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Penman R, Kariuki R, Shaw ZL, Dekiwadia C, Christofferson AJ, Bryant G, Vongsvivut J, Bryant SJ, Elbourne A. Gold nanoparticle adsorption alters the cell stiffness and cell wall bio-chemical landscape of Candida albicans fungal cells. J Colloid Interface Sci 2024; 654:390-404. [PMID: 37852025 DOI: 10.1016/j.jcis.2023.10.017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 09/08/2023] [Accepted: 10/04/2023] [Indexed: 10/20/2023]
Abstract
HYPOTHESIS Nanomaterials have been extensively investigated for a wide range of biomedical applications, including as antimicrobial agents, drug delivery vehicles, and diagnostic devices. The commonality between these biomedical applications is the necessity for the nanoparticle to interact with or pass through the cellular wall and membrane. Cell-nanomaterial interactions/uptake can occur in various ways, including adhering to the cell wall, forming aggregates on the surface, becoming absorbed within the cell wall itself, or transversing into the cell cytoplasm. These interactions are common to mammalian cells, bacteria, and yeast cells. This variety of interactions can cause changes to the integrity of the cell wall and the cell overall, but the precise mechanisms underpinning such interactions remain poorly understood. Here, we investigate the interaction between commonly investigated gold nanoparticles (AuNPs) and the cell wall/membrane of a model fungal cell to explore the general effects of interaction and uptake. EXPERIMENTS The interactions between 100 nm citrate-capped AuNPs and the cell wall of Candida albicans fungal cells were studied using a range of advanced microscopy techniques, including atomic force microscopy, confocal laser scanning microscopy, scanning electron microscopy, transmission electron microscopy, and synchrotron-FTIR micro-spectroscopy. FINDINGS In most cases, particles adhered on the cell surface, although instances of particles being up-taken into the cell cytoplasm and localised within the cell wall and membrane were also observed. There was a measurable increase in the stiffness of the fungal cell after AuNPs were introduced. Analysis of the synchrotron-FTIR data showed significant changes in spectral features associated with phospholipids and proteins after exposure to AuNPs.
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Affiliation(s)
- Rowan Penman
- School of Science, STEM College, RMIT University, Melbourne, VIC 3001, Australia
| | - Rashad Kariuki
- School of Science, STEM College, RMIT University, Melbourne, VIC 3001, Australia
| | - Z L Shaw
- School of Engineering, STEM College, RMIT University, Melbourne, VIC 3001, Australia
| | - Chaitali Dekiwadia
- RMIT Microscopy and Microanalysis Facility (RMMF), RMIT University, Melbourne, Victoria 3001, Australia
| | | | - Gary Bryant
- School of Science, STEM College, RMIT University, Melbourne, VIC 3001, Australia
| | - Jitraporn Vongsvivut
- Infrared Microspectroscopy (IRM) Beamline, ANSTO - Australian Synchrotron, Clayton, VIC 3168, Australia
| | - Saffron J Bryant
- School of Science, STEM College, RMIT University, Melbourne, VIC 3001, Australia.
| | - Aaron Elbourne
- School of Science, STEM College, RMIT University, Melbourne, VIC 3001, Australia.
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Haslene‐Hox H, Nærdal GK, Mørch Y, Hageskal G, Tøndervik A, Turøy AV, Johnsen H, Klinkenberg G, Sletta H. High-throughput assay for effect screening of amphotericin B and bioactive components on filamentous Candida albicans. J Appl Microbiol 2022; 133:3113-3125. [PMID: 35947058 PMCID: PMC9804330 DOI: 10.1111/jam.15770] [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] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Revised: 07/01/2022] [Accepted: 08/06/2022] [Indexed: 01/05/2023]
Abstract
AIMS The aim of this study was to develop a high-throughput robotic microtiter plate-based screening assay for Candida albicans, optimizing growth conditions to replicate the filamentous biofilm growth found in vivo, and subsequently, to demonstrate the assay by evaluating the effect of nutritional drinks alone and in combination with the antifungal amphotericin B (AmB). METHODS AND RESULTS Candida albicans cultured in a defined growth medium showed filamentous growth in microcolonies, mimicking the morphology of oral mucosal disease (oral candidiasis). Addition of nutrient drinks containing fruit juices, fish oil and whey protein to the medium resulted in changed morphology and promoted growth as free yeast cells and with weak biofilm structures. Minimum inhibitory concentration of AmB on the biofilms was 0.25 μg ml-1 , and this was eightfold reduced (0.0038 μg ml-1 ) in the presence of the nutritional drinks. CONCLUSIONS The established assay demonstrated applicability for screening of antifungal and anti-biofilm effects of bioactive substances on C. albicans biofilm with clinically relevant morphology. SIGNIFICANCE AND IMPACT OF THE STUDY Candida albicans is the causative agent of the majority of fungal infections globally. The filamentous morphology of C. albicans and the ability to form biofilm are traits known to increase virulence and resistance towards antifungals. This study describes the development of a plate-based in vitro screening method mimicking the filamentous morphology of C. albicans found in vivo. The assay established can thus facilitate efficient antifungal drug discovery and development.
