheng X, Guo L, Fan ZX, Ge F, Dai YJ. Sulfoxaflor Degraded by Aminobacter sp. CGMCC 1.17253 through Hydration Pathway Mediated by Nitrile Hydratase. J Agric Food Chem 2020; 68:4579-4587. [PMID: 32227888 DOI: 10.1021/acs.jafc.9b06668] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Sulfoxaflor, a sulfoximine insecticide, could efficiently control many insect pests of sap-feeding. Microbial degradation of sulfoxaflor and the enzymatic mechanism involved have not been studied to date. A bacterial isolate JW2 that transforms sulfoxaflor to X11719474 was isolated and identified as Aminobacter sp. CGMCC 1.17253. Both the recombinant Escherichia coli strain harboring the Aminobacter sp. CGMCC 1.17253 nitrile hydratase (NHase) gene and the pure NHase acquired sulfoxaflor-degrading ability. Aminobacter sp. CGMCC 1.17253 NHase is a typical cobalt-containing NHase content of subunit α, subunit β, and an accessory protein, and the three-dimensional homology model of NHase was built. Substrate specificity tests showed that NHase catalyzed the conversion of acetamiprid, thiacloprid, indolyl-3-acetonitrile, 3-cyanopyridine, and benzonitrile into their corresponding amides, indicating its broad substrate specificity. This is the first report of the pure bacteria degradation of the sulfoxaflor residual in the environment and reveals the enzymatic mechanism mediated by Aminobacter sp. CGMCC 1.17253.
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Affiliation(s)
- Wen-Long Yang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
| | - Zhi-Ling Dai
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
| | - Xi Cheng
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
| | - Ling Guo
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
| | - Zhi-Xia Fan
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
| | - Feng Ge
- College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of the People's Republic of China, Nanjing 210042, People's Republic of China
| | - Yi-Jun Dai
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Science, Nanjing Normal University, Nanjing 210023, People's Republic of China
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Workneh F, Paetzold L, Silva A, Johnson C, Rashed A, Badillo-Vargas I, Gudmestad NC, Rush CM. Assessments of Temporal Variations in Haplotypes of 'Candidatus Liberibacter solanacearum' and Its Vector, the Potato Psyllid, in Potato Fields and Native Vegetation. Environ Entomol 2018; 47:1184-1193. [PMID: 30020444 DOI: 10.1093/ee/nvy106] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Indexed: 06/08/2023]
Abstract
The potato psyllid, Bactericera cockerelli (Sulc) (Hemiptera: Triozidae), had been known for nearly a century to cause psyllid yellows of solanaceous crops. However, it has only been a decade since the insect was discovered to transmit the bacterium 'Candidatus Liberibacter solanacearum' (Lso), which putatively causes potato zebra chip disease. This project was initiated to quantify temporal incidences of haplotypes of the psyllid (Central, Southwestern, and Western) and Lso (A, B) in potato fields and in native vegetation. Psyllids were collected from native vegetation in Texas (2011-2014), and from potato fields in Texas and New Mexico (2014-2017). Psyllids were tested for Lso and haplotypes of both psyllid and Lso. In Texas, the Central psyllid haplotype was overwhelmingly dominant both in potato fields and in native vegetation regardless of location and time of collection. However, in New Mexico potato fields, although the Southwestern haplotype was overall dominant, the ratios of individual haplotypes varied among years and within a season. The Southwestern psyllid haplotype was greater in incidence than the Central early but declined later in the season in each of the 4 yr, while the Central haplotype was low in incidence early but increased over time. Lso was detected in all three psyllid haplotypes representing the first report in Southwestern psyllid haplotype. In Texas, Lso haplotype A was more frequently detected than B, but in New Mexico the incidence of positive psyllids was not high enough to make definitive conclusions regarding predominant Lso haplotype.
