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Ma Z, Yang X, Sheng J. WLIP, WLIPβ, and WLIPγ Produced from Pseudomonas canadensis Q3-1 via Precursor-Directed Biosynthesis and Their Roles on Biocontrol of Phytophthora Blight in Peppers. J Agric Food Chem 2024; 72:4063-4073. [PMID: 38364207 DOI: 10.1021/acs.jafc.3c07360] [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] [Subscribe] [Scholar Register] [Indexed: 02/18/2024]
Abstract
White line-inducing principle (WLIP, 1), together with two new cyclic lipopeptides (CLPs) WLIPβ (2) and WLIPγ (3), were characterized from the supernatant of Pseudomonas canadensis Q3-1 via precursor-directed biosynthesis (PDB) in the current study. They were purified from the supernatant of P. canadensis Q3-1 by solid-phase extraction (SPE) and high-performance liquid chromatography (HPLC), and their structures were mainly determined via bioinformatic analyses, spectrometric and spectroscopic techniques, as well as single crystal X-ray diffraction (XRD). These WLIPs share (R)-3-hydroxydecanoic acid (HDA), but they differ from each other in the composition of peptidic sequences. In addition, these CLPs showed biocontrol activities against Phytophthora blight (caused by Phytophthora capsici) in peppers. Collectively, this study has shown that PDB could be used for generating new CLPs in Pseudomonas spp. Moreover, we have confirmed that WLIP, WLIPβ, and WLIPγ could be used as lead agrochemicals to control Phytophthora blight in peppers.
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Affiliation(s)
- Zongwang Ma
- College of Life Science, Northwest Normal University, East Anning Road 967, Lanzhou 730070, China
| | - Xiao Yang
- College of Life Science, Northwest Normal University, East Anning Road 967, Lanzhou 730070, China
| | - Jun Sheng
- College of Life Science, Northwest Normal University, East Anning Road 967, Lanzhou 730070, China
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Suenaga M, Katayama N, Kitamura K, Kai K. Structures and Biosynthesis of Caryoynencins, Unstable Bacterial Polyynes from Pseudomonas protegens Recombinant Expressing the cayG Gene. J Org Chem 2023; 88:16280-16291. [PMID: 37947517 DOI: 10.1021/acs.joc.3c01789] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [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: 11/12/2023]
Abstract
Bacteria in certain genera can produce "bacterial polyynes" that contain a conjugated C≡C bond starting from a terminal alkyne. Protegenin A is a derivative of octadecanoic acid that contains an ene-tetrayne moiety. It was discovered in Pseudomonas protegens Cab57 and exhibits strong antioomycete and moderate antifungal activity. By introducing cayG, a cytochrome P450 gene from Burkholderia caryophylli, into P. protegens Cab57, protegenin A was converted into more complex polyynes, caryoynencins A-E. A purification method that minimized the degradation and isomerization of caryoynencins was established. For the first time, as far as we know, the 1H and 13C{1H} NMR signals of caryoynencins were completely assigned by analyzing the NMR data of the isolated compounds and protegenin A enriched with [1-13C]- or [2-13C]-acetate. Through the structural analysis of caryoynencins D/E and bioconversion experiments, we observed that CayG constructs the allyl alcohol moiety of caryoynencins A-C through sequential hydroxylation, dehydration, and hydroxylation. The recombinant strain exhibited a stronger antioomycete activity compared to the wild-type strain. This paper proposes a stable purification and structural determination method for various bacterial polyynes, and P. protegens Cab57 holds promise as an engineering host for the production of biologically active polyynes.
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Affiliation(s)
- Mayuna Suenaga
- Graduate School of Agriculture, Osaka Metropolitan University, 1-1 Gakuen-cho, Naka-ku, Sakai, Osaka 599-8531, Japan
| | - Naoka Katayama
- Graduate School of Agriculture, Osaka Metropolitan University, 1-1 Gakuen-cho, Naka-ku, Sakai, Osaka 599-8531, Japan
| | - Kokoro Kitamura
- Graduate School of Agriculture, Osaka Metropolitan University, 1-1 Gakuen-cho, Naka-ku, Sakai, Osaka 599-8531, Japan
| | - Kenji Kai
- Graduate School of Agriculture, Osaka Metropolitan University, 1-1 Gakuen-cho, Naka-ku, Sakai, Osaka 599-8531, Japan
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Ai Y, Wang B, Xiao S, Luo S, Wang Y. Tryptophan Side-Chain Oxidase Enzyme Suppresses Hepatocellular Carcinoma Growth through Degradation of Tryptophan. Int J Mol Sci 2021; 22:ijms222212428. [PMID: 34830310 PMCID: PMC8623686 DOI: 10.3390/ijms222212428] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Revised: 11/15/2021] [Accepted: 11/16/2021] [Indexed: 01/08/2023] Open
Abstract
Tryptophan metabolism plays a role in the occurrence and development of hepatocellular carcinoma cells. By degrading certain amino acids, tumor growth can be limited while maintaining the body’s normal nutritional requirements. Tryptophan side-chain oxidase (TSO) enzyme can degrade tryptophan, and its inhibitory effect on hepatocellular carcinoma cells is worthy of further study. To investigate the degradation effect on tryptophan, TSO was isolated and purified from qq Pseudomonas. The reaction products were identified with high performance liquid chromatography (HPLC) and high-performance liquid chromatography tandem mass spectrometry (HPLC-MS). De novo sequencing provided the complete amino acid sequence of TSO. The results of CCK-8, colony formation, transwell, and qPCR confirmed that TSO had inhibitory effects on the proliferation and migration of HCCLM3 (human hepatocarcinoma cell line) and HepG2 cells. The results of flow cytometry confirmed its apoptotic activity. In animal experiments, we found that the tumor-suppressive effect was better in the oncotherapy group than the intraperitoneal injection group. The results of immunohistochemistry also suggested that TSO could inhibit proliferation and promote apoptosis. In conclusion, a specific enzyme that can degrade tryptophan and inhibit the growth of hepatoma cells was authenticated, and its basic information was obtained by extraction/purification and amino acid sequencing.
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Affiliation(s)
| | | | | | | | - Yefu Wang
- Correspondence: ; Tel.: +86-13907185508
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Zubkov IN, Nepomnyshchiy AP, Kondratyev VD, Sorokoumov PN, Sivak KV, Ramsay ES, Shishlyannikov SM. Adaptation of Pseudomonas helmanticensis to fat hydrolysates and SDS: fatty acid response and aggregate formation. J Microbiol 2021; 59:1104-1111. [PMID: 34697784 DOI: 10.1007/s12275-021-1214-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 04/21/2021] [Revised: 09/09/2021] [Accepted: 09/10/2021] [Indexed: 01/15/2023]
Abstract
An essential part of designing any biotechnological process is examination of the physiological state of producer cells in different phases of cultivation. The main marker of a bacterial cell's state is its fatty acid (FA) profile, reflecting membrane lipid composition. Consideration of FA composition enables assessment of bacterial responses to cultivation conditions and helps biotechnologists understand the most significant factors impacting cellular metabolism. In this work, soil SDS-degrading Pseudomonas helmanticensis was studied at the fatty acid profile level, including analysis of rearrangement between planktonic and aggregated forms. The set of substrates included fat hydrolysates, SDS, and their mixtures with glucose. Such media are useful in bioplastic production since they can help incrementally lower overall costs. Conventional gas chromatography-mass spectrometry was used for FA analysis. Acridine orange-stained aggregates were observed by epifluorescence microscopy. The bacterium was shown to change fatty acid composition in the presence of hydrolyzed fats or SDS. These changes seem to be driven by the depletion of metabolizable substrates in the culture medium. Cell aggregation has also been found to be a defense strategy, particularly with anionic surfactant (SDS) exposure. It was shown that simple fluidity indices (such as saturated/unsaturated FA ratios) do not always sufficiently characterize a cell's physiological state, and morphological examination is essential in cases where complex carbon sources are used.
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Affiliation(s)
- Ilya N Zubkov
- All-Russian Research Institute for Food Additives, Branch of V. M. Gorbatov Federal Research Center for Food Systems (RAS), 55 Liteyny Prospekt, Saint Petersburg, 191014, Russia.
| | - Anatoly P Nepomnyshchiy
- All-Russian Research Institute for Food Additives, Branch of V. M. Gorbatov Federal Research Center for Food Systems (RAS), 55 Liteyny Prospekt, Saint Petersburg, 191014, Russia
| | - Vadim D Kondratyev
- All-Russian Research Institute for Food Additives, Branch of V. M. Gorbatov Federal Research Center for Food Systems (RAS), 55 Liteyny Prospekt, Saint Petersburg, 191014, Russia
| | - Pavel N Sorokoumov
- All-Russian Research Institute for Food Additives, Branch of V. M. Gorbatov Federal Research Center for Food Systems (RAS), 55 Liteyny Prospekt, Saint Petersburg, 191014, Russia
| | - Konstantin V Sivak
- Smorodintsev Research Institute of Influenza, 15/17 Ulitsa Professora Popova, Saint Petersburg, 4197022, Russia
| | - Edward S Ramsay
- Smorodintsev Research Institute of Influenza, 15/17 Ulitsa Professora Popova, Saint Petersburg, 4197022, Russia
| | - Sergey M Shishlyannikov
- All-Russian Research Institute for Food Additives, Branch of V. M. Gorbatov Federal Research Center for Food Systems (RAS), 55 Liteyny Prospekt, Saint Petersburg, 191014, Russia
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Marjanovic A, Rozeboom HJ, de Vries MS, Mayer C, Otzen M, Wijma HJ, Janssen DB. Catalytic and structural properties of ATP-dependent caprolactamase from Pseudomonas jessenii. Proteins 2021; 89:1079-1098. [PMID: 33826169 PMCID: PMC8453981 DOI: 10.1002/prot.26082] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [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: 11/24/2020] [Revised: 03/04/2021] [Accepted: 03/22/2021] [Indexed: 12/14/2022]
Abstract
Caprolactamase is the first enzyme in the caprolactam degradation pathway of Pseudomonas jessenii. It is composed of two subunits (CapA and CapB) and sequence-related to other ATP-dependent enzymes involved in lactam hydrolysis, like 5-oxoprolinases and hydantoinases. Low sequence similarity also exists with ATP-dependent acetone- and acetophenone carboxylases. The caprolactamase was produced in Escherichia coli, isolated by His-tag affinity chromatography, and subjected to functional and structural studies. Activity toward caprolactam required ATP and was dependent on the presence of bicarbonate in the assay buffer. The hydrolysis product was identified as 6-aminocaproic acid. Quantum mechanical modeling indicated that the hydrolysis of caprolactam was highly disfavored (ΔG0 '= 23 kJ/mol), which explained the ATP dependence. A crystal structure showed that the enzyme exists as an (αβ)2 tetramer and revealed an ATP-binding site in CapA and a Zn-coordinating site in CapB. Mutations in the ATP-binding site of CapA (D11A and D295A) significantly reduced product formation. Mutants with substitutions in the metal binding site of CapB (D41A, H99A, D101A, and H124A) were inactive and less thermostable than the wild-type enzyme. These residues proved to be essential for activity and on basis of the experimental findings we propose possible mechanisms for ATP-dependent lactam hydrolysis.
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Affiliation(s)
- Antonija Marjanovic
- Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute (GBB)University of GroningenGroningenThe Netherlands
| | - Henriëtte J. Rozeboom
- Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute (GBB)University of GroningenGroningenThe Netherlands
| | - Meintje S. de Vries
- Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute (GBB)University of GroningenGroningenThe Netherlands
| | - Clemens Mayer
- Biomolecular Chemistry and Catalysis, Stratingh Institute for ChemistryUniversity of GroningenGroningenThe Netherlands
| | - Marleen Otzen
- Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute (GBB)University of GroningenGroningenThe Netherlands
| | | | - Dick B. Janssen
- Biotransformation and Biocatalysis, Groningen Biomolecular Sciences and Biotechnology Institute (GBB)University of GroningenGroningenThe Netherlands
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Liu C, Li B, Liu C, Li M, Zhou Z. Analysis of single-cell microbial mass spectra profiles from single-particle aerosol mass spectrometry. Rapid Commun Mass Spectrom 2021; 35:e9069. [PMID: 33634499 DOI: 10.1002/rcm.9069] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Revised: 01/13/2021] [Accepted: 02/06/2021] [Indexed: 06/12/2023]
Abstract
RATIONALE Single-particle aerosol mass spectrometry is a practical method for studying microbial aerosols. However, the related mass spectral characteristics of single-cell microorganisms have not yet been studied systematically; hence, further investigations are necessary. METHODS Different microbial cells were grown and directly aerosolized in the laboratory. These aerosols were then drawn into a single-particle mass spectrometer platform, and single-cell mass spectra profiles were obtained in real-time. The biological characteristics, ion variation trends, and microbial types were analyzed with either laser pulse energy or laser fluence. RESULTS The single-particle mass spectra contained prominent peaks that could be attributed to the presence of biological matter, such as organic phosphate and nitrogen, amino acids, and spore-associated calcium complexes. Limited types of average mass spectral patterns were present, and a significant correlation was found between the ion intensity trend (presence and absence of peaks) and laser ionization energy (expressed by the total positive ion intensity). Although a single spectral data point does not contain all the peaks of the average spectrum, it covers most of the characteristic peaks and could be identified using a machine learning algorithm. After the analysis of single-particle mass spectra, we found that using multi-group features (e.g., peak intensity ratio of m/z +47 and +41, peak intensity ratio of 59 N(CH3 )3 + and 74 N(CH3 )4 + , and 12 peak variables) led to an identification accuracy of approximately 92.4% with the random forest algorithm. CONCLUSIONS The results indicate that single-cell mass spectral profiles can be used to distinguish microbial aerosols and further illustrate their origin in a laboratory setting.