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Affiliation(s)
- Hanne Haslene‐Hox
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Guro Kruge Nærdal
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Yrr Mørch
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Gunhild Hageskal
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Anne Tøndervik
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | | | - Heidi Johnsen
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Geir Klinkenberg
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
| | - Håvard Sletta
- Department of Biotechnology and NanomedicineSINTEF ASTrondheimNorway
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Jung S, MacConaghy KI, Guarnieri MT, Kaar JL, Stoykovich MP. Quantification of Metabolic Products from Microbial Hosts in Complex Media Using Optically Diffracting Hydrogels. ACS Appl Bio Mater 2022; 5:1252-1258. [PMID: 35166523 DOI: 10.1021/acsabm.1c01267] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We herein describe a highly versatile platform approach for the in situ and real-time screening of microbial biocatalysts for enhanced production of bioproducts using photonic crystal hydrogels. This approach was demonstrated by preparing optically diffracting films based on polymerized N-isopropylacrylamide that contracted in the presence of alcohols and organic acids. The hydrogel films were prepared in a microwell plate format, which allows for high-throughput screening, and characterized optically using a microwell plate reader. While demonstrating the ability to detect a broad range of relevant alcohols and organic acids, we showed that the response of the films correlated strongly with the octanol-water partition coefficient (log P) of the analyte. Differences in the secretion of ethanol and succinic acid from strains of Zymomonas mobilis and Actinobacillus succinogenes, respectively, were further detected via optical characterization of the films. These differences, which in some cases were as low as ∼3 g/L, were confirmed by high-performance liquid chromatography, thereby demonstrating the sensitivity of this approach. Our findings highlight the potential utility of this multiplexed approach for the detection of small organic analytes in complex biological media, which overcomes a major challenge in conventional optical sensing methods.
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Affiliation(s)
- Sukwon Jung
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, Colorado 80303, United States
| | - Kelsey I MacConaghy
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, Colorado 80303, United States
| | - Michael T Guarnieri
- Biosciences Center, National Renewable Energy Laboratory, Golden, Colorado 80401, United States
| | - Joel L Kaar
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, Colorado 80303, United States
| | - Mark P Stoykovich
- Pritzker School of Molecular Engineering, University of Chicago, Chicago, Illinois 60637, United States
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Shaw ZL, Cheeseman S, Huang LZY, Penman R, Ahmed T, Bryant SJ, Bryant G, Christofferson AJ, Orrell-Trigg R, Dekiwadia C, Truong VK, Vongsvivut JP, Walia S, Elbourne A. Illuminating the biochemical interaction of antimicrobial few-layer black phosphorus with microbial cells using synchrotron macro-ATR-FTIR. J Mater Chem B 2022; 10:7527-7539. [PMID: 35024716 DOI: 10.1039/d1tb02575a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
In the fight against drug-resistant pathogenic bacterial and fungal cells, low-dimensional materials are emerging as a promising alternative treatment method. Specifically, few-layer black phosphorus (BP) has demonstrated its effectiveness against a wide range of pathogenic bacterial and fungal cells with studies suggesting low cytotoxicity towards healthy mammalian cells. However, the antimicrobial mechanism of action of BP is not well understood. Before new applications for this material can be realised, further in-depth investigations are required. In this work, the biochemical interaction between BP and a series of microbial cells is investigated using a variety of microscopy and spectroscopy techniques to provide a greater understanding of the antimicrobial mechanism. Synchrotron macro-attenuated total reflection-Fourier transform infrared (ATR-FTIR) micro-spectroscopy is used to elucidate the chemical changes occurring outside and within the cell of interest after exposure to BP nanoflakes. The ATR-FTIR data, coupled with high-resolution microscopy, reveals major physical and bio-chemical changes to the phospholipids and amide I and II proteins, as well as minor chemical changes to the structural polysaccharides and nucleic acids when compared to untreated cells. These changes can be attributed to the physical interaction of the BP nanoflakes with the cell membranes, combined with the oxidative stress induced by the degradation of the BP nanoflakes. This study provides insight into the biochemical interaction of BP nanoflakes with microbial cells, allowing for a better understanding of the antimicrobial mechanism of action that will be important for the next generation of applications such as implant coatings, wound dressings, or medical surfaces.