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Affiliation(s)
| | | | | | | | - Arash Rashed
- Entomology Department, University of Idaho, Aberdeen Research and Extension Center, Aberdeen, ID
| | | | - Neil C Gudmestad
- Plant Pathology Department, North Dakota State University, Fargo, ND
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Zamlynska K, Komaniecka I, Zebracki K, Mazur A, Sroka-Bartnicka A, Choma A. Studies on lipid A isolated from Phyllobacterium trifolii PETP02 T lipopolysaccharide. Antonie Van Leeuwenhoek 2017; 110:1413-1433. [PMID: 28409238 PMCID: PMC5644692 DOI: 10.1007/s10482-017-0872-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2017] [Accepted: 04/06/2017] [Indexed: 11/26/2022]
Abstract
The structure of lipid A from lipopolysaccharide of Phyllobacterium trifolii PETP02T, a nitrogen-fixing symbiotic bacterium, was studied. It was found that the lipid A backbone was composed of two 2,3-diamino-2,3-dideoxy-D-glucose (GlcpN3N) residues connected by a β-(1 → 6) glycosidic linkage, substituted by galacturonic acid (GalpA) at position C-1 and partly decorated by a phosphate residue at C-4' of the non-reducing GlcpN3N. Both diaminosugars were symmetrically substituted by 3-hydroxy fatty acids (14:0(3-OH) and 16:0(3-OH)). Ester-linked secondary acyl residues [i.e. 19:0cyc and 28:0(27-OH) or 28:0(27-4:0(3-OMe))] were located in the distal part of lipid A. A high similarity between the lipid A of P. trifolii and Mesorhizobium was observed and discussed from the perspective of the genetic context of both genomes.
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Affiliation(s)
- Katarzyna Zamlynska
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland
| | - Iwona Komaniecka
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland
| | - Kamil Zebracki
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland
| | - Andrzej Mazur
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland
| | - Anna Sroka-Bartnicka
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland
| | - Adam Choma
- Department of Genetics and Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland.
- Department of General Microbiology, Maria Curie-Sklodowska University, Akademicka 19, 20-033, Lublin, Poland.
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T'Syen J, Tassoni R, Hansen L, Sorensen SJ, Leroy B, Sekhar A, Wattiez R, De Mot R, Springael D. Identification of the Amidase BbdA That Initiates Biodegradation of the Groundwater Micropollutant 2,6-dichlorobenzamide (BAM) in Aminobacter sp. MSH1. Environ Sci Technol 2015; 49:11703-13. [PMID: 26308673 DOI: 10.1021/acs.est.5b02309] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
2,6-dichlorobenzamide (BAM) is a recalcitrant groundwater micropollutant that poses a major problem for drinking water production in European countries. Aminobacter sp. MSH1 and related strains have the unique ability to mineralize BAM at micropollutant concentrations but no information exists on the genetics of BAM biodegradation. An amidase-BbdA-converting BAM to 2,6-dichlorobenzoic acid (DCBA) was purified from Aminobacter sp. MSH1. Heterologous expression of the corresponding bbdA gene and its absence in MSH1 mutants defective in BAM degradation, confirmed its BAM degrading function. BbdA shows low amino acid sequence identity with reported amidases and is encoded by an IncP1-β plasmid (pBAM1, 40.6 kb) that lacks several genes for conjugation. BbdA has a remarkably low KM for BAM (0.71 μM) and also shows activity against benzamide and ortho-chlorobenzamide (OBAM). Differential proteomics and transcriptional reporter analysis suggest the constitutive expression of bbdA in MSH1. Also in other BAM mineralizing Aminobacter sp. strains, bbdA and pBAM1 appear to be involved in BAM degradation. BbdA's high affinity for BAM and its constitutive expression are of interest for using strain MSH1 in treatment of groundwater containing micropollutant concentrations of BAM for drinking water production.
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Affiliation(s)
- Jeroen T'Syen
- Division of Soil and Water Management, KU Leuven , Kasteelpark Arenberg 20, 3001 Leuven, Belgium
| | - Raffaella Tassoni
- Division of Soil and Water Management, KU Leuven , Kasteelpark Arenberg 20, 3001 Leuven, Belgium
| | - Lars Hansen
- Department of Biology, University of Copenhagen , Universitetsparken 15, 2100 København, Denmark
| | - Søren J Sorensen
- Department of Biology, University of Copenhagen , Universitetsparken 15, 2100 København, Denmark
| | - Baptiste Leroy
- Department of Proteomics and Microbiology, Research Institute for Biosciences, University of Mons , Place du Parc 20, 7000 Mons, Belgium
| | - Aswini Sekhar
- Division of Soil and Water Management, KU Leuven , Kasteelpark Arenberg 20, 3001 Leuven, Belgium
| | - Ruddy Wattiez
- Department of Proteomics and Microbiology, Research Institute for Biosciences, University of Mons , Place du Parc 20, 7000 Mons, Belgium
| | - René De Mot
- Centre of Microbial and Plant Genetics, KU Leuven , Kasteelpark Arenberg 20, 3001 Leuven, Belgium
| | - Dirk Springael
- Division of Soil and Water Management, KU Leuven , Kasteelpark Arenberg 20, 3001 Leuven, Belgium
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Flores-Félix JD, Silva LR, Rivera LP, Marcos-García M, García-Fraile P, Martínez-Molina E, Mateos PF, Velázquez E, Andrade P, Rivas R. Plants probiotics as a tool to produce highly functional fruits: the case of phyllobacterium and vitamin C in strawberries. PLoS One 2015; 10:e0122281. [PMID: 25874563 PMCID: PMC4398434 DOI: 10.1371/journal.pone.0122281] [Citation(s) in RCA: 84] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2014] [Accepted: 02/13/2015] [Indexed: 01/20/2023] Open
Abstract
The increasing interest in the preservation of the environment and the health of consumers is changing production methods and food consumption habits. Functional foods are increasingly demanded by consumers because they contain bioactive compounds involved in health protection. In this sense biofertilization using plant probiotics is a reliable alternative to the use of chemical fertilizers, but there are few studies about the effects of plant probiotics on the yield of functional fruits and, especially, on the content of bioactive compounds. In the present work we reported that a strain of genus Phyllobacterium able to produce biofilms and to colonize strawberry roots is able to increase the yield and quality of strawberry plants. In addition, the fruits from plants inoculated with this strain have significantly higher content in vitamin C, one of the most interesting bioactive compounds in strawberries. Therefore the use of selected plant probiotics benefits the environment and human health without agronomical losses, allowing the production of highly functional foods.