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Affiliation(s)
- Chaowu Liu
- Institute of Mass Spectrometer and Atmospheric Environment, Guangdong Provincial Engineering Research Center for On-Line Source Apportionment System of Air Pollution, Jinan University, Guangzhou, 510632, China
- Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality, Guangzhou, 510632, China
- Guangdong Detection Center of Microbiology, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Boning Li
- Department of Cardiology, Department of Neurology, and Department of Pediatric Research, Shenzhen Children's Hospital, Shenzhen, 518038, China
| | - Cong Liu
- Department of Cardiology, Department of Neurology, and Department of Pediatric Research, Shenzhen Children's Hospital, Shenzhen, 518038, China
| | - Mei Li
- Institute of Mass Spectrometer and Atmospheric Environment, Guangdong Provincial Engineering Research Center for On-Line Source Apportionment System of Air Pollution, Jinan University, Guangzhou, 510632, China
- Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality, Guangzhou, 510632, China
| | - Zhen Zhou
- Institute of Mass Spectrometer and Atmospheric Environment, Guangdong Provincial Engineering Research Center for On-Line Source Apportionment System of Air Pollution, Jinan University, Guangzhou, 510632, China
- Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality, Guangzhou, 510632, China
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Shen X, Hua Y, Luo Y, Zhang T, Jiang B, Shuai Y. Permeabilization and immobilization of whole-cell Pseudomonas nitroreducens SP.001 to improve its l-glutaminase performance. J Sci Food Agric 2021; 101:1301-1306. [PMID: 32790072 DOI: 10.1002/jsfa.10736] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 05/20/2020] [Revised: 07/13/2020] [Accepted: 08/13/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND L-Glutaminase is considered to be an important industrial enzyme in both the pharmaceutical and food industries, especially for producing functional glutamyl compounds, such as l-theanine. Pseudomonas nitroreducens SP.001 with intracellular l-glutaminase activity has been screened previously. In the present study, three physical permeabilization methods were used to improve l-glutaminase activity. Then, the whole-cell immobilization conditions of permeabilized cells using sodium alginate as an embedding agent were optimized to enhance the enzyme's stability and reusability. The characteristics of the immobilized cells were investigated in comparison with those of permeabilized cells. RESULTS The results obtained showed that cell permeabilization using osmotic shock with 155 g L-1 sucrose markedly improved enzyme activity. Then, an effective procedure for immobilization of permeabilized P. nitroreducens cells was established. The optimum conditions for cell immobilization were: sodium alginate 40 g L-1 , calcium chloride 30 g L-1 , cell mass 100 g L-1 and a curing time of 3 h. After successful immobilization, characterization studies revealed that the thermostability and pH resistance of l-glutaminase from immobilized cells were enhanced compared to those from permeabilized cells. Moreover, the immobilized biocatalyst could be reused up to 10 times and retained 80% of its activity. CONCLUSION The stability and reusability of the permeabilized cells were improved through the immobilization. These findings indicated that immobilized whole-cell l-glutaminase from P. nitroreducens SP.001 possesses more potential for various industrial biotechnological applications than free cells. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Xinlei Shen
- College of Pharmaceutical Science, Zhejiang Chinese Medical University, Hangzhou, China
| | - Ying Hua
- College of Pharmaceutical Science, Zhejiang Chinese Medical University, Hangzhou, China
| | - Yejiao Luo
- College of Pharmaceutical Science, Zhejiang Chinese Medical University, Hangzhou, China
| | - Tao Zhang
- School of Food Science and Technology, Jiangnan University, Wuxi, China
| | - Bo Jiang
- School of Food Science and Technology, Jiangnan University, Wuxi, China
| | - Yuying Shuai
- College of Pharmaceutical Science, Zhejiang Chinese Medical University, Hangzhou, China
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Kirchner N, Cano-Prieto C, Schulz-Fincke AC, Gütschow M, Ortlieb N, Moschny J, Niedermeyer THJ, Horak J, Lämmerhofer M, van der Voort M, Raaijmakers JM, Gross H. Discovery of Thanafactin A, a Linear, Proline-Containing Octalipopeptide from Pseudomonas sp. SH-C52, Motivated by Genome Mining. J Nat Prod 2021; 84:101-109. [PMID: 33382250 DOI: 10.1021/acs.jnatprod.0c01174] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Genome mining of the bacterial strains Pseudomonas sp. SH-C52 and Pseudomonas fluorescens DSM 11579 showed that both strains contained a highly similar gene cluster encoding an octamodular nonribosomal peptide synthetase (NRPS) system which was not associated with a known secondary metabolite. Insertional mutagenesis of an NRPS component followed by comparative profiling led to the discovery of the corresponding novel linear octalipopeptide thanafactin A, which was subsequently isolated and its structure determined by two-dimensional NMR and further spectroscopic and chromatographic methods. In bioassays, thanafactin A exhibited weak protease inhibitory activity and was found to modulate swarming motility in a strain-specific manner.
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Affiliation(s)
- Norbert Kirchner
- Pharmaceutical Institute, Department of Pharmaceutical Biology, University of Tübingen, 72076 Tübingen, Germany
| | - Carolina Cano-Prieto
- Pharmaceutical Institute, Department of Pharmaceutical Biology, University of Tübingen, 72076 Tübingen, Germany
| | | | - Michael Gütschow
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, 53121 Bonn, Germany
| | - Nico Ortlieb
- Department of Microbiology and Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Eberhard Karls University Tübingen, 72076 Tübingen, Germany
- German Centre for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany
| | - Julia Moschny
- Department of Microbiology and Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Eberhard Karls University Tübingen, 72076 Tübingen, Germany
| | - Timo H J Niedermeyer
- Department of Microbiology and Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Eberhard Karls University Tübingen, 72076 Tübingen, Germany
- German Centre for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany
| | - Jeannie Horak
- Pharmaceutical Institute, Department of Pharmaceutical Analysis and Bioanalysis, University of Tübingen, 72076 Tübingen, Germany
- Dr. von Hauner Children's Hospital, Department of Metabolic and Nutritional Medicine, University of Munich Medical Center, Campus Innenstadt, 80337 Muenchen, Germany
| | - Michael Lämmerhofer
- Pharmaceutical Institute, Department of Pharmaceutical Analysis and Bioanalysis, University of Tübingen, 72076 Tübingen, Germany
| | - Menno van der Voort
- Laboratory of Phytopathology, Wageningen University, Wageningen, Netherlands
| | - Jos M Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
- Institute of Biology, Leiden University, Leiden, The Netherlands
| | - Harald Gross
- Pharmaceutical Institute, Department of Pharmaceutical Biology, University of Tübingen, 72076 Tübingen, Germany
- German Centre for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany
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Kügler S, Cooper RE, Boessneck J, Küsel K, Wichard T. Rhizobactin B is the preferred siderophore by a novel Pseudomonas isolate to obtain iron from dissolved organic matter in peatlands. Biometals 2020; 33:415-433. [PMID: 33026607 PMCID: PMC7676072 DOI: 10.1007/s10534-020-00258-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [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: 05/17/2020] [Accepted: 09/30/2020] [Indexed: 01/12/2023]
Abstract
Bacteria often release diverse iron-chelating compounds called siderophores to scavenge iron from the environment for many essential biological processes. In peatlands, where the biogeochemical cycle of iron and dissolved organic matter (DOM) are coupled, bacterial iron acquisition can be challenging even at high total iron concentrations. We found that the bacterium Pseudomonas sp. FEN, isolated from an Fe-rich peatland in the Northern Bavarian Fichtelgebirge (Germany), released an unprecedented siderophore for its genus. High-resolution mass spectrometry (HR-MS) using metal isotope-coded profiling (MICP), MS/MS experiments, and nuclear magnetic resonance spectroscopy (NMR) identified the amino polycarboxylic acid rhizobactin and a novel derivative at even higher amounts, which was named rhizobactin B. Interestingly, pyoverdine-like siderophores, typical for this genus, were not detected. With peat water extract (PWE), studies revealed that rhizobactin B could acquire Fe complexed by DOM, potentially through a TonB-dependent transporter, implying a higher Fe binding constant of rhizobactin B than DOM. The further uptake of Fe-rhizobactin B by Pseudomonas sp. FEN suggested its role as a siderophore. Rhizobactin B can complex several other metals, including Al, Cu, Mo, and Zn. The study demonstrates that the utilization of rhizobactin B can increase the Fe availability for Pseudomonas sp. FEN through ligand exchange with Fe-DOM, which has implications for the biogeochemical cycling of Fe in this peatland.
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Affiliation(s)
- Stefan Kügler
- Institute for Inorganic and Analytical Chemistry (IAAC), Friedrich Schiller University Jena, 07743, Jena, Germany
- Institute of Biodiversity, Friedrich Schiller University Jena, 07743, Jena, Germany
| | - Rebecca E Cooper
- Institute of Biodiversity, Friedrich Schiller University Jena, 07743, Jena, Germany
| | - Johanna Boessneck
- Institute for Inorganic and Analytical Chemistry (IAAC), Friedrich Schiller University Jena, 07743, Jena, Germany
- Institute of Biodiversity, Friedrich Schiller University Jena, 07743, Jena, Germany
| | - Kirsten Küsel
- Institute of Biodiversity, Friedrich Schiller University Jena, 07743, Jena, Germany
- The German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, 04103, Leipzig, Germany
| | - Thomas Wichard
- Institute for Inorganic and Analytical Chemistry (IAAC), Friedrich Schiller University Jena, 07743, Jena, Germany.
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Froning M, Helmer PO, Hayen H. Identification and structural characterization of lipid A from Escherichia coli, Pseudomonas putida and Pseudomonas taiwanensis using liquid chromatography coupled to high-resolution tandem mass spectrometry. Rapid Commun Mass Spectrom 2020; 34:e8897. [PMID: 32673427 DOI: 10.1002/rcm.8897] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Revised: 07/06/2020] [Accepted: 07/11/2020] [Indexed: 06/11/2023]
Abstract
RATIONALE Lipid A is a part of the lipopolysaccharide layer, which is a main component of the outer membrane from Gram-negative bacteria. It can be sensed by mammalians to identify the presence of Gram-negative bacteria in their tissues and plays a key role in the pathogenesis of bacterial infections. Lipid A is also used as an adjuvant in human vaccines, emphasizing the importance of its structural analysis. METHODS In order to distinguish and characterize various lipid A species, a liquid chromatography coupled to tandem mass spectrometry (LC/MS/MS) method was developed. Isolation of lipid A from different bacteria was carried out using a modified Bligh and Dyer extraction following a mild acid hydrolysis. Chromatography was performed using a bifunctional reversed-phase-based stationary phase. High-resolution MS using negative electrospray ionization was applied and MS/MS experiments utilizing high-energy collisional dissociation generated diagnostic product ions, which allowed the assignment of the side chains to distinct positions of the lipid A backbone. RESULTS The method was applied to lipid A isolations of Escherichia coli (E. coli), Pseudomonas putida (P. putida) and Pseudomonas taiwanensis (P. taiwanensis). Various lipid A species were identified by their accurate masses and their structures were characterized using MS/MS experiments. Previously described lipid A structures from E. coli were identified and their structures confirmed by MS/MS. For the biotechnologically relevant strains P. putida and P. taiwanensis, we confirmed species by MS/MS, which have previously only been analyzed using MS. In addition, several lipid A species were discovered that have not been previously described in the literature. CONCLUSIONS The combination of LC and MS/MS enabled the selective and sensitive identification and structural characterization of various lipid A species from Gram-negative bacteria. These species varied in their substituted side chains, speaking of fatty acids and phosphate groups. Characteristic product ions facilitated the assignment of side chains to distinct positions of the lipid A backbone.
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Affiliation(s)
- Matti Froning
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstraße 30, Münster, 48149, Germany
| | - Patrick O Helmer
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstraße 30, Münster, 48149, Germany
| | - Heiko Hayen
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstraße 30, Münster, 48149, Germany
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Christensen LFB, Nowak JS, Sønderby TV, Frank SA, Otzen DE. Quantitating denaturation by formic acid: imperfect repeats are essential to the stability of the functional amyloid protein FapC. J Biol Chem 2020; 295:13031-13046. [PMID: 32719003 PMCID: PMC7489911 DOI: 10.1074/jbc.ra120.013396] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 07/11/2020] [Indexed: 12/27/2022] Open
Abstract
Bacterial functional amyloids are evolutionarily optimized to aggregate, so much so that the extreme robustness of functional amyloid makes it very difficult to examine their structure-function relationships in a detailed manner. Previous work has shown that functional amyloids are resistant to conventional chemical denaturants, but they dissolve in formic acid (FA) at high concentrations. However, systematic investigation requires a quantitative analysis of FA's ability to denature proteins. Amyloid formed by Pseudomonas sp. protein FapC provides an excellent model to investigate FA denaturation. It contains three imperfect repeats, and stepwise removal of these repeats slows fibrillation and increases fragmentation during aggregation. However, the link to stability is unclear. We first calibrated FA denaturation using three small, globular, and acid-resistant proteins. This revealed a linear relationship between the concentration of FA and the free energy of unfolding with a slope of mFA+pH (the combined contribution of FA and FA-induced lowering of pH), as well as a robust correlation between protein size and mFA+pH We then measured the solubilization of fibrils formed from different FapC variants with varying numbers of repeats as a function of the concentration of FA. This revealed a decline in the number of residues driving amyloid formation upon deleting at least two repeats. The midpoint of denaturation declined with the removal of repeats. Complete removal of all repeats led to fibrils that were solubilized at FA concentrations 2-3 orders of magnitude lower than the repeat-containing variants, showing that at least one repeat is required for the stability of functional amyloid.
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Affiliation(s)
| | - Jan Stanislaw Nowak
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Aarhus C, Denmark
| | | | - Signe Andrea Frank
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Aarhus C, Denmark
| | - Daniel Erik Otzen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Aarhus C, Denmark.