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Affiliation(s)
- Z L Shaw
- School of Engineering, College of Science, Engineering and Health, RMIT University, Melbourne, Victoria 3001, Australia.
| | - Samuel Cheeseman
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Louisa Z Y Huang
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Rowan Penman
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Taimur Ahmed
- School of Engineering, College of Science, Engineering and Health, RMIT University, Melbourne, Victoria 3001, Australia. .,Pak-Austria Fachhochschule: Institute of Applied Sciences and Technology, Haripur, 22620, Pakistan
| | - Saffron J Bryant
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Gary Bryant
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Andrew J Christofferson
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Rebecca Orrell-Trigg
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Chaitali Dekiwadia
- RMIT Microscopy and Microanalysis Facility (RMMF), RMIT University, Melbourne, Victoria 3001, Australia
| | - Vi Khanh Truong
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
| | - Jitraporn Pimm Vongsvivut
- Infrared Microspectroscopy Beamline, ANSTO Australian Synchrotron, Clayton, Victoria 3168, Australia
| | - Sumeet Walia
- School of Engineering, College of Science, Engineering and Health, RMIT University, Melbourne, Victoria 3001, Australia. .,Functional Materials and Microsystems Research Group and MicroNano Research Facility, RMIT University, Melbourne, Victoria 3001, Australia
| | - Aaron Elbourne
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne Victoria 3001, Australia.
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Cheeseman S, Shaw ZL, Vongsvivut J, Crawford RJ, Dupont MF, Boyce KJ, Gangadoo S, Bryant SJ, Bryant G, Cozzolino D, Chapman J, Elbourne A, Truong VK. Analysis of Pathogenic Bacterial and Yeast Biofilms Using the Combination of Synchrotron ATR-FTIR Microspectroscopy and Chemometric Approaches. Molecules 2021; 26:3890. [PMID: 34202224 DOI: 10.3390/molecules26133890] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Revised: 06/16/2021] [Accepted: 06/19/2021] [Indexed: 01/04/2023] Open
Abstract
Biofilms are assemblages of microbial cells, extracellular polymeric substances (EPS), and other components extracted from the environment in which they develop. Within biofilms, the spatial distribution of these components can vary. Here we present a fundamental characterization study to show differences between biofilms formed by Gram-positive methicillin-resistant Staphylococcus aureus (MRSA), Gram-negative Pseudomonas aeruginosa, and the yeast-type Candida albicans using synchrotron macro attenuated total reflectance-Fourier transform infrared (ATR-FTIR) microspectroscopy. We were able to characterise the pathogenic biofilms' heterogeneous distribution, which is challenging to do using traditional techniques. Multivariate analyses revealed that the polysaccharides area (1200-950 cm-1) accounted for the most significant variance between biofilm samples, and other spectral regions corresponding to amides, lipids, and polysaccharides all contributed to sample variation. In general, this study will advance our understanding of microbial biofilms and serve as a model for future research on how to use synchrotron source ATR-FTIR microspectroscopy to analyse their variations and spatial arrangements.
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Chen Y, Wu HL, Sun XD, Wang T, Fang H, Chang YY, Cheng L, Ding YJ, Yu RQ. Simultaneous and fast determination of bisphenol A and diphenyl carbonate in polycarbonate plastics by using excitation-emission matrix fluorescence couples with second-order calibration method. Spectrochim Acta A Mol Biomol Spectrosc 2019; 216:283-289. [PMID: 30909084 DOI: 10.1016/j.saa.2019.03.039] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2018] [Revised: 03/15/2019] [Accepted: 03/16/2019] [Indexed: 06/09/2023]
Abstract
A new strategy for the determination of bisphenol A (BPA) and diphenyl carbonate (DPC) in polycarbonate plastics has been proposed, combing excitation-emission matrix fluorescence and second-order chemometrics methods. The studied compounds are two of the most frequently used chemical raw materials and intermediates, which is mainly used for bio-chemical products. The method is fast and sensitive as it can avoid tedious pretreatment steps and large amounts of organic solvents consumption. Chemometrics allowed accurate and precise quantification of two target analytes even in the presence of severe spectral overlap, unknown and background interferences, which benefit from "second-order advantages" provided by chemometrics multivariate calibration. Reasonable quantification results were obtained in real plastics samples, with limits of detection for two analytes were 0.04 and 1.18 × 103 ng mL-1 and limits of quantitation were 0.11 and 3.58 × 103 ng mL-1. In addition, the average recoveries for BPA and DPC were 99.35% and 83.50% with relative standard deviation <2.30%. It was proved that the proposed method can be a useful and sensitive tool to the determination of BPA and DPC in different polycarbonate plastics with a simple sample pretreatment at low cost.