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Affiliation(s)
| | - Luis R. Silva
- REQUIMTE/, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Porto, Portugal
| | - Lina P. Rivera
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
- Centro Hispano Luso de Investigaciones Agrarias (CIALE), Universidad de Salamanca, Salamanca, Spain
| | - Marta Marcos-García
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
| | - Paula García-Fraile
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
| | - Eustoquio Martínez-Molina
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
- Centro Hispano Luso de Investigaciones Agrarias (CIALE), Universidad de Salamanca, Salamanca, Spain
- Unidad Asociada Universidad de Salamanca-CSIC (IRNASA), Salamanca, Spain
| | - Pedro F. Mateos
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
- Centro Hispano Luso de Investigaciones Agrarias (CIALE), Universidad de Salamanca, Salamanca, Spain
- Unidad Asociada Universidad de Salamanca-CSIC (IRNASA), Salamanca, Spain
| | - Encarna Velázquez
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
- Unidad Asociada Universidad de Salamanca-CSIC (IRNASA), Salamanca, Spain
| | - Paula Andrade
- REQUIMTE/, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Porto, Portugal
| | - Raúl Rivas
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
- Unidad Asociada Universidad de Salamanca-CSIC (IRNASA), Salamanca, Spain
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Corsini A, Zaccheo P, Muyzer G, Andreoni V, Cavalca L. Arsenic transforming abilities of groundwater bacteria and the combined use of Aliihoeflea sp. strain 2WW and goethite in metalloid removal. J Hazard Mater 2014; 269:89-97. [PMID: 24411461 DOI: 10.1016/j.jhazmat.2013.12.037] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2013] [Revised: 12/09/2013] [Accepted: 12/16/2013] [Indexed: 06/03/2023]
Abstract
Several technologies have been developed for lowering arsenic in drinking waters below the World Health Organization limit of 10 μg/L. When in the presence of the reduced form of inorganic arsenic, i.e. arsenite, one options is pre-oxidation of arsenite to arsenate and adsorption on iron-based materials. Microbial oxidation of arsenite is considered a sustainable alternative to the chemical oxidants. In this contest, the present study investigates arsenic redox transformation abilities of bacterial strains in reductive groundwater from Lombardia (Italy), where arsenite was the main arsenic species. Twenty isolates were able to reduce 75 mg/L arsenate to arsenite, and they were affiliated to the genera Pseudomonas, Achromobacter and Rhodococcus and genes of the ars operon were detected. Three arsenite oxidizing strains were isolated: they belonged to Rhodococcus sp., Achromobacter sp. and Aliihoeflea sp., and aioA genes for arsenite oxidase were detected in Aliihoeflea sp. strain 2WW and in Achromobacter sp. strain 1L. Uninduced resting cells of strain 2WW were used in combination with goethite for arsenic removal in a model system, in order to test the feasibility of an arsenic removal process. In the presence of 200 μg/L arsenite, the combined 2WW-goethite system removed 95% of arsenic, thus lowering it to 8 μg/L. These results indicate that arsenite oxidation by strain 2WW combined to goethite adsorption is a promising approach for arsenic removal from contaminated groundwater.
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Affiliation(s)
- Anna Corsini
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy.
| | - Patrizia Zaccheo
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Milano, Italy.
| | - Gerard Muyzer
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy; Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, 1090 GE Amsterdam, The Netherlands.
| | - Vincenza Andreoni
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy.
| | - Lucia Cavalca
- Dipartimento di Scienze per gli Alimenti, la Nutrizione e l'Ambiente (DeFENS), Università degli Studi di Milano, Milano, Italy.
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Sánchez M, Ramírez-Bahena MH, Peix A, Lorite MJ, Sanjuán J, Velázquez E, Monza J. Phyllobacterium loti sp. nov. isolated from nodules of Lotus corniculatus. Int J Syst Evol Microbiol 2013; 64:781-786. [PMID: 24271211 DOI: 10.1099/ijs.0.052993-0] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain S658(T) was isolated from a Lotus corniculatus nodule in a soil sample obtained in Uruguay. Phylogenetic analysis of the 16S rRNA gene and atpD gene showed that this strain clustered within the genus Phyllobacterium. The closest related species was, in both cases, Phyllobacterium trifolii PETP02(T) with 99.8 % sequence similarity in the 16S rRNA gene and 96.1 % in the atpD gene. The 16S rRNA gene contains an insert at the beginning of the sequence that has no similarities with other inserts present in the same gene in described rhizobial species. Ubiquinone Q-10 was the only quinone detected. Strain S658(T) differed from its closest relatives through its growth in diverse culture conditions and in the assimilation of several carbon sources. It was not able to reproduce nodules in Lotus corniculatus. The results of DNA-DNA hybridization, phenotypic tests and fatty acid analyses confirmed that this strain should be classified as a representative of a novel species of the genus Phyllobacterium, for which the name Phyllobacterium loti sp. nov. is proposed. The type strain is S658(T)( = LMG 27289(T) = CECT 8230(T)).
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Affiliation(s)
- Maximo Sánchez
- Laboratorio de Bioquímica, Facultad de Agronomía, Universidad de la República, Montevideo, Uruguay
| | - Martha-Helena Ramírez-Bahena
- Unidad Asociada 'Grupo de Interacción Planta-Microorganismo', Universidad de Salamanca-IRNASA (CSIC), Spain
- Departamento de Desarrollo Sostenible de Sistemas Agroforestales y Ganaderos, Instituto de Recursos Naturales y Agrobiología, IRNASA, CSIC, Salamanca, Spain
| | - Alvaro Peix
- Unidad Asociada 'Grupo de Interacción Planta-Microorganismo', Universidad de Salamanca-IRNASA (CSIC), Spain
- Departamento de Desarrollo Sostenible de Sistemas Agroforestales y Ganaderos, Instituto de Recursos Naturales y Agrobiología, IRNASA, CSIC, Salamanca, Spain
| | - María J Lorite
- Departamento de Desarrollo Sostenible de Sistemas Agroforestales y Ganaderos, Instituto de Recursos Naturales y Agrobiología, IRNASA, CSIC, Salamanca, Spain
| | - Juan Sanjuán
- Departamento de Microbiología del Suelo y Sistemas Simbióticos, Estación Experimental del Zaidín, CSIC, Granada, Spain
| | - Encarna Velázquez
- Departamento de Microbiología y Genética, Facultad de Farmacia, Universidad de Salamanca, Salamanca, Spain
- Unidad Asociada 'Grupo de Interacción Planta-Microorganismo', Universidad de Salamanca-IRNASA (CSIC), Spain
| | - Jorge Monza
- Laboratorio de Bioquímica, Facultad de Agronomía, Universidad de la República, Montevideo, Uruguay
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Flores-Félix JD, Carro L, Velázquez E, Valverde Á, Cerda-Castillo E, García-Fraile P, Rivas R. Phyllobacterium endophyticum sp. nov., isolated from nodules of Phaseolus vulgaris. Int J Syst Evol Microbiol 2012; 63:821-826. [PMID: 22611197 DOI: 10.1099/ijs.0.038497-0] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A strain, PEPV15(T), was isolated from a nodule on Phaseolus vulgaris grown in soil in northern Spain. Phylogenetic analyses of 16S rRNA and atpD genes showed that this strain belongs to the genus Phyllobacterium. The most closely related species were, in both cases, Phyllobacterium brassicacearum, Phyllobacterium bourgognense and Phyllobacterium trifolii, the type strains of which gave sequence similarities of 98.9, 98.6 and 98.4 %, respectively, in the 16S rRNA gene and 88.1, 87.5 and 88.7 %, respectively, in the atpD gene. PEPV15(T) contained Q-10 as the major quinone (88 %) and low amounts of Q-9 (12 %). It differed from its closest relatives in its growth in diverse culture conditions and in the assimilation of several carbon sources. The strain was not able to produce nodules in Phaseolus vulgaris. The results of DNA-DNA hybridization, phenotypic tests and fatty acid analyses confirmed that this strain represents a novel species of the genus Phyllobacterium for which the name Phyllobacterium endophyticum sp. nov. is proposed; the type strain is PEPV15(T) ( = LMG 26470(T) = CECT 7949(T)). An emended description of the genus Phyllobacterium is also provided.
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Affiliation(s)
| | - Lorena Carro
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
| | - Encarna Velázquez
- Unidad Asociada Universidad de Salamanca, IRNASA (CSIC), Salamanca, Spain
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
| | - Ángel Valverde
- Instituto de Recursos Naturales y Agrobiología, IRNASA CSIC, Salamanca, Spain
- Unidad Asociada Universidad de Salamanca, IRNASA (CSIC), Salamanca, Spain
| | | | - Paula García-Fraile
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
| | - Raúl Rivas
- Unidad Asociada Universidad de Salamanca, IRNASA (CSIC), Salamanca, Spain
- Departamento de Microbiología y Genética, Universidad de Salamanca, Salamanca, Spain
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Baĭmiev AK, Ivanova ES, Ptitsyn KG, Belimov AA, Safronova VI, Baĭmiev AK. [Genetic characterization of wild leguminous nodular bacteria living in the South Urals]. Mol Gen Mikrobiol Virusol 2012:29-34. [PMID: 22702142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Genetic diversity and phylogeny of rhizobia that nodulate 18 species of wild-growing bean plants of South Urals from 8 genera belonging to 4 tribes (Loteae, Genisteae, Galegeaev and Hedysareae) was studied. It was demonstrated that for the wild-growing plants of Galegeae and Hedysareae tribes symbiotic interaction with various strains of nodule bacteria that closely related to bacteria of Mesorhizobium sp. was typical of the plants of Genisteae tribe--to bacteria of Bradyrhizobium sp. In the nodules of Lortus ucrainicus from Loteae tribe we have found a rhizobium that is closely related to the bacteria of Mesorhizobium sp., and at Coronilla varia rhizobia strains obtained by us were close by sequence of a 16S pRNA gene to Rhizobium sp. In the nodules of some kinds of the investigated plants we found also minor species of a rhizobia, which structure is under the great influence of conditions of the host plant growth.
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Baĭmiev AK, Iamidanov RS, Matniiazov RT, Blagova DK, Baĭmiev AK, Chemeris AV. [Obtaining of fluorescent-labeled nodule bacteria strains of wild legumes for their detection in vive and in vitro]. Mol Biol (Mosk) 2011; 45:984-91. [PMID: 22295568] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
A series of expression vectors containing genes of fluorescent proteins TurboGFP and TurboRFP under the phage T5 constitutive promoter regulation, intended for lifetime marking of nodule bacteria is created: a series of vectors based on a broad-host-range replicon BBRI, for marking strains with an expression of reporter gene from a transformed plasmid and a series of vectors based on a plasmid pRL765gfp for marking strains by introduction genes of fluorescent proteins in a bacterial chromosome. It was shown that transformation is the most preferable method of constructions transfer in nodule bacteria cells, as in the presence of mob locus in the vectors necessary for conjugation, exists the possibility of occasional plasmid mobilization and its transition from marked strain cells in other soil bacteria. With application of the created vector constructions we obtained fluorescent tagged strains of Rhizobium sp., Mesorhizobium sp., Ensifer (Sinorhizobium) sp., Bradyrhizobium sp., Phyllobacterium sp., Agrobacterium sp. Also their suitability for experiments in vivo and in vitro is shown.
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Baĭmiev AK, Ivanova ES, Ptitsyn KG, Chubukova OV, Baĭmiev AK. [Phylogenetic analysis of symbiotic genes of nodule bacteria in the plants of the genus Lathyrus (L.) (Fabaceae)]. Mol Gen Mikrobiol Virusol 2011:14-17. [PMID: 22312895] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The comparative analysis of the symbiotic genes nifD, nifH, nodA of wild-growing Lathyrus L. species (Fabaceae) connected by genes sequences of 16S aRNA to Rhizobium leguminosarum bv. viceae, Rhizobium tropici, Agrobacterium sp., and Phyllobacterium sp. was carried out. It was demonstrated that all tested genes of strains taken for analysis had high degree of homology with analogous genes of Rhizobium leguminosarum bv. viceae. It was suggested that symbiotic genes were introduced into Rhizobium tropici, Agrobacterium sp., and Phyllobacterium sp. strains by means of horizontal gene transfer over from Rhizobium leguminosarum bv. viceae strain. The recombinant strains were formed, capable to nodulate Lathyrus L. species that earlier was not considered characteristic for these plants.
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