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12
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Cai S, Pan H, González-Vila Á, Guo T, Gillan DC, Wattiez R, Caucheteur C. Selective detection of cadmium ions using plasmonic optical fiber gratings functionalized with bacteria. Opt Express 2020; 28:19740-19749. [PMID: 32672244 DOI: 10.1364/oe.397505] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Environmental monitoring and potable water control are key applications where optical fiber sensing solutions can outperform other technologies. In this work, we report a highly sensitive plasmonic fiber-optic probe that has been developed to determine the concentration of cadmium ions (Cd2+) in solution. This original sensor was fabricated by immobilizing the Acinetobacter sp. around gold-coated tilted fiber Bragg gratings (TFBGs). To this aim, the immobilization conditions of bacteria on the gold-coated optical fiber surface were first experimentally determined. Then, the coated sensors were tested in vitro. The relative intensity of the sensor response experienced a change of 1.1 dB for a Cd2+ concentration increase from 0.1 to 1000 ppb. According to our test procedure, we estimate the experimental limit of detection to be close to 1 ppb. Cadmium ions strongly bind to the sensing surface, so the sensor exhibits a much higher sensitivity to Cd2+ than to other heavy metal ions such as Pb2+, Zn2+ and CrO42- found in contaminated water, which ensures a good selectivity.
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13
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Jensen JL, Jernberg BD, Sinha SC, Colbert CL. Structural basis of cell-surface signaling by a conserved sigma regulator in Gram-negative bacteria. J Biol Chem 2020; 295:5795-5806. [PMID: 32107313 PMCID: PMC7186176 DOI: 10.1074/jbc.ra119.010697] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [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: 08/19/2019] [Revised: 02/23/2020] [Indexed: 01/07/2023] Open
Abstract
Cell-surface signaling (CSS) in Gram-negative bacteria involves highly conserved regulatory pathways that optimize gene expression by transducing extracellular environmental signals to the cytoplasm via inner-membrane sigma regulators. The molecular details of ferric siderophore-mediated activation of the iron import machinery through a sigma regulator are unclear. Here, we present the 1.56 Å resolution structure of the periplasmic complex of the C-terminal CSS domain (CCSSD) of PupR, the sigma regulator in the Pseudomonas capeferrum pseudobactin BN7/8 transport system, and the N-terminal signaling domain (NTSD) of PupB, an outer-membrane TonB-dependent transducer. The structure revealed that the CCSSD consists of two subdomains: a juxta-membrane subdomain, which has a novel all-β-fold, followed by a secretin/TonB, short N-terminal subdomain at the C terminus of the CCSSD, a previously unobserved topological arrangement of this domain. Using affinity pulldown assays, isothermal titration calorimetry, and thermal denaturation CD spectroscopy, we show that both subdomains are required for binding the NTSD with micromolar affinity and that NTSD binding improves CCSSD stability. Our findings prompt us to present a revised model of CSS wherein the CCSSD:NTSD complex forms prior to ferric-siderophore binding. Upon siderophore binding, conformational changes in the CCSSD enable regulated intramembrane proteolysis of the sigma regulator, ultimately resulting in transcriptional regulation.
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Affiliation(s)
- Jaime L Jensen
- Department of Chemistry and Biochemistry, North Dakota State University, Fargo, North Dakota 58108
| | - Beau D Jernberg
- Department of Chemistry and Biochemistry, North Dakota State University, Fargo, North Dakota 58108
| | - Sangita C Sinha
- Department of Chemistry and Biochemistry, North Dakota State University, Fargo, North Dakota 58108
| | - Christopher L Colbert
- Department of Chemistry and Biochemistry, North Dakota State University, Fargo, North Dakota 58108.
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14
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Klapper M, Schlabach K, Paschold A, Zhang S, Chowdhury S, Menzel K, Rosenbaum MA, Stallforth P. Biosynthesis of Pseudomonas-Derived Butenolides. Angew Chem Int Ed Engl 2020; 59:5607-5610. [PMID: 31880848 PMCID: PMC7154651 DOI: 10.1002/anie.201914154] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [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: 11/06/2019] [Revised: 11/29/2019] [Indexed: 11/06/2022]
Abstract
Butenolides are well-known signaling molecules in Gram-positive bacteria. Here, we describe a novel class of butenolides isolated from a Gram-negative Pseudomonas strain, the styrolides. Structure elucidation was aided by the total synthesis of styrolide A. Transposon mutagenesis enabled us to identify the styrolide biosynthetic gene cluster, and by using a homology search, we discovered the related and previously unknown acaterin biosynthetic gene cluster in another Pseudomonas species. Mutagenesis, heterologous expression, and identification of key shunt and intermediate products were crucial to propose a biosynthetic pathway for both Pseudomonas-derived butenolides. Comparative transcriptomics suggests a link between styrolide formation and the regulatory networks of the bacterium.
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Affiliation(s)
- Martin Klapper
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
| | - Kevin Schlabach
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
| | - André Paschold
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
| | - Shuaibing Zhang
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
| | - Somak Chowdhury
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
| | - Klaus‐Dieter Menzel
- Bio Pilot PlantLeibniz Institute for Natural Product Research and Infection Biology, HKIGermany
| | - Miriam A. Rosenbaum
- Bio Pilot PlantLeibniz Institute for Natural Product Research and Infection Biology, HKIGermany
| | - Pierre Stallforth
- Junior Research Group Chemistry of Microbial CommunicationLeibniz Institute for Natural Product Research and Infection Biology, HKIBeutenbergstraße 11a07745JenaGermany
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15
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Ferreira ML, Gerbino E, Cavallero GJ, Casabuono AC, Couto AS, Gomez-Zavaglia A, Ramirez SAM, Vullo DL. Infrared spectroscopy with multivariate analysis to interrogate the interaction of whole cells and secreted soluble exopolimeric substances of Pseudomonas veronii 2E with Cd(II), Cu(II) and Zn(II). Spectrochim Acta A Mol Biomol Spectrosc 2020; 228:117820. [PMID: 31771908 DOI: 10.1016/j.saa.2019.117820] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [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: 07/31/2019] [Revised: 10/23/2019] [Accepted: 11/18/2019] [Indexed: 06/10/2023]
Abstract
Extracellular polymeric substances (EPS) are bacterial products associated to cell wall or secreted to the liquid media that form the framework of microbial mats. These EPS contain functional groups as carboxyl, amino, hydroxyl, phosphate and sulfhydryl, able to interact with cations. Thus, EPS may be considered natural detoxifying compounds of metal polluted waters and wastewaters. In this work Attenuated Total Reflectance-Fourier Transform Infrared spectroscopy (ATR-FTIR) in combination with multivariate analysis (Principal Component Analysis-PCA-) were used to study the interaction of Cd(II), Cu(II) and Zn(II) and Pseudomonas veronii 2E cells, including bound EPS and cell wall, and its different soluble EPS fractions, previously characterized as Cd(II) ligands of moderate strength. Amino groups present in exopolysaccharide fraction were responsible for Zn(II) and Cu(II) complexation, while carboxylates chelated Cd(II). In lipopolysaccharide fraction, phosphoryl and carboxyl sites were involved in Cd(II) and Cu(II) binding, while Zn(II) interacted with amino groups. Similar results were obtained from cells. These studies confirmed that FTIR-PCA is a rapid analytical tool to provide valuable information regarding the functional groups in biomolecules related to metal interaction. Moreover, a discrimination and identification of functional groups present in both EPS and cells that interacted with Cd(II), Zn(II) and Cu(II) was demonstrated.
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Affiliation(s)
- Maria L Ferreira
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, J.M. Gutierrez 1150, B1613GSX, Los Polvorines, Buenos Aires, Argentina; CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina.
| | - Esteban Gerbino
- CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina; Centro de Investigación y Desarrollo en Criotecnología de Alimentos CIDCA (CCT-CONICET, La Plata), RA 1900 La Plata, Argentina.
| | - Gustavo J Cavallero
- CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina; Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Orgánica - Consejo Nacional de Investigaciones Científicas y Técnicas, Centro de Investigación en Hidratos de Carbono (CIHIDECAR), Pab. II, Ciudad Universitaria, 1428, Buenos Aires, Argentina.
| | - Adriana C Casabuono
- Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Orgánica - Consejo Nacional de Investigaciones Científicas y Técnicas, Centro de Investigación en Hidratos de Carbono (CIHIDECAR), Pab. II, Ciudad Universitaria, 1428, Buenos Aires, Argentina.
| | - Alicia S Couto
- CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina; Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Orgánica - Consejo Nacional de Investigaciones Científicas y Técnicas, Centro de Investigación en Hidratos de Carbono (CIHIDECAR), Pab. II, Ciudad Universitaria, 1428, Buenos Aires, Argentina.
| | - Andrea Gomez-Zavaglia
- CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina; Centro de Investigación y Desarrollo en Criotecnología de Alimentos CIDCA (CCT-CONICET, La Plata), RA 1900 La Plata, Argentina.
| | - Silvana A M Ramirez
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, J.M. Gutierrez 1150, B1613GSX, Los Polvorines, Buenos Aires, Argentina.
| | - Diana L Vullo
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, J.M. Gutierrez 1150, B1613GSX, Los Polvorines, Buenos Aires, Argentina; CONICET, Godoy Cruz 2290, C1425FQB, Buenos Aires, Argentina.
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16
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Zdorovenko EL, Kadykova AA, Shashkov AS, Kiseleva EP, Savich VV, Novik GI. O-specific polysaccharides structures of Pseudomonas strains isolated from the strawberry leaves. Carbohydr Res 2020; 489:107932. [PMID: 32035290 DOI: 10.1016/j.carres.2020.107932] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 10/18/2019] [Revised: 01/16/2020] [Accepted: 01/31/2020] [Indexed: 11/19/2022]
Abstract
Two Pseudomonas strains were isolated from the strawberry leaves. The O-antigens were obtained using phenol-water method and mild acid degradation. The following structures of the O-polysaccharides were established by sugar analysis and 2D NMR spectroscopy: OPS of Pseudomonas koreensis BIM B-970G →3)-α-D-FucNAcp-(1 → 2)-β-D-Quip3NAc-(1 → 3)-α-L-6dTalp4OAc-(1→ OPS of Pseudomonas oryzihabitans BIM B-1072G →4)-α-L-FucpNAm3OAc-(1 → 3)-α-D-QuipNAc-(1 → 4)-β-D-GlcpNAc3NAcA-(1→ Where Am - acetimidoyl.
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Affiliation(s)
- Evelina L Zdorovenko
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospekt 47, 119991, Moscow, Russia.
| | - Alexandra A Kadykova
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospekt 47, 119991, Moscow, Russia; Higher Chemical College of the Russian Academy of Sciences, D. I. Mendeleev University of Chemical Technology of Russia, Moscow, Russia
| | - Alexander S Shashkov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospekt 47, 119991, Moscow, Russia
| | - Elena P Kiseleva
- Institute of Bioorganic Chemistry, National Academy of Sciences of Belarus, 220141, Minsk, Republic of Belarus
| | - Victoria V Savich
- Institute of Microbiology, National Academy of Sciences of Belarus, 220141, Minsk, Republic of Belarus
| | - Galina I Novik
- Institute of Microbiology, National Academy of Sciences of Belarus, 220141, Minsk, Republic of Belarus
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17
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Shi Y, Zaleta-Pinet DA, Clark BR. Isolation, Identification, and Decomposition of Antibacterial Dialkylresorcinols from a Chinese Pseudomonas aurantiaca Strain. J Nat Prod 2020; 83:194-201. [PMID: 31999458 DOI: 10.1021/acs.jnatprod.9b00315] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
A chemical investigation of a Chinese Pseudomonas aurantiaca strain has yielded a new benzoquinone (4) and furanone (5), in addition to the known dialkylresorcinols 1 and 2. Extensive decomposition studies on the major metabolite 1 produced an additional furanone derivative (6), a hydroxyquinone (7), and two unusual resorcinol and hydroxyquinone dimers (8 and 9). Structures were elucidated by nuclear magnetic resonance spectroscopy in combination with tandem mass spectrometry analysis. These studies illustrate the potential of artifacts as a source of additional chemical diversity. Compounds 1 and 2 showed moderate antibacterial activity against a panel of Gram-positive pathogens, while the antibacterial activities of the artifacts (4-9) were reduced.
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Affiliation(s)
- Yue Shi
- School of Pharmaceutical Science and Technology , Tianjin University , Tianjin 300072 , People's Republic of China
| | - Diana A Zaleta-Pinet
- School of Pharmaceutical Science and Technology , Tianjin University , Tianjin 300072 , People's Republic of China
| | - Benjamin R Clark
- School of Pharmaceutical Science and Technology , Tianjin University , Tianjin 300072 , People's Republic of China
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18
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Shreve GS, Makula R. Characterization of a New Rhamnolipid Biosurfactant Complex from Pseudomonas Isolate DYNA270. Biomolecules 2019; 9:biom9120885. [PMID: 31861084 PMCID: PMC6995601 DOI: 10.3390/biom9120885] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Revised: 12/08/2019] [Accepted: 12/09/2019] [Indexed: 11/16/2022] Open
Abstract
The chemical and physical properties of extracellular rhamnolipid synthesized by a nonfluorescent Pseudomonas species soil isolate, identified as DYNA270, is described, along with characteristics of rhamnolipid production under varying growth conditions and substrates. The biosurfactant is determined to be an anionic, extracellular glycolipid consisting of two major components, the rhamnopyranoside β-1-3-hydroxydecanoyl-3-hydroxydecanoic acid (GU-6) and rhamnopyranosyl β→β2-rhamnopyranoside-β1-3-hydroxydecanoyl-3-hydroxydecanoic acid (GL-2), of molecular weight 504 and 649 daltons, respectively. These glycolipids are produced in a stoichiometric ratio of 1:3, respectively. The purified rhamnolipid mixture exhibits a critical micelle concentration of 20 mg/L, minimum surface (air/water interface) tension of 22 mN/m, and minimum interfacial tension values of 0.005 mN/m (against hexane). The pH optimum, critical micelle concentration, and effective alkane carbon number were established for Pseudomonas species DYNA270 and compared to those of rhamnolipid produced by Pseudomonas aeruginosa PG201. Significant differences are documented in the physical properties of extracellular rhamnolipids derived from these two microorganisms. The surface properties of this rhamnolipid are unique in that ultra-low surface and interfacial tension values are present in both purified rhamnolipid and culture broth containing the rhamnolipid complex (GU6 and GL2). We are not aware of prior studies reporting surface activity values this low for rhamnolipids. An exception is noted for an extracellular trehalose glycolipid produced by Rhodococcus species H13-A, which measured 0.00005 mN/m in the presence of the co-agent pentanol (Singer et al. 1990). Similar CMC values of 20 mg/L have been reported for rhamnolipids, a few being recorded as 5-10 mg/L for Pseudomonas species DSM2874 (Lang et al. 1984).
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Affiliation(s)
- Gina S. Shreve
- Department of Chemical Engineering and Material Sciences, Wayne State University, Detroit, MI 48202, USA
- Correspondence: ; Tel.: +1-313-577-3874; Fax: +1-313-577-3810
| | - Ronald Makula
- Department of Biochemistry, University of Georgia, Athens, Ga 30302, USA;
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19
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Smułek W, Cybulski Z, Guzik U, Jesionowski T, Kaczorek E. Three chlorotoluene-degrading bacterial strains: Differences in biodegradation potential and cell surface properties. Chemosphere 2019; 237:124452. [PMID: 31376699 DOI: 10.1016/j.chemosphere.2019.124452] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [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: 11/10/2018] [Revised: 05/31/2019] [Accepted: 07/24/2019] [Indexed: 06/10/2023]
Abstract
Pollution of the environment with chlorinated aromatic compounds is a problem of increasing importance, which has stimulated the search for efficient methods for the remediation of contaminated soil and water. Additionally, for better understanding of the significance of bioavailability to biodegradation, investigation of the cell surface properties is necessary. Hence, this study concerns the properties and possible application, in chlorotoluene removal, of three newly isolated environmental bacterial strains from the genera Pseudomonas, Raoultella and Rahnella. The results show the differences in the biochemical profiles of the isolated strains, their cellular fatty acid composition and their hemolytic properties. However, all three strains exhibit high biodegradation potential, degrading not less than 60% of each monochlorotoluene isomer in 21-day experiments. What is more, observations of changes in the cell surface properties indicate the possible adaptation mechanisms of the strains that enable efficient biodegradation of hydrophobic pollutants such as monochlorotoluenes.
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Affiliation(s)
- Wojciech Smułek
- Institute of Chemical Technology and Engineering, Faculty of Chemical Technology, Poznan University of Technology, Berdychowo 4, 60-965 Poznań, Poland.
| | - Zefiryn Cybulski
- Department of Microbiology, Greater Poland Cancer Centre, Garbary 15, 61-866 Poznań, Poland
| | - Urszula Guzik
- University of Silesia in Katowice, Faculty of Biology and Environmental Protection, Department of Biochemistry, Jagiellońska 28, 40-032 Katowice, Poland
| | - Teofil Jesionowski
- Institute of Chemical Technology and Engineering, Faculty of Chemical Technology, Poznan University of Technology, Berdychowo 4, 60-965 Poznań, Poland
| | - Ewa Kaczorek
- Institute of Chemical Technology and Engineering, Faculty of Chemical Technology, Poznan University of Technology, Berdychowo 4, 60-965 Poznań, Poland
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20
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Chang J, Deng S, Liang Y, Chen J. Cr(VI) removal performance from aqueous solution by Pseudomonas sp. strain DC-B3 isolated from mine soil: characterization of both Cr(VI) bioreduction and total Cr biosorption processes. Environ Sci Pollut Res Int 2019; 26:28135-28145. [PMID: 31363968 DOI: 10.1007/s11356-019-06017-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [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: 05/08/2019] [Accepted: 07/22/2019] [Indexed: 06/10/2023]
Abstract
Microbial methods are promising and environmentally friendly methods for remediating heavy metal contamination. In this study, a Cr(VI)-resistant bacterial strain, DC-B3, which was identified as Pseudomonas sp. by 16S rDNA gene sequencing, was isolated from heavy metal-contaminated mine soil, and its performance in Cr(VI) removal from wastewater in terms of Cr(VI) reduction and total Cr adsorption was assessed. This strain exhibited a high capability to reduce Cr(VI) to less toxic Cr(III) without the addition of an external electron donor at low pH (2.0). The Cr(VI) reduction capacity and rate both increased linearly with increasing Cr(VI) concentration, with a reduction capacity of 32.0 mg Cr(VI)·g-1 achieved at an initial concentration of 135.0 mg L-1 over 75 h. In addition, 41.0% of the total Cr was removed from the solution by biosorption, and equilibrium was reached within approximately 5 h. The total Cr sorption process was well described by the pseudo-second-order kinetic and Langmuir isotherm models. Desorption assays indicated that NaOH was the most efficient agent for total Cr desorption, and Cr(VI) and generated Cr(III) were both loaded on the DC-B3 biomass. The bacterial cells after Cr treatment were characterized by scanning electron microscopy-energy dispersive X-ray spectrometer and Fourier transform infrared spectroscopy analyses. Strain DC-B3 showed high potential for possible application in the remediation of Cr(VI) contamination in mine areas.
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Affiliation(s)
- Junjun Chang
- School of Ecology and Environmental Science & Yunnan Key Laboratory for Plateau Mountain Ecology and Restoration of Degraded Environments, Yunnan University, Kunming, 650091, People's Republic of China
| | - Shengjiong Deng
- School of Ecology and Environmental Science & Yunnan Key Laboratory for Plateau Mountain Ecology and Restoration of Degraded Environments, Yunnan University, Kunming, 650091, People's Republic of China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, People's Republic of China
| | - Yun Liang
- School of Ecology and Environmental Science & Yunnan Key Laboratory for Plateau Mountain Ecology and Restoration of Degraded Environments, Yunnan University, Kunming, 650091, People's Republic of China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, People's Republic of China
| | - Jinquan Chen
- School of Ecology and Environmental Science & Yunnan Key Laboratory for Plateau Mountain Ecology and Restoration of Degraded Environments, Yunnan University, Kunming, 650091, People's Republic of China.
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21
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Arce‐Rodríguez A, Volke DC, Bense S, Häussler S, Nikel PI. Non-invasive, ratiometric determination of intracellular pH in Pseudomonas species using a novel genetically encoded indicator. Microb Biotechnol 2019; 12:799-813. [PMID: 31162835 PMCID: PMC6559197 DOI: 10.1111/1751-7915.13439] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [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: 03/04/2019] [Revised: 05/14/2019] [Accepted: 05/15/2019] [Indexed: 11/30/2022] Open
Abstract
The ability of Pseudomonas species to thrive in all major natural environments (i.e. terrestrial, freshwater and marine) is based on its exceptional capability to adapt to physicochemical changes. Thus, environmental bacteria have to tightly control the maintenance of numerous physiological traits across different conditions. The intracellular pH (pHi ) homoeostasis is a particularly important feature, since the pHi influences a large portion of the biochemical processes in the cell. Despite its importance, relatively few reliable, easy-to-implement tools have been designed for quantifying in vivo pHi changes in Gram-negative bacteria with minimal manipulations. Here we describe a convenient, non-invasive protocol for the quantification of the pHi in bacteria, which is based on the ratiometric fluorescent indicator protein PHP (pH indicator for Pseudomonas). The DNA sequence encoding PHP was thoroughly adapted to guarantee optimal transcription and translation of the indicator in Pseudomonas species. Our PHP-based quantification method demonstrated that pHi is tightly regulated over a narrow range of pH values not only in Pseudomonas, but also in other Gram-negative bacterial species such as Escherichia coli. The maintenance of the cytoplasmic pH homoeostasis in vivo could also be observed upon internal (e.g. redirection of glucose consumption pathways in P. putida) and external (e.g. antibiotic exposure in P. aeruginosa) perturbations, and the PHP indicator was also used to follow dynamic changes in the pHi upon external pH shifts. In summary, our work describes a reliable method for measuring pHi in Pseudomonas, allowing for the detailed investigation of bacterial pHi homoeostasis and its regulation.
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Affiliation(s)
- Alejandro Arce‐Rodríguez
- Department of Molecular BacteriologyHelmholtz Centre for Infection Research38124BraunschweigGermany
| | - Daniel C. Volke
- The Novo Nordisk Foundation Center for BiosustainabilityTechnical University of Denmark2800Kongens LyngbyDenmark
| | - Sarina Bense
- Department of Molecular BacteriologyHelmholtz Centre for Infection Research38124BraunschweigGermany
| | - Susanne Häussler
- Department of Molecular BacteriologyHelmholtz Centre for Infection Research38124BraunschweigGermany
| | - Pablo I. Nikel
- The Novo Nordisk Foundation Center for BiosustainabilityTechnical University of Denmark2800Kongens LyngbyDenmark
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Hossain A, Hong X, Ibrahim E, Li B, Sun G, Meng Y, Wang Y, An Q. Green Synthesis of Silver Nanoparticles with Culture Supernatant of a Bacterium Pseudomonas rhodesiae and Their Antibacterial Activity against Soft Rot Pathogen Dickeya dadantii. Molecules 2019; 24:molecules24122303. [PMID: 31234369 PMCID: PMC6631663 DOI: 10.3390/molecules24122303] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 06/15/2019] [Accepted: 06/19/2019] [Indexed: 01/25/2023] Open
Abstract
Bacterial stem and root rot disease of sweet potato caused by Dickeya dadantii recently broke out in major sweet potato planting areas in China and calls for effective approaches to control the pathogen and disease. Here, we developed a simple method for green synthesis of silver nanoparticles (AgNPs) using bacterial culture supernatants. AgNPs synthesized with the cell-free culture supernatant of a bacterium Pseudomonas rhodesiae displayed the characteristic surface plasmon resonance peak at 420–430 nm and as nanocrystallites in diameters of 20–100 nm determined by transmission electron microscopy, scanning electron microscopy, and X-ray diffraction spectroscopy. Functional groups associated with proteins in the culture supernatant may reduce silver ions and stabilize AgNPs. The AgNPs showed antibacterial activities against D. dadantii growth, swimming motility, biofilm formation, and maceration of sweet potato tubers whereas the culture supernatant of P. rhodesiae did not. AgNPs (12 µg∙ml−1) and AgNO3 (50 µg∙ml−1) showed close antibacterial activities. The antibacterial activities increased with the increase of AgNP concentrations. The green-synthesized AgNPs can be used to control the soft rot disease by control of pathogen contamination of sweet potato seed tubers.
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Affiliation(s)
- Afsana Hossain
- State Key Laboratory of Rice Biology and Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
- Department of Plant Pathology and Seed Science, Sylhet Agricultural University, Sylhet 3100, Bangladesh.
| | - Xianxian Hong
- State Key Laboratory of Rice Biology and Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Ezzeldin Ibrahim
- State Key Laboratory of Rice Biology and Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Bin Li
- State Key Laboratory of Rice Biology and Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Guochang Sun
- State Key Laboratory for Quality and Safety of Agro-products (in prepared), Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
| | - Youqing Meng
- General Station of Plant Protection and Quarantine of Zhejiang Province, Hangzhou 310020, China.
| | - Yanli Wang
- State Key Laboratory for Quality and Safety of Agro-products (in prepared), Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
| | - Qianli An
- State Key Laboratory of Rice Biology and Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
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Polano C, Martini M, Savian F, Moruzzi S, Ermacora P, Firrao G. Genome Sequence and Antifungal Activity of Two Niche-Sharing Pseudomonas protegens Related Strains Isolated from Hydroponics. Microb Ecol 2019; 77:1025-1035. [PMID: 30088023 DOI: 10.1007/s00248-018-1238-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [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: 02/19/2018] [Accepted: 07/23/2018] [Indexed: 06/08/2023]
Abstract
This work reports the comparison of the genome sequence and the ability to inhibit fungal growth of two Pseudomonas protegens related strains that were isolated from the same hydroponic culture of lamb's lettuce. The two strains were very similar in their core genome but one strain, Pf4, contained three gene clusters for the production of secondary metabolites, i.e., pyoluteorin (plt), pyrrolnitrin (prn), and rhizoxin (rzx), that were missing in the other strain, Pf11. The difference between the two strains was not due to simple insertion events, but to a relatively complex differentiation focused on the accessory genomes. In dual culture assays, both strains inhibited nearly all tested fungal strains, yet Pf4 exerted a significantly stronger fungal growth inhibition than Pf11. In addition to the differences in the secondary metabolite production associated genes abundance, the genome of Pf4 was more stable, smaller in size and with a lower number of transposons. The preservation of a dynamic equilibrium within natural populations of different strains comprised in the same species but differing in their secondary metabolite repertoire and in their genome stability may be functional to the adaptation to environmental changes.
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Affiliation(s)
- Cesare Polano
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy
| | - Marta Martini
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy
| | - Francesco Savian
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy
| | - Serena Moruzzi
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy
| | - Paolo Ermacora
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy
| | - Giuseppe Firrao
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Via delle Scienze 206, 33100, Udine, Italy.
- National Institute of Biostructures and Biosystems, Viale delle Medaglie d'Oro 305, Rome, Italy.
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24
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Rong X, Zhao G, Fein JB, Yu Q, Huang Q. Role of interfacial reactions in biodegradation: A case study in a montmorillonite, Pseudomonas sp. Z1 and methyl parathion ternary system. J Hazard Mater 2019; 365:245-251. [PMID: 30447631 DOI: 10.1016/j.jhazmat.2018.11.019] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [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: 07/31/2018] [Revised: 10/24/2018] [Accepted: 11/05/2018] [Indexed: 06/09/2023]
Abstract
Organophosphate pesticides are currently the most commonly used pesticides, but the mechanisms of biodegradation of these compounds are often unknown. In this study, we constructed a ternary biodegradation system containing methyl parathion (MP), a bacterial strain of Pseudomonas sp. Z1 with capability of degrading MP and montmorillonite, which is a common clay mineral in soils. The role of interfacial reactions between montmorillonite and the MP degrader on the biodegradation of MP was investigated by batch adsorption as well as through semi-permeable membrane experiments. The contact between degrader and montmorillonite in biodegradation was also dynamically examined using in situ attenuated total reflectance Fourier transform infrared spectroscopy. The metabolic activity of the degrading bacteria was also assessed using an isothermal microcalorimetric technique. The results indicate that sorption of bacterial cells onto montmorillonite enhances the metabolic activity of the bacteria and hence the biodegradation of MP by the bacteria, and that an amide group on a bacterial surface protein is responsible for the bacterial adhesion onto the montmorillonite. This stimulated effect ceased when the bacteria were physically separated from the surface of the clay by a membrane, demonstrating the importance of sorption of both the bacteria and the MP in the biodegradation process.
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Affiliation(s)
- Xingmin Rong
- Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan, 430070, China.
| | - Gang Zhao
- Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan, 430070, China; Guangdong Institute of Microbiology, Chinese Academy of Science, Guangzhou 510070, China
| | - Jeremy B Fein
- Department of Civil and Environmental Engineering and Earth Sciences, University of Notre Dame, Notre Dame, IN, 46556, USA
| | - Qiang Yu
- Department of Civil and Environmental Engineering and Earth Sciences, University of Notre Dame, Notre Dame, IN, 46556, USA
| | - Qiaoyun Huang
- Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan, 430070, China
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Volk V, Glück C, Leptihn S, Ewert J, Stressler T, Fischer L. Two Heat Resistant Endopeptidases from Pseudomonas Species with Destabilizing Potential during Milk Storage. J Agric Food Chem 2019; 67:905-915. [PMID: 30585481 DOI: 10.1021/acs.jafc.8b04802] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [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: 06/09/2023]
Abstract
In the current study, the extracellular endopeptidases from Pseudomonas lundensis and Pseudomonas proteolytica were investigated. The amino acid sequence identity between both endopeptidases is 68%. Both endopeptidases were purified to homogeneity and partially characterized. They were classified as metallopeptidases with a maximum activity at pH 10.0 ( P. lundensis) or 8.5 ( P. proteolytica) at 35 °C. Both remained active in skim milk with 39.7 ± 2.4% and 24.5 ± 3.3%, respectively, of the initial enzyme activity after UHT processing (138 °C for 20 s), indicating the relevance for milk destabilization. The transition points in buffer were determined at 50 °C ( P. lundensis) and 43 °C ( P. proteolytica) using circular dichroism spectroscopy. The loss of the secondary structure at different temperatures was correlated with residual peptidase activities after heat treatment. The ability to destabilize UHT milk was proven by supplementation of skim milk with endopeptidase and storage for 4 weeks.
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Affiliation(s)
| | | | - Sebastian Leptihn
- Institute of Microbiology, Department of Microbiology , University of Hohenheim , Garbenstrasse 30 , 70599 Stuttgart , Germany
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26
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Yang M, Mavrodi DV, Thomashow LS, Weller DM. Differential Response of Wheat Cultivars to Pseudomonas brassicacearum and Take-All Decline Soil. Phytopathology 2018; 108:1363-1372. [PMID: 29905506 PMCID: PMC6483097 DOI: 10.1094/phyto-01-18-0024-r] [Citation(s) in RCA: 8] [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] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
2,4-Diacetylphloroglucinol (DAPG)-producing Pseudomonas spp. in the P. fluorescens complex are primarily responsible for a natural suppression of take-all of wheat known as take-all decline (TAD) in many fields in the United States. P. brassicacearum, the most common DAPG producer found in TAD soils in the Pacific Northwest (PNW) of the United States, has biological control, growth promoting and phytotoxic activities. In this study, we explored how the wheat cultivar affects the level of take-all suppression when grown in a TAD soil, and how cultivars respond to colonization by P. brassicacearum. Three cultivars (Tara, Finley, and Buchanan) supported similar rhizosphere population sizes of P. brassicacearum when grown in a TAD soil, however they developed significantly different amounts of take-all. Cultivars Tara and Buchanan developed the least and most take-all, respectively, and Finley showed an intermediate amount of disease. However, when grown in TAD soil that was pasteurized to eliminate both DAPG producers and take-all suppression, all three cultivars were equally susceptible to take-all. The three cultivars also responded differently to the colonization and phytotoxicity of P. brassicacearum strains Q8r1-96 and L5.1-96, which are characteristic of DAPG producers in PNW TAD soils. Compared with cultivar Tara, cultivar Buchanan showed significantly reduced seedling emergence and root growth when colonized by P. brassicacearum, and the response of Finley was intermediate. However, all cultivars emerged equally when treated with a DAPG-deficient mutant of Q8r1-96. Our results indicate that wheat cultivars grown in a TAD soil modulate both the robustness of take-all suppression and the potential phytotoxicity of the antibiotic DAPG.
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Affiliation(s)
| | - Dmitri V. Mavrodi
- Department of Cell and Molecular Biology, The University of Southern Mississippi, Hattiesburg 39406
| | - Linda S. Thomashow
- U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
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27
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Jang EY, Son YJ, Park SY, Yoo JY, Hwang DY, Park HC, Son HJ. Biological synthesis and characterisation of silver nanoparticles using Pseudomonas geniculata H10 for pharmaceutical activity. IET Nanobiotechnol 2018; 12:828-835. [PMID: 30104458 PMCID: PMC8676423 DOI: 10.1049/iet-nbt.2018.0014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [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: 01/11/2018] [Revised: 03/20/2018] [Accepted: 03/31/2018] [Indexed: 11/19/2022] Open
Abstract
In the present study, silver nanoparticles (SNPs) were synthesised for the first time using Pseudomonas geniculata H10 as reducing and stabilising agents. The synthesis of SNPs was the maximum when the culture supernatant was treated with 2.5 mM AgNO3 at pH 7 and 40°C for 10 h. The SNPs were characterised by field emission scanning electron microscopy-energy-dispersive spectroscopy, transmission electron microscopy, dynamic light scattering, X-ray diffraction and UV-vis spectroscopy. Fourier transform infrared spectroscopy indicated the presence of proteins, suggesting they may have been responsible for the reduction and acted as capping agents. The SNPs displayed 1,1-diphenyl-2-picrylhydrazyl (IC50 = 28.301 μg/ml) and 2,2'-azinobis-3-ethylbenzothiazoline-6-sulphonate (IC50 = 27.076 μg/ml) radical scavenging activities. The SNPs exhibited a broad antimicrobial spectrum against several human pathogenic Gram-positive and Gram-negative bacteria and Candida albicans. The antimicrobial action of SNPs was due to cell deformation resulting in cytoplasmic leakage and subsequent lysis. The authors' results indicate P. geniculata H10 could be used to produce antimicrobial SNPs in a facile, non-toxic, cost-effective manner, and that these SNPs can be used as effective growth inhibitors in various microorganisms, making them applicable to various biomedical and environmental systems. As far as the authors are aware, this study is the first to describe the potential biomedical applications of SNPs synthesised using P. geniculata.
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Affiliation(s)
- Eun-Young Jang
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Yong-Jun Son
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Soo-Yeun Park
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Ji-Yeon Yoo
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Dae-Youn Hwang
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Hyean-Cheal Park
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea
| | - Hong-Joo Son
- College of Natural Resources and Life Science/Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-706, Republic of Korea.
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28
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Żur J, Wojcieszyńska D, Hupert-Kocurek K, Marchlewicz A, Guzik U. Paracetamol - toxicity and microbial utilization. Pseudomonas moorei KB4 as a case study for exploring degradation pathway. Chemosphere 2018; 206:192-202. [PMID: 29751245 DOI: 10.1016/j.chemosphere.2018.04.179] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [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: 11/17/2017] [Revised: 04/25/2018] [Accepted: 04/30/2018] [Indexed: 06/08/2023]
Abstract
Paracetamol, a widely used analgesic and antipyretic drug, is currently one of the most emerging pollutants worldwide. Besides its wide prevalence in the literature only several bacterial strains able to degrade this compound have been described. In this study, we isolated six new bacterial strains able to remove paracetamol. The isolated strains were identified as the members of Pseudomonas, Bacillus, Acinetobacter and Sphingomonas genera and characterized phenotypically and biochemically using standard methods. From the isolated strains, Pseudomonas moorei KB4 was able to utilize 50 mg L-1 of paracetamol. As the main degradation products, p-aminophenol and hydroquinone were identified. Based on the measurements of specific activity of acyl amidohydrolase, deaminase and hydroquinone 1,2-dioxygenase and the results of liquid chromatography analyses, we proposed a mechanism of paracetamol degradation by KB4 strain under co-metabolic conditions with glucose. Additionally, toxicity bioassays and the influence of various environmental factors, including pH, temperature, heavy metals at no-observed-effective-concentrations, and the presence of aromatic compounds on the efficiency and mechanism of paracetamol degradation by KB4 strain were determined. This comprehensive study about paracetamol biodegradation will be helpful in designing a treatment systems of wastewaters contaminated with paracetamol.
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Affiliation(s)
- Joanna Żur
- Department of Biochemistry, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032 Katowice, Poland.
| | - Danuta Wojcieszyńska
- Department of Biochemistry, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032 Katowice, Poland.
| | - Katarzyna Hupert-Kocurek
- Department of Biochemistry, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032 Katowice, Poland.
| | - Ariel Marchlewicz
- Department of Biochemistry, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032 Katowice, Poland.
| | - Urszula Guzik
- Department of Biochemistry, Faculty of Biology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032 Katowice, Poland.
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29
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Al-Jubury A, Lu C, Kania PW, von Gersdorff Jørgensen L, Liu Y, de Bruijn I, Raaijmakers J, Buchmann K. Impact of Pseudomonas H6 surfactant on all external life cycle stages of the fish parasitic ciliate Ichthyophthirius multifiliis. J Fish Dis 2018; 41:1147-1152. [PMID: 29671884 DOI: 10.1111/jfd.12810] [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] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Revised: 03/07/2018] [Accepted: 03/07/2018] [Indexed: 06/08/2023]
Abstract
A bacterial biosurfactant isolated from Pseudomonas (strain H6) has previously been shown to have a lethal effect on the oomycete Saprolegnia diclina infecting fish eggs. The present work demonstrates that the same biosurfactant has a strong in vitro antiparasitic effect on the fish pathogenic ciliate Ichthyophthirius multifiliis. Three life cycle stages (the infective theront stage, the tomont and the tomocyst containing tomites) were all susceptible to the surfactant. Theronts were the most sensitive showing 100% mortality in as low concentrations as 10 and 13 μg/ml within 30 min. Tomonts were the most resistant but were killed in concentrations of 100 μg/ml. Tomocysts, which generally are considered resistant to chemical and medical treatment, due to the surrounding protective cyst wall, were also sensitive. The surfactant, in concentrations of 10 and 13 μg/ml, penetrated the cyst wall and killed the enclosed tomites within 60 min. Rainbow trout fingerlings exposed to the biosurfactant showed no adverse immediate or late signs following several hours incubation in concentrations effective for killing the parasite. This bacterial surfactant may be further developed for application as an antiparasitic control agent in aquaculture.
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Affiliation(s)
- A Al-Jubury
- Faculty of Health and Medical Sciences, Department of Veterinary and Animal Science, University of Copenhagen, Frederiksberg C, Denmark
| | - C Lu
- Faculty of Health and Medical Sciences, Department of Veterinary and Animal Science, University of Copenhagen, Frederiksberg C, Denmark
| | - P W Kania
- Faculty of Health and Medical Sciences, Department of Veterinary and Animal Science, University of Copenhagen, Frederiksberg C, Denmark
| | - L von Gersdorff Jørgensen
- Faculty of Health and Medical Sciences, Department of Veterinary and Animal Science, University of Copenhagen, Frederiksberg C, Denmark
| | - Y Liu
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
| | - I de Bruijn
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
| | - J Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
| | - K Buchmann
- Faculty of Health and Medical Sciences, Department of Veterinary and Animal Science, University of Copenhagen, Frederiksberg C, Denmark
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30
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Mishra S, Maiti A. The efficacy of bacterial species to decolourise reactive azo, anthroquinone and triphenylmethane dyes from wastewater: a review. Environ Sci Pollut Res Int 2018; 25:8286-8314. [PMID: 29383646 DOI: 10.1007/s11356-018-1273-2] [Citation(s) in RCA: 61] [Impact Index Per Article: 10.2] [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: 09/04/2017] [Accepted: 01/11/2018] [Indexed: 06/07/2023]
Abstract
The industrial dye-contaminated wastewater has been considered as the most complex and hazardous in terms of nature and composition of toxicants that can cause severe biotic risk. Reactive azo, anthroquinone and triphenylmethane dyes are mostly used in dyeing industries; thus, the unfixed hydrolysed molecules of these dyes are commonly found in wastewater. In this regard, bacterial species have been proved to be highly effective to treat wastewater containing reactive dyes and heavy metals. The bio-decolourisation of dye occurs either by adsorption or through degradation in bacterial metabolic pathways under optimised environmental conditions. The bacterial dye decolourisation rates vary with the type of bacteria, reactivity of dye and operational parameters such as temperature, pH, co-substrate, electron donor and dissolved oxygen concentration. The present paper reviews the efficiency of bacterial species (individual and consortia) to decolourise wastewater containing reactive azo, anthroquinone and triphenylmethane dyes either individually or mixed or with metal ions. It has been observed that bacteria Pseudomonas spp. are comparatively more effective to treat reactive dyes and metal-contaminated wastewater. In recent studies, either immobilised cell or isolated enzymes are being used to decolourise dye at a large scale of operations. However, it is required to investigate more potent bacterial species or consortia that could be used to treat wastewater containing mixed reactive dyes and heavy metals like chromium ions.
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Affiliation(s)
- Saurabh Mishra
- Department of Polymer and Process Engineering, Indian Institute of Technology Roorkee, Saharanpur Campus, Saharanpur, Uttar Pradesh, 247001, India
| | - Abhijit Maiti
- Department of Polymer and Process Engineering, Indian Institute of Technology Roorkee, Saharanpur Campus, Saharanpur, Uttar Pradesh, 247001, India.
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31
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Gutiérrez-García K, Neira-González A, Pérez-Gutiérrez RM, Granados-Ramírez G, Zarraga R, Wrobel K, Barona-Gómez F, Flores-Cotera LB. Phylogenomics of 2,4-Diacetylphloroglucinol-Producing Pseudomonas and Novel Antiglycation Endophytes from Piper auritum. J Nat Prod 2017; 80:1955-1963. [PMID: 28704049 DOI: 10.1021/acs.jnatprod.6b00823] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
2,4-Diacetylphloroglucinol (DAPG) (1) is a phenolic polyketide produced by some plant-associated Pseudomonas species, with many biological activities and ecological functions. Here, we aimed at reconstructing the natural history of DAPG using phylogenomics focused at its biosynthetic gene cluster or phl genes. In addition to around 1500 publically available genomes, we obtained and analyzed the sequences of nine novel Pseudomonas endophytes isolated from the antidiabetic medicinal plant Piper auritum. We found that 29 organisms belonging to six Pseudomonas species contain the phl genes at different frequencies depending on the species. The evolution of the phl genes was then reconstructed, leading to at least two clades postulated to correlate with the known chemical diversity surrounding DAPG biosynthesis. Moreover, two of the newly obtained Pseudomonas endophytes with high antiglycation activity were shown to exert their inhibitory activity against the formation of advanced glycation end-products via DAPG and related congeners. Its isomer, 5-hydroxyferulic acid (2), detected during bioactivity-guided fractionation, together with other DAPG congeners, were found to enhance the detected inhibitory activity. This report provides evidence of a link between the evolution and chemical diversity of DAPG and congeners.
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Affiliation(s)
- Karina Gutiérrez-García
- Evolution of Metabolic Diversity Laboratory, Unidad de Genómica Avanzada (Langebio), Cinvestav-IPN , Irapuato 36821, Guanajuato, Mexico
- Laboratory of Microbial Secondary Metabolism, Department of Biotechnology, Cinvestav-IPN Mexico City 07360, Mexico
| | - Adriana Neira-González
- Laboratory of Microbial Secondary Metabolism, Department of Biotechnology, Cinvestav-IPN Mexico City 07360, Mexico
| | - Rosa Martha Pérez-Gutiérrez
- Laboratory of Natural Products Research, ESIQUIE-IPN , Unidad Profesional Adolfo López Mateos, Avenida Instituto Politécnico Nacional, Mexico City 07708, Mexico
| | | | - Ramon Zarraga
- Chemistry Department, Division of Natural and Exact Sciences, University of Guanajuato , Guanajuato 36000, Guanajuato, Mexico
| | - Kazimierz Wrobel
- Chemistry Department, Division of Natural and Exact Sciences, University of Guanajuato , Guanajuato 36000, Guanajuato, Mexico
| | - Francisco Barona-Gómez
- Evolution of Metabolic Diversity Laboratory, Unidad de Genómica Avanzada (Langebio), Cinvestav-IPN , Irapuato 36821, Guanajuato, Mexico
| | - Luis B Flores-Cotera
- Laboratory of Microbial Secondary Metabolism, Department of Biotechnology, Cinvestav-IPN Mexico City 07360, Mexico
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32
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Abstract
What happens inside an enzyme's active site to allow slow and difficult chemical reactions to occur so rapidly? This question has occupied biochemists' attention for a long time. Computer models of increasing sophistication have predicted an important role for electrostatic interactions in enzymatic reactions, yet this hypothesis has proved vexingly difficult to test experimentally. Recent experiments utilizing the vibrational Stark effect make it possible to measure the electric field a substrate molecule experiences when bound inside its enzyme's active site. These experiments have provided compelling evidence supporting a major electrostatic contribution to enzymatic catalysis. Here, we review these results and develop a simple model for electrostatic catalysis that enables us to incorporate disparate concepts introduced by many investigators to describe how enzymes work into a more unified framework stressing the importance of electric fields at the active site.
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Affiliation(s)
- Stephen D Fried
- Proteins and Nucleic Acid Chemistry Division, Medical Research Council Laboratory of Molecular Biology, Cambridge CB2 0QH, United Kingdom;
| | - Steven G Boxer
- Department of Chemistry, Stanford University, Stanford, California 94305;
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33
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Abstract
The previously unknown sequences of several pyoverdines (PVD) produced by a biotechnologically-relevant bacterium, namely, Pseudomonas taiwanensis VLB120, were characterized by high performance liquid chromatography (HPLC)-high resolution mass spectrometry (HRMS). The same structural characterization scheme was checked before by analysis of Pseudomonas sp. putida KT2440 samples with known PVDs. A new sample preparation strategy based on solid-phase extraction was developed, requiring significantly reduced sample material as compared to existing methods. Chromatographic separation was performed using hydrophilic interaction liquid chromatography with gradient elution. Interestingly, no signals for apoPVDs were detected in these analyses, only the corresponding aluminum(III) and iron(III) complexes were seen. The chromatographic separation readily enabled separation of PVD complexes according to their individual structures. HPLC-HRMS and complementary fragmentation data from collision-induced dissociation and electron capture dissociation enabled the structural characterization of the investigated pyoverdines. In Pseudomonas sp. putida KT2240 samples, the known pyoverdines G4R and G4R A were readily confirmed. No PVDs have been previously described for Pseudomonas sp. taiwanensis VLB120. In our study, we identified three new PVDs, which only differed in their acyl side chains (succinic acid, succinic amide and malic acid). Peptide sequencing by MS/MS provided the sequence Orn-Asp-OHAsn-Thr-AcOHOrn-Ser-cOHOrn. Of particular interest is the presence of OHAsn, which has not been reported as PVD constituent before.
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Affiliation(s)
- Matthias Baune
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstr. 30, 48149, Münster, Germany
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., Dortmund, Germany
| | - Yulin Qi
- Institute of Bioanalytical Chemistry, Saarland University, Saarbrücken, Germany
| | - Karen Scholz
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstr. 30, 48149, Münster, Germany
| | - Dietrich A Volmer
- Institute of Bioanalytical Chemistry, Saarland University, Saarbrücken, Germany
| | - Heiko Hayen
- Institute of Inorganic and Analytical Chemistry, University of Münster, Corrensstr. 30, 48149, Münster, Germany.
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Jaaffar AKM, Parejko JA, Paulitz TC, Weller DM, Thomashow LS. Sensitivity of Rhizoctonia Isolates to Phenazine-1-Carboxylic Acid and Biological Control by Phenazine-Producing Pseudomonas spp. Phytopathology 2017; 107:692-703. [PMID: 28383281 DOI: 10.1094/phyto-07-16-0257-r] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [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: 05/14/2023]
Abstract
Rhizoctonia solani anastomosis groups (AG)-8 and AG-2-1 and R. oryzae are ubiquitous in cereal-based cropping systems of the Columbia Plateau of the Inland Pacific Northwest and commonly infect wheat. AG-8 and R. oryzae, causal agents of Rhizoctonia root rot and bare patch, are most commonly found in fields in the low-precipitation zone, whereas R. solani AG-2-1 is much less virulent on wheat and is distributed in fields throughout the low-, intermediate-, and high-precipitation zones. Fluorescent Pseudomonas spp. that produce the antibiotic phenazine-1-carboxylic acid (PCA) also are abundant in the rhizosphere of crops grown in the low-precipitation zone but their broader geographic distribution and effect on populations of Rhizoctonia is unknown. To address these questions, we surveyed the distribution of PCA producers (Phz+) in 59 fields in cereal-based cropping systems throughout the Columbia Plateau. Phz+ Pseudomonas spp. were detected in 37 of 59 samples and comprised from 0 to 12.5% of the total culturable heterotrophic aerobic rhizosphere bacteria. The frequency with which individual plants were colonized by Phz+ pseudomonads ranged from 0 to 100%. High and moderate colonization frequencies of Phz+ pseudomonads were associated with roots from fields located in the driest areas whereas only moderate and low colonization frequencies were associated with crops where higher annual precipitation occurs. Thus, the geographic distribution of Phz+ pseudomonads overlaps closely with the distribution of R. solani AG-8 but not with that of R. oryzae or R. solani AG-2-1. Moreover, linear regression analysis demonstrated a highly significant inverse relationship between annual precipitation and the frequency of rhizospheres colonized by Phz+ pseudomonads. Phz+ pseudomonads representative of the four major indigenous species (P. aridus, P. cerealis, P. orientalis, and P. synxantha) suppressed Rhizoctonia root rot of wheat when applied as seed treatments. In vitro, mean 50% effective dose values for isolates of AG-8 and AG-2-1 from fields with high and low frequencies of phenazine producers did not differ significantly, nor was there a correlation between virulence of an isolate and sensitivity to PCA, resulting in rejection of the hypothesis that tolerance in Rhizoctonia spp. to PCA develops in nature upon exposure to Phz+ pseudomonads.
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Affiliation(s)
- Ahmad Kamil Mohd Jaaffar
- First and second authors: Department of Plant Pathology, Washington State University, Pullman 99164-6430; and third, fourth, and fifth authors: United States Department of Agriculture-Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
| | - James A Parejko
- First and second authors: Department of Plant Pathology, Washington State University, Pullman 99164-6430; and third, fourth, and fifth authors: United States Department of Agriculture-Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
| | - Timothy C Paulitz
- First and second authors: Department of Plant Pathology, Washington State University, Pullman 99164-6430; and third, fourth, and fifth authors: United States Department of Agriculture-Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
| | - David M Weller
- First and second authors: Department of Plant Pathology, Washington State University, Pullman 99164-6430; and third, fourth, and fifth authors: United States Department of Agriculture-Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
| | - Linda S Thomashow
- First and second authors: Department of Plant Pathology, Washington State University, Pullman 99164-6430; and third, fourth, and fifth authors: United States Department of Agriculture-Agricultural Research Service, Wheat Health, Genetics and Quality Research Unit, Pullman, WA 99164-6430
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Motley J, Stamps BW, Mitchell CA, Thompson AT, Cross J, You J, Powell DR, Stevenson BS, Cichewicz RH. Opportunistic Sampling of Roadkill as an Entry Point to Accessing Natural Products Assembled by Bacteria Associated with Non-anthropoidal Mammalian Microbiomes. J Nat Prod 2017; 80:598-608. [PMID: 28335605 PMCID: PMC5368682 DOI: 10.1021/acs.jnatprod.6b00772] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2016] [Indexed: 05/09/2023]
Abstract
Few secondary metabolites have been reported from mammalian microbiome bacteria despite the large numbers of diverse taxa that inhabit warm-blooded higher vertebrates. As a means to investigate natural products from these microorganisms, an opportunistic sampling protocol was developed, which focused on exploring bacteria isolated from roadkill mammals. This initiative was made possible through the establishment of a newly created discovery pipeline, which couples laser ablation electrospray ionization mass spectrometry (LAESIMS) with bioassay testing, to target biologically active metabolites from microbiome-associated bacteria. To illustrate this process, this report focuses on samples obtained from the ear of a roadkill opossum (Dideiphis virginiana) as the source of two bacterial isolates (Pseudomonas sp. and Serratia sp.) that produced several new and known cyclic lipodepsipeptides (viscosin and serrawettins, respectively). These natural products inhibited biofilm formation by the human pathogenic yeast Candida albicans at concentrations well below those required to inhibit yeast viability. Phylogenetic analysis of 16S rRNA gene sequence libraries revealed the presence of diverse microbial communities associated with different sites throughout the opossum carcass. A putative biosynthetic pathway responsible for the production of the new serrawettin analogues was identified by sequencing the genome of the Serratia sp. isolate. This study provides a functional roadmap to carrying out the systematic investigation of the genomic, microbiological, and chemical parameters related to the production of natural products made by bacteria associated with non-anthropoidal mammalian microbiomes. Discoveries emerging from these studies are anticipated to provide a working framework for efforts aimed at augmenting microbiomes to deliver beneficial natural products to a host.
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Affiliation(s)
- Jeremy
L. Motley
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Blake W. Stamps
- Department
of Microbiology and Plant Biology, University
of Oklahoma, Norman, Oklahoma 73019-0390, United States
| | - Carter A. Mitchell
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Alec T. Thompson
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Jayson Cross
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Jianlan You
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Douglas R. Powell
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
| | - Bradley S. Stevenson
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
- Department
of Microbiology and Plant Biology, University
of Oklahoma, Norman, Oklahoma 73019-0390, United States
| | - Robert H. Cichewicz
- Natural
Products Discovery Group, Department of Chemistry and Biochemistry, and Institute for
Natural Products Applications and Research Technologies, Stephenson
Life Sciences Research Center, University
of Oklahoma, Norman, Oklahoma 73019-5251, United States
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Yotinov I, Todorova Y, Schneider I, Daskalova E, Topalova Y. Comparison of the Influence of Nanodiamonds and Single-Walled Nanotubes on Phenol Biodetoxification by Pseudomonas sp. J Nanosci Nanotechnol 2017; 17:1031-1040. [PMID: 29672003 DOI: 10.1166/jnn.2017.12687] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Nanobiotechnologies are a rapidly growing field that offers new opportunities thus far unknown including regulation processes at a nano level. The biodetoxification and mechanisms of degradation of many xenobiotics have been studied and are well documented. There remains the important issue of the impact of nanomodulators on biodetoxification processes and their potential to optimize and regulate biodegradation of recalcitrant xenobiotics. The purpose of the present study is to clarify in comparative terms the effect of carbon nanoparticles (single-walled nanotubes and nanodiamonds) on these processes. In order to achieve this objective analogous modeling of biodegradation processes was performed. The experiment was conducted in simplified conditions, using a microbial culture of Pseudomonas sp. We observed the influence of nanodiamonds (ND) and single-walled nanotubes (SWNT) on the basic kinetic parameters and key oxygenase enzymes of the bacteria from the genus Pseudomonas in the course of a model phenol biodegradation process. The results confirm the stimulating effect of ND on the initial stages of the biodetoxification processes. In comparison to the control variant there was an increase in the specific rate of phenol biodegradation (154%) and in the effectiveness of phenol elimination (151%). ND increase the activities of phenol-2-monooxygenase and catechol-2,3-dioxygenase respectively by 63,91% and 63,94% in comparison to the control variant. Under the same conditions SWNT have positive influence on the catechol-1,2-dioxygenase activity by 30,12% in comparison to the control. The data from this study are optimistic in relation to the future application of carbon nanoparticles, such as specific nanomodulators in bioremediation technologies for sediments, activated sludge, compost and other resources, polluted with xenobiotics.
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Wilding M, Scott C, Peat TS, Newman J. X-ray crystal structure of a malonate-semialdehyde dehydrogenase from Pseudomonas sp. strain AAC. Acta Crystallogr F Struct Biol Commun 2017; 73:24-28. [PMID: 28045390 PMCID: PMC5287376 DOI: 10.1107/s2053230x16020008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [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: 11/05/2016] [Accepted: 12/15/2016] [Indexed: 11/11/2022] Open
Abstract
The NAD-dependent malonate-semialdehyde dehydrogenase KES23460 from Pseudomonas sp. strain AAC makes up half of a bicistronic operon responsible for β-alanine catabolism to produce acetyl-CoA. The KES23460 protein has been heterologously expressed, purified and used to generate crystals suitable for X-ray diffraction studies. The crystals belonged to space group P212121 and diffracted X-rays to beyond 3 Å resolution using the microfocus beamline of the Australian Synchrotron. The structure was solved using molecular replacement, with a monomer from PDB entry 4zz7 as the search model.
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Affiliation(s)
- Matthew Wilding
- Land and Water, CSIRO, GPO Box 1700, Canberra, ACT 2601, Australia
| | - Colin Scott
- Land and Water, CSIRO, GPO Box 1700, Canberra, ACT 2601, Australia
| | - Thomas S. Peat
- Biomedical Program, Manufacturing, CSIRO, 343 Royal Parade, Parkville, VIC 3052, Australia
| | - Janet Newman
- Biomedical Program, Manufacturing, CSIRO, 343 Royal Parade, Parkville, VIC 3052, Australia
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Wilding M, Scott C, Newman J, Peat TS. Crystal structure of a putrescine aminotransferase from Pseudomonas sp. strain AAC. Acta Crystallogr F Struct Biol Commun 2017; 73:29-35. [PMID: 28045391 PMCID: PMC5287375 DOI: 10.1107/s2053230x16019658] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [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: 10/28/2016] [Accepted: 12/08/2016] [Indexed: 11/10/2022] Open
Abstract
The putrescine aminotransferase KES24511 from Pseudomonas sp. strain AAC was previously identified as an industrially relevant enzyme based on the discovery that it is able to promiscuously catalyse the transamination of 12-aminododecanoic acid. Here, the cloning, heterologous expression, purification and successful crystallization of the KES24511 protein are reported, which ultimately generated crystals adopting space group I2. The crystals diffracted X-rays to 2.07 Å resolution and data were collected using the microfocus beamline of the Australian Synchrotron. The structure was solved using molecular replacement, with a monomer from PDB entry 4a6t as the search model.
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Affiliation(s)
- Matthew Wilding
- Land and Water, CSIRO, GPO Box 1700, Canberra, ACT 2601, Australia
| | - Colin Scott
- Land and Water, CSIRO, GPO Box 1700, Canberra, ACT 2601, Australia
| | - Janet Newman
- Biomedical Program, CSIRO, 343 Royal Parade, Parkville, VIC 3052, Australia
| | - Thomas S. Peat
- Biomedical Program, CSIRO, 343 Royal Parade, Parkville, VIC 3052, Australia
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Rouse SL, Hawthorne WJ, Lambert S, Morgan ML, Hare SA, Matthews S. Purification, crystallization and characterization of the Pseudomonas outer membrane protein FapF, a functional amyloid transporter. Acta Crystallogr F Struct Biol Commun 2016; 72:892-896. [PMID: 27917837 PMCID: PMC5137466 DOI: 10.1107/s2053230x16017921] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [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: 09/15/2016] [Accepted: 11/08/2016] [Indexed: 11/12/2023] Open
Abstract
Bacteria often produce extracellular amyloid fibres via a multi-component secretion system. Aggregation-prone, unstructured subunits cross the periplasm and are secreted through the outer membrane, after which they self-assemble. Here, significant progress is presented towards solving the high-resolution crystal structure of the novel amyloid transporter FapF from Pseudomonas, which facilitates the secretion of the amyloid-forming polypeptide FapC across the bacterial outer membrane. This represents the first step towards obtaining structural insight into the products of the Pseudomonas fap operon. Initial attempts at crystallizing full-length and N-terminally truncated constructs by refolding techniques were not successful; however, after preparing FapF106-430 from the membrane fraction, reproducible crystals were obtained using the sitting-drop method of vapour diffusion. Diffraction data have been processed to 2.5 Å resolution. These crystals belonged to the monoclinic space group C121, with unit-cell parameters a = 143.4, b = 124.6, c = 80.4 Å, α = γ = 90, β = 96.32° and three monomers in the asymmetric unit. It was found that the switch to complete detergent exchange into C8E4 was crucial for forming well diffracting crystals, and it is suggested that this combined with limited proteolysis is a potentially useful protocol for membrane β-barrel protein crystallography. The three-dimensional structure of FapF will provide invaluable information on the mechanistic differences of biogenesis between the curli and Fap functional amyloid systems.
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Affiliation(s)
- Sarah L. Rouse
- Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, England
| | - Wlliam J. Hawthorne
- Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, England
| | - Sebastian Lambert
- Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543, Singapore
| | - Marc L. Morgan
- Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, England
| | - Stephen A. Hare
- Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, England
| | - Stephen Matthews
- Life Sciences, Imperial College London, South Kensington, London SW7 2AZ, England
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40
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Zhang L, Peng Y. Noninvasive Qualitative and Quantitative Assessment of Spoilage Attributes of Chilled Pork Using Hyperspectral Scattering Technique. Appl Spectrosc 2016; 70:1309-1320. [PMID: 27340214 DOI: 10.1177/0003702816654060] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [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: 03/26/2015] [Accepted: 11/30/2015] [Indexed: 06/06/2023]
Abstract
The objective of this research was to develop a rapid noninvasive method for quantitative and qualitative determination of chilled pork spoilage. Microbiological, physicochemical, and organoleptic characteristics such as the total viable count (TVC), Pseudomonas spp., total volatile basic-nitrogen (TVB-N), pH value, and color parameter L* were determined to appraise pork quality. The hyperspectral scattering characteristics from 54 meat samples were fitted by four-parameter modified Gompertz function accurately. Support vector machines (SVM) was applied to establish quantitative prediction model between scattering fitting parameters and reference values. In addition, partial least squares discriminant analysis (PLS-DA) and Bayesian analysis were utilized as supervised and unsupervised techniques for the qualitative identification of meat spoilage. All stored chilled meat samples were classified into three grades: "fresh," "semi-fresh," and "spoiled." Bayesian classification model was superior to PLS-DA with overall classification accuracy of 92.86%. The results demonstrated that hyperspectral scattering technique combined with SVM and Bayesian possessed a powerful capability for meat spoilage assessment rapidly and noninvasively.
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Affiliation(s)
- Leilei Zhang
- National R&D Center for Agro-processing Equipment, College of Engineering, China Agricultural University, Beijing, China College of life science, China Jiliang University, Hangzhou, China
| | - Yankun Peng
- National R&D Center for Agro-processing Equipment, College of Engineering, China Agricultural University, Beijing, China
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Tedesco P, Maida I, Palma Esposito F, Tortorella E, Subko K, Ezeofor CC, Zhang Y, Tabudravu J, Jaspars M, Fani R, de Pascale D. Antimicrobial Activity of Monoramnholipids Produced by Bacterial Strains Isolated from the Ross Sea (Antarctica). Mar Drugs 2016; 14:md14050083. [PMID: 27128927 PMCID: PMC4882557 DOI: 10.3390/md14050083] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2015] [Revised: 04/18/2016] [Accepted: 04/18/2016] [Indexed: 11/16/2022] Open
Abstract
Microorganisms living in extreme environments represent a huge reservoir of novel antimicrobial compounds and possibly of novel chemical families. Antarctica is one of the most extraordinary places on Earth and exhibits many distinctive features. Antarctic microorganisms are well known producers of valuable secondary metabolites. Specifically, several Antarctic strains have been reported to inhibit opportunistic human pathogens strains belonging to Burkholderia cepacia complex (Bcc). Herein, we applied a biodiscovery pipeline for the identification of anti-Bcc compounds. Antarctic sub-sea sediments were collected from the Ross Sea, and used to isolate 25 microorganisms, which were phylogenetically affiliated to three bacterial genera (Psychrobacter, Arthrobacter, and Pseudomonas) via sequencing and analysis of 16S rRNA genes. They were then subjected to a primary cell-based screening to determine their bioactivity against Bcc strains. Positive isolates were used to produce crude extracts from microbial spent culture media, to perform the secondary screening. Strain Pseudomonas BNT1 was then selected for bioassay-guided purification employing SPE and HPLC. Finally, LC-MS and NMR structurally resolved the purified bioactive compounds. With this strategy, we achieved the isolation of three rhamnolipids, two of which were new, endowed with high (MIC < 1 μg/mL) and unreported antimicrobial activity against Bcc strains.
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Affiliation(s)
- Pietro Tedesco
- Institute of Protein Biochemistry, National Research Council, Via P. Castellino, 111, I-80131 Naples, Italy.
| | - Isabel Maida
- Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto Fiorentino (FI), Italy.
| | - Fortunato Palma Esposito
- Institute of Protein Biochemistry, National Research Council, Via P. Castellino, 111, I-80131 Naples, Italy.
| | - Emiliana Tortorella
- Institute of Protein Biochemistry, National Research Council, Via P. Castellino, 111, I-80131 Naples, Italy.
| | - Karolina Subko
- Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Old Aberdeen, AB24 3UE Scotland, UK.
| | - Chidinma Christiana Ezeofor
- Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Old Aberdeen, AB24 3UE Scotland, UK.
| | - Ying Zhang
- Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Old Aberdeen, AB24 3UE Scotland, UK.
| | - Jioji Tabudravu
- Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Old Aberdeen, AB24 3UE Scotland, UK.
| | - Marcel Jaspars
- Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Old Aberdeen, AB24 3UE Scotland, UK.
| | - Renato Fani
- Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto Fiorentino (FI), Italy.
| | - Donatella de Pascale
- Institute of Protein Biochemistry, National Research Council, Via P. Castellino, 111, I-80131 Naples, Italy.
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Wang D, Yu JM, Dorosky RJ, Pierson LS, Pierson EA. The Phenazine 2-Hydroxy-Phenazine-1-Carboxylic Acid Promotes Extracellular DNA Release and Has Broad Transcriptomic Consequences in Pseudomonas chlororaphis 30-84. PLoS One 2016; 11:e0148003. [PMID: 26812402 PMCID: PMC4727817 DOI: 10.1371/journal.pone.0148003] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [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: 11/19/2015] [Accepted: 01/11/2016] [Indexed: 01/04/2023] Open
Abstract
Enhanced production of 2-hydroxy-phenazine-1-carboxylic acid (2-OH-PCA) by the biological control strain Pseudomonas chlororaphis 30–84 derivative 30-84O* was shown previously to promote cell adhesion and alter the three-dimensional structure of surface-attached biofilms compared to the wild type. The current study demonstrates that production of 2-OH-PCA promotes the release of extracellular DNA, which is correlated with the production of structured biofilm matrix. Moreover, the essential role of the extracellular DNA in maintaining the mass and structure of the 30–84 biofilm matrix is demonstrated. To better understand the role of different phenazines in biofilm matrix production and gene expression, transcriptomic analyses were conducted comparing gene expression patterns of populations of wild type, 30-84O* and a derivative of 30–84 producing only PCA (30-84PCA) to a phenazine defective mutant (30-84ZN) when grown in static cultures. RNA-Seq analyses identified a group of 802 genes that were differentially expressed by the phenazine producing derivatives compared to 30-84ZN, including 240 genes shared by the two 2-OH-PCA producing derivatives, the wild type and 30-84O*. A gene cluster encoding a bacteriophage-derived pyocin and its lysis cassette was upregulated in 2-OH-PCA producing derivatives. A holin encoded in this gene cluster was found to contribute to the release of eDNA in 30–84 biofilm matrices, demonstrating that the influence of 2-OH-PCA on eDNA production is due in part to cell autolysis as a result of pyocin production and release. The results expand the current understanding of the functions different phenazines play in the survival of bacteria in biofilm-forming communities.
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Affiliation(s)
- Dongping Wang
- Earth and Environmental Sciences, Los Alamos National Laboratory, Los Alamos, NM, 87544, United States of America
| | - Jun Myoung Yu
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, 77843–2132, United States of America
| | - Robert J. Dorosky
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, 77843–2132, United States of America
| | - Leland S. Pierson
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, 77843–2132, United States of America
| | - Elizabeth A. Pierson
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, 77843–2132, United States of America
- Department of Horticultural Sciences, Texas A&M University, College Station, TX, 77843–2133, United States of America
- * E-mail:
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Li J, Lu Q, de Toledo RA, Lu Y, Shim H. Effect of toluene concentration and hydrogen peroxide on Pseudomonas plecoglossicida cometabolizing mixture of cis-DCE and TCE in soil slurry. Environ Geochem Health 2015; 37:985-995. [PMID: 25963576 DOI: 10.1007/s10653-015-9707-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [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: 12/10/2014] [Accepted: 04/28/2015] [Indexed: 06/04/2023]
Abstract
An indigenous Pseudomonas sp., isolated from the regional contaminated soil and identified as P. plecoglossicida, was evaluated for its aerobic cometabolic removal of cis-1,2-dichloroethylene (cis-DCE) and trichloroethylene (TCE) using toluene as growth substrate in a laboratory-scale soil slurry. The aerobic simultaneous bioremoval of the cis-DCE/TCE/toluene mixture was studied under different conditions. Results showed that an increase in toluene concentration level from 300 to 900 mg/kg prolonged the lag phase for the bacterial growth, while the bioremoval extent for cis-DCE, TCE, and toluene declined as the initial toluene concentration increased. In addition, the cometabolic bioremoval of cis-DCE and TCE was inhibited by the presence of hydrogen peroxide as the additional oxygen source, while the bioremoval of toluene (900 mg/kg) was enhanced after 9 days of incubation. The subsequent addition of toluene did not improve the cometabolic bioremoval of cis-DCE and TCE. The obtained results would help to enhance the applicability of bioremediation technology to the mixed waste contaminated sites.
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Affiliation(s)
- Junhui Li
- College of Natural Resources and Environmental Science, South China Agricultural University, Guangzhou, 510642, China
- Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau SAR, 999078, China
- Key Laboratory of the Ministry of Land and Resources for Construction Land Transformation, South China Agricultural University, Guangzhou, 510642, China
- Guangdong Provincial Key Laboratory of Land Use and Consolidation, South China Agricultural University, Guangzhou, 510642, China
| | - Qihong Lu
- Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau SAR, 999078, China
| | - Renata Alves de Toledo
- Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau SAR, 999078, China
| | - Ying Lu
- College of Natural Resources and Environmental Science, South China Agricultural University, Guangzhou, 510642, China.
| | - Hojae Shim
- Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau SAR, 999078, China.
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Varbanets LD, Zdorovenko EL, Kiprianova EA, Avdeeva LV, Brovarskaya OS, Rybalko SL. [Characterization of the Lipopolysaccharides of Pseudomonas chlororaphis]. Mikrobiologiia 2015; 84:680-690. [PMID: 26964357] [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: 06/05/2023]
Abstract
Lipopolysaccharides (LPS) from two strains ot Pseudomonas chlororaphis subsp. aureofaciens,UCM B-111 and UCM B-306, were isolated and characterized. The LPS preparations exhibited low toxicity, high pyrogenicity and high antiviral activity. Mild acid hydrolysis was used to obtain the O-specific polysaccharides. Their structures were established by monosaccharide analysis and determination of absolute configurations, as well as by 1D and 2D NMR spectroscopy. The O-polysaccharides were shown to contain the linear tri- or tetrasaccharide repeating units. Both O-polysaccharides were structurally heterogeneous: P. chlororaphis subsp. aureofaciens UCM B-111--> 4)-αD-GalpNAc6Ac-(1 --> 3)-β-D-QuipNAc-(1 --> 6)-αD-GlcpNAc-(l --> βD-GlcpNAc-(l --> 3)] GalNAc -60%; degree of the non-stoichiometric 6-O-acetylation of GalNAc -60%; P. chlorophis subsp. aureofaciens UCM B-306 --> 3)-α-D-Rhap-(1 --> 4)-α-D-GalpNAcAN-(1 --> 3)-αD-QuipNAc4NAc-(1 -->, where GalNAcAN is 2-acetamido-2-deoxy-D-galacturonamide, the degree of non-stoichiometric amidation of the GalNAcA residue -60%.
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Schmutzler K, Kracht ON, Schmid A, Buehler K. Trophic regulation of autoaggregation in Pseudomonas taiwanensis VLB120. Appl Microbiol Biotechnol 2015; 100:347-60. [PMID: 26428239 DOI: 10.1007/s00253-015-7006-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2015] [Revised: 09/03/2015] [Accepted: 09/12/2015] [Indexed: 01/01/2023]
Abstract
Five mutants of Pseudomonas taiwanensis VLB120ΔCeGFP showed significant autoaggregation when growing on defined carbohydrates or gluconate, while they grew as suspended cells on complex medium and on organic acids like citrate and succinate. Surprisingly, the respective mutations affected very different genes, although all five strains exhibited the same behaviour of aggregate formation. To elucidate the mechanism of the aggregative behaviour, the microbial adhesion to hydrocarbons (MATH) assay and contact angle measurements were performed that pointed to an increased cell surface hydrophobicity. Moreover, investigations of the outer layer of the cell membrane revealed a reduced amount of O-specific polysaccharides in the lipopolysaccharide of the mutant cells. To determine the regulation of the aggregation, reverse transcription quantitative real-time PCR was performed and, irrespective of the mutation, the transcription of a gene encoding a putative phosphodiesterase, which is degrading the global second messenger cyclic diguanylate, was decreased or even deactivated in all mutants. In summary, it appears that the trophic autoaggregation was regulated via cyclic diguanylate and a link between the cellular cyclic diguanylate concentration and the lipopolysaccharide composition of P. taiwanensis VLB120ΔCeGFP is suggested.
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Affiliation(s)
- Karolin Schmutzler
- Laboratory of Chemical Biotechnology, Department of Biochemical and Chemical Engineering, TU Dortmund University, Emil-Figge-Strasse 66, 44227, Dortmund, Germany
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318, Leipzig, Germany
| | - Octavia Natascha Kracht
- Laboratory of Chemical Biotechnology, Department of Biochemical and Chemical Engineering, TU Dortmund University, Emil-Figge-Strasse 66, 44227, Dortmund, Germany
| | - Andreas Schmid
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318, Leipzig, Germany
| | - Katja Buehler
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318, Leipzig, Germany.
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Vaishnav A, Kumari S, Jain S, Varma A, Choudhary DK. Putative bacterial volatile-mediated growth in soybean (Glycine max L. Merrill) and expression of induced proteins under salt stress. J Appl Microbiol 2015; 119:539-51. [PMID: 26042866 DOI: 10.1111/jam.12866] [Citation(s) in RCA: 87] [Impact Index Per Article: 9.7] [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: 02/16/2015] [Revised: 05/23/2015] [Accepted: 05/23/2015] [Indexed: 12/28/2022]
Abstract
AIMS Plant root-associated rhizobacteria elicit plant immunity referred to as induced systemic tolerance (IST) against multiple abiotic stresses. Among multibacterial determinants involved in IST, the induction of IST and promotion of growth by putative bacterial volatile compounds (VOCs) is reported in the present study. METHODS AND RESULTS To characterize plant proteins induced by putative bacterial VOCs, proteomic analysis was performed by MALDI-MS/MS after exposure of soybean seedlings to a new strain of plant growth promoting rhizobacteria (PGPR) Pseudomonas simiae strain AU. Furthermore, expression analysis by Western blotting confirmed that the vegetative storage protein (VSP), gamma-glutamyl hydrolase (GGH) and RuBisCo large chain proteins were significantly up-regulated by the exposure to AU strain and played a major role in IST. VSP has preponderant roles in N accumulation and mobilization, acid phosphatase activity and Na(+) homeostasis to sustain plant growth under stress condition. More interestingly, plant exposure to the bacterial strain significantly reduced Na(+) and enhanced K(+) and P content in root of soybean seedlings under salt stress. In addition, high accumulation of proline and chlorophyll content also provided evidence of protection against osmotic stress during the elicitation of IST by bacterial exposure. CONCLUSIONS The present study reported for the first time that Ps. simiae produces a putative volatile blend that can enhance soybean seedling growth and elicit IST against 100 mmol l(-1) NaCl stress condition. SIGNIFICANCE AND IMPACT OF THE STUDY The identification of such differentially expressed proteins provide new targets for future studies that will allow assessment of their physiological roles and significance in the response of glycophytes to stresses. Further work should uncover more about the chemical side of VOC compounds and a detailed study about their molecular mechanism responsible for plant growth.
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Affiliation(s)
- A Vaishnav
- Amity Institute of Microbial Technology (AIMT), Noida, India
| | - S Kumari
- Amity Institute of Microbial Technology (AIMT), Noida, India
| | - S Jain
- Amity Institute of Microbial Technology (AIMT), Noida, India
| | - A Varma
- Amity Institute of Microbial Technology (AIMT), Noida, India
| | - D K Choudhary
- Amity Institute of Microbial Technology (AIMT), Noida, India
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Anikhovskaya IA, Kubatiev AA, Salakhov IM, Tebloev KI, Yakovlev MY. [Changes of endotoxin concentration in blood serum in patients with uncomplicated acute myocardial Q-infarction]. Patol Fiziol Eksp Ter 2015:55-61. [PMID: 26852597] [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: 06/05/2023]
Abstract
The effectiveness of acute myocardial infarction (AMI) treatment does not correspond to high material costs for the study of its pathogenesis and development of new drugs. This circumstance gives the grounds to assume existence of nowadays unknown mechanisms of emergence and development of this disease. High probability of participation of endotoxin (ET) in the pathogenesis of AMI was theoretically proved by us for more than a quarter of the century ago, but it's clinical evidence to date is not found yet. As a result of the study a significant increase of endotoxin (ET) concentration in the blood serum of patients with AMI increasing from 1 to 14 day of the disease has been found. In women the concentration of ET was higher than in men. It allows to qualify the EA as a factor probably influencing the known difference in AMI tolerance in men and women. The source of ET were Bacteroides (most often--67.8% of patients), Klebsiella, Pseudomonas, Proteus, Escherichia coli. One or two bacteria more often took part in the development of EA. In 9.1% of patients the etiology of EA could not be verified, what indicates the presence of other sources of EA, not evaluated in this study. In 25% of patients with AMI serologic evidence of systemic candidiasis, caused by candida Albicans, has been found, what is able to enhance the biological effects of ET.
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Dave BP, Ghevariya CM, Bhatt JK, Dudhagara DR, Rajpara RK. Enhanced chrysene degradation by a mixed culture Biorem-CGBD using response surface design. Indian J Exp Biol 2015; 53:256-263. [PMID: 26040022] [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: 06/04/2023]
Abstract
Degradation of chrysene, a four ringed highly carcinogenic polycyclic aromatic hydrocarbon (PAH) has been demonstrated by bacterial mixed culture Biorem-CGBD comprising Achromobacter xylosoxidans, Pseudomonas sp. and Sphingomonas sp., isolated from crude oil polluted saline sites at Bhavnagar coast, Gujarat, India. A full factorial Central Composite Design (CCD) using Response Surface Methodology (RSM) was applied to construct response surfaces, predicting 41.93% of maximum chrysene degradation with an experimental validation of 66.45% chrysene degradation on 15th day, using a combination of 0.175, 0.175 and 0.385 mL of OD600 = 1 inoculum of A. xylosoxidans, Pseudomonas sp. and Sphingomonas sp., respectively and a regression coefficient (R2) of 0.9485 indicating reproducibility of the experiment. It was observed that chrysene degradation can be successfully enhanced using RSM, making mixed culture Biorem-CGBD a potential bioremediation target for PAH contaminated saline sites.
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Mageswari A, Subramanian P, Ravindran V, Yesodharan S, Bagavan A, Rahuman AA, Karthikeyan S, Gothandam KM. Synthesis and larvicidal activity of low-temperature stable silver nanoparticles from psychrotolerant Pseudomonas mandelii. Environ Sci Pollut Res Int 2015; 22:5383-5394. [PMID: 25342455 DOI: 10.1007/s11356-014-3735-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2014] [Accepted: 10/15/2014] [Indexed: 06/04/2023]
Abstract
Applications based on silver nanoparticles (AgNPs) are limited by low temperatures, which cause aggregation of the nanoparticle fraction, leading to reduced efficacy of their products. We aimed at studying AgNP synthesis by psychrotolerant bacteria, its stability under long-term storage, and larvicidal activity under low-temperature conditions. Electron and atomic force microscopy studies revealed that 6 among 22 psychrotolerant isolates synthesized AgNPs with an average diameter of 1.9-14.1 nm. Pseudomonas mandelii SR1 synthesized the least-sized AgNPs with an average diameter of 1.9-10 nm, at temperatures as low as 12 °C without aggregate formation, and the synthesized nanoparticles were stable for up to 19 months of storage period. On studying their larvicidal activity, LC90 (lethal concentration) values against Anopheles subpictus and Culex tritaeniorhynchus larvae were at 31.7 and 35.6 mg/L, respectively. Stable non-aggregate AgNPs at low-temperature conditions from P. mandelii SR1, coupled with their larvicidal property, can be applied to control larval populations in water bodies located in seasonal or permanently cold environments.
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Affiliation(s)
- Anbazhagan Mageswari
- School of Bio Sciences and Technology, VIT University, Vellore, Tamil Nadu, 632014, India
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Calderón CE, Ramos C, de Vicente A, Cazorla FM. Comparative Genomic Analysis of Pseudomonas chlororaphis PCL1606 Reveals New Insight into Antifungal Compounds Involved in Biocontrol. Mol Plant Microbe Interact 2015; 28:249-260. [PMID: 25679537 DOI: 10.1094/mpmi-10-14-0326-fi] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Pseudomonas chlororaphis PCL1606 is a rhizobacterium that has biocontrol activity against many soilborne phytopathogenic fungi. The whole genome sequence of this strain was obtained using the Illumina Hiseq 2000 sequencing platform and was assembled using SOAP denovo software. The resulting 6.66-Mb complete sequence of the PCL1606 genome was further analyzed. A comparative genomic analysis using 10 plant-associated strains within the fluorescent Pseudomonas group, including the complete genome of P. chlororaphis PCL1606, revealed a diverse spectrum of traits involved in multitrophic interactions with plants and microbes as well as biological control. Phylogenetic analysis of these strains using eight housekeeping genes clearly placed strain PCL1606 into the P. chlororaphis group. The genome sequence of P. chlororaphis PCL1606 revealed the presence of sequences that were homologous to biosynthetic genes for the antifungal compounds 2-hexyl, 5-propyl resorcinol (HPR), hydrogen cyanide, and pyrrolnitrin; this is the first report of pyrrolnitrin encoding genes in this P. chlororaphis strain. Single-, double-, and triple-insertional mutants in the biosynthetic genes of each antifungal compound were used to test their roles in the production of these antifungal compounds and in antagonism and biocontrol of two fungal pathogens. The results confirmed the function of HPR in the antagonistic phenotype and in the biocontrol activity of P. chlororaphis PCL1606.
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