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Affiliation(s)
- Yue Chen
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Hai-Long Wu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China.
| | - Xiao-Dong Sun
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Tong Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Huan Fang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Yue-Yue Chang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Li Cheng
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Yu-Jie Ding
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
| | - Ru-Qin Yu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, China
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AlRabiah H, Allwood JW, Correa E, Xu Y, Goodacre R. pH plays a role in the mode of action of trimethoprim on Escherichia coli. PLoS One 2018; 13:e0200272. [PMID: 30005078 PMCID: PMC6044521 DOI: 10.1371/journal.pone.0200272] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Accepted: 06/20/2018] [Indexed: 01/08/2023] Open
Abstract
Metabolomics-based approaches were applied to understand interactions of trimethoprim with Escherichia coli K-12 at sub-minimum inhibitory concentrations (MIC≈0.2, 0.03 and 0.003 mg L-1). Trimethoprim inhibits dihydrofolate reductase and thereby is an indirect inhibitor of nucleic acid synthesis. Due to the basicity of trimethoprim, two pH levels (5 and 7) were selected which mimicked healthy urine pH. This also allowed investigation of the effect on bacterial metabolism when trimethoprim exists in different ionization states. UHPLC-MS was employed to detect trimethoprim molecules inside the bacterial cell and this showed that at pH 7 more of the drug was recovered compared to pH 5; this correlated with classical growth curve measurements. FT-IR spectroscopy was used to establish recovery of reproducible phenotypes under all 8 conditions (3 drug levels and control in 2 pH levels) and GC-MS was used to generate global metabolic profiles. In addition to finding direct mode-of-action effects where nucleotides were decreased at pH 7 with increasing trimethoprim levels, off-target pH-related effects were observed for many amino acids. Additionally, stress-related effects were observed where the osmoprotectant trehalose was higher at increased antibiotic levels at pH 7. This correlated with glucose and fructose consumption and increase in pyruvate-related products as well as lactate and alanine. Alanine is a known regulator of sugar metabolism and this increase may be to enhance sugar consumption and thus trehalose production. These results provide a wider view of the action of trimethoprim. Metabolomics indicated alternative metabolism areas to be investigated to further understand the off-target effects of trimethoprim.
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Affiliation(s)
- Haitham AlRabiah
- School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, Manchester, United Kingdom
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - J. William Allwood
- School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, Manchester, United Kingdom
- Environmental and Biochemical Sciences Group, The James Hutton Institute, Invergowrie, Dundee, Scotland United Kingdom
| | - Elon Correa
- School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, Manchester, United Kingdom
| | - Yun Xu
- School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, Manchester, United Kingdom
| | - Royston Goodacre
- School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, Manchester, United Kingdom
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MeGraw VE, Brown AR, Boothman C, Goodacre R, Morris K, Sigee D, Anderson L, Lloyd JR. A Novel Adaptation Mechanism Underpinning Algal Colonization of a Nuclear Fuel Storage Pond. mBio 2018; 9:e02395-17. [PMID: 29946053 PMCID: PMC6020298 DOI: 10.1128/mbio.02395-17] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [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: 12/21/2017] [Accepted: 05/16/2018] [Indexed: 11/20/2022] Open
Abstract
Geochemical analyses alongside molecular techniques were used to characterize the microbial ecology and biogeochemistry of an outdoor spent nuclear fuel storage pond at Sellafield, United Kingdom, that is susceptible to seasonal algal blooms that cause plant downtime. 18S rRNA gene profiling of the filtered biomass samples showed the increasing dominance of a species closely related to the alga Haematococcus pluvialis, alongside 16S rRNA genes affiliated with a diversity of freshwater bacteria, including Proteobacteria and Cyanobacteria High retention of 137Cs and 90Sr on pond water filters coincided with high levels of microbial biomass in the pond, suggesting that microbial colonization may have an important control on radionuclide fate in the pond. To interpret the unexpected dominance of Haematococcus species during bloom events in this extreme environment, the physiological response of H. pluvialis to environmentally relevant ionizing radiation doses was assessed. Irradiated laboratory cultures produced significant quantities of the antioxidant astaxanthin, consistent with pigmentation observed in pond samples. Fourier transform infrared (FT-IR) spectroscopy suggested that radiation did not have a widespread impact on the metabolic fingerprint of H. pluvialis in laboratory experiments, despite the 80-Gy dose. This study suggests that the production of astaxanthin-rich encysted cells may be related to the preservation of the Haematococcus phenotype, potentially allowing it to survive oxidative stress arising from radiation doses associated with the spent nuclear fuel. The oligotrophic and radiologically extreme conditions in this environment do not prevent extensive colonization by microbial communities, which play a defining role in controlling the biogeochemical fate of major radioactive species present.IMPORTANCE Spent nuclear fuel is stored underwater in large ponds prior to processing and disposal. Such environments are intensively radioactive but can be colonized by microorganisms. Colonization of such inhospitable radioactive ponds is surprising, and the survival mechanisms that microbes use is of fundamental interest. It is also important to study these unusual ecosystems, as microbes growing in the pond waters may accumulate radionuclides present in the waters (for bioremediation applications), while high cell loads can hamper management of the ponds due to poor visibility. In this study, an outdoor pond at the U.K. Sellafield facility was colonized by a seasonal bloom of microorganisms, able to accumulate high levels of 137Cs and 90Sr and dominated by the alga Haematococcus This organism is not normally associated with deep water bodies, but it can adapt to radioactive environments via the production of the pigment astaxanthin, which protects the cells from radiation damage.
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Affiliation(s)
- Victoria E MeGraw
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
| | - Ashley R Brown
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
| | - Christopher Boothman
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
| | - Royston Goodacre
- Manchester Institute of Biotechnology, The University of Manchester, Manchester, United Kingdom
| | - Katherine Morris
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
| | - David Sigee
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
| | - Lizzie Anderson
- Thorp Management Centre, Sellafield, Seascale, United Kingdom
| | - Jonathan R Lloyd
- Research Centre for Radwaste Disposal, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
- Williamson Research Centre for Molecular Environmental Science, School of Earth and Environmental Sciences, The University of Manchester, Manchester, United Kingdom
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Vásquez-Ponce F, Higuera-Llantén S, Pavlov MS, Ramírez-Orellana R, Marshall SH, Olivares-Pacheco J. Alginate overproduction and biofilm formation by psychrotolerant Pseudomonas mandelii depend on temperature in Antarctic marine sediments. ELECTRON J BIOTECHN 2017. [DOI: 10.1016/j.ejbt.2017.05.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
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10
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Ertesvåg H, Sletta H, Senneset M, Sun YQ, Klinkenberg G, Konradsen TA, Ellingsen TE, Valla S. Identification of genes affecting alginate biosynthesis in Pseudomonas fluorescens by screening a transposon insertion library. BMC Genomics 2017; 18:11. [PMID: 28049432 PMCID: PMC5210274 DOI: 10.1186/s12864-016-3467-7] [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] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2016] [Accepted: 12/23/2016] [Indexed: 12/16/2022] Open
Abstract
Background Polysaccharides often are necessary components of bacterial biofilms and capsules. Production of these biopolymers constitutes a drain on key components in the central carbon metabolism, but so far little is known concerning if and how the cells divide their resources between cell growth and production of exopolysaccharides. Alginate is an industrially important linear polysaccharide synthesized from fructose 6-phosphate by several bacterial species. The aim of this study was to identify genes that are necessary for obtaining a normal level of alginate production in alginate-producing Pseudomonas fluorescens. Results Polysaccharide biosynthesis is costly, since it utilizes nucleotide sugars and sequesters carbon. Consequently, transcription of the genes necessary for polysaccharide biosynthesis is usually tightly regulated. In this study we used an engineered P. fluorescens SBW25 derivative where all genes encoding the proteins needed for biosynthesis of alginate from fructose 6-phosphate and export of the polymer are expressed from inducible Pm promoters. In this way we would avoid identification of genes merely involved in regulating the expression of the alginate biosynthetic genes. The engineered strain was subjected to random transposon mutagenesis and a library of about 11500 mutants was screened for strains with altered alginate production. Identified inactivated genes were mainly found to encode proteins involved in metabolic pathways related to uptake and utilization of carbon, nitrogen and phosphor sources, biosynthesis of purine and tryptophan and peptidoglycan recycling. Conclusions The majority of the identified mutants resulted in diminished alginate biosynthesis while cell yield in most cases were less affected. In some cases, however, a higher final cell yield were measured. The data indicate that when the supplies of fructose 6-phosphate or GTP are diminished, less alginate is produced. This should be taken into account when bacterial strains are designed for industrial polysaccharide production. Electronic supplementary material The online version of this article (doi:10.1186/s12864-016-3467-7) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Helga Ertesvåg
- Department of Biotechnology, NTNU-Norwegian University of Science and Technology, Trondheim, Norway.
| | | | - Mona Senneset
- Department of Biotechnology, NTNU-Norwegian University of Science and Technology, Trondheim, Norway.,SINTEF Materials and Chemistry, Trondheim, Norway
| | - Yi-Qian Sun
- Department of Biotechnology, NTNU-Norwegian University of Science and Technology, Trondheim, Norway
| | | | | | | | - Svein Valla
- Department of Biotechnology, NTNU-Norwegian University of Science and Technology, Trondheim, Norway
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Sayqal A, Xu Y, Trivedi DK, AlMasoud N, Ellis DI, Muhamadali H, Rattray NJW, Webb C, Goodacre R. Metabolic analysis of the response of Pseudomonas putida DOT-T1E strains to toluene using Fourier transform infrared spectroscopy and gas chromatography mass spectrometry. Metabolomics 2016; 12:112. [PMID: 27398079 PMCID: PMC4916193 DOI: 10.1007/s11306-016-1054-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 06/04/2016] [Indexed: 01/09/2023]
Abstract
INTRODUCTION An exceptionally interesting stress response of Pseudomonas putida strains to toxic substances is the induction of efflux pumps that remove toxic chemical substances from the bacterial cell out to the external environment. To exploit these microorganisms to their full potential a deeper understanding of the interactions between the bacteria and organic solvents is required. Thus, this study focuses on investigation of metabolic changes in P. putida upon exposure to toluene. OBJECTIVE Investigate observable metabolic alterations during interactions of three strains of P. putida (DOT-T1E, and its mutants DOT-T1E-PS28 and DOT-T1E-18) with the aromatic hydrocarbon toluene. METHODS The growth profiles were measured by taking optical density (OD) measurement at 660 nm (OD660) at various time points during incubation. For fingerprinting analysis, Fourier-transform infrared (FT-IR) spectroscopy was used to investigate any phenotypic changes resulting from exposure to toluene. Metabolic profiling analysis was performed using gas chromatography-mass spectrometry (GC-MS). Principal component-discriminant function analysis (PC-DFA) was applied to the FT-IR data while multiblock principal component analysis (MB-PCA) and N-way analysis of variance (N-way ANOVA) were applied to the GC-MS data. RESULTS The growth profiles demonstrated the effect of toluene on bacterial cultures and the results suggest that the mutant P. putida DOT-T1E-18 was more sensitive (significantly affected) to toluene compared to the other two strains. PC-DFA on FT-IR data demonstrated the differentiation between different conditions of toluene on bacterial cells, which indicated phenotypic changes associated with the presence of the solvent within the cell. Fifteen metabolites associated with this phenotypic change, in P. putida due to exposure to solvent, were from central metabolic pathways. Investigation of MB-PCA loading plots and N-way ANOVA for condition | strain × time blocking (dosage of toluene) suggested ornithine as the most significant compound that increased upon solvent exposure. CONCLUSION The combination of metabolic fingerprinting and profiling with suitable multivariate analysis revealed some interesting leads for understanding the mechanism of Pseudomonas strains response to organic solvent exposure.
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Affiliation(s)
- Ali Sayqal
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Yun Xu
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Drupad K. Trivedi
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Najla AlMasoud
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - David I. Ellis
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Howbeer Muhamadali
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Nicholas J. W. Rattray
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Carole Webb
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
| | - Royston Goodacre
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, Manchester, M1 7DN UK
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Zheng H, Korendovych IV, Luk Y. Quantification of alginate by aggregation induced by calcium ions and fluorescent polycations. Anal Biochem 2016; 492:76-81. [DOI: 10.1016/j.ab.2015.09.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Revised: 09/13/2015] [Accepted: 09/14/2015] [Indexed: 11/19/2022]
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Brown AR, Correa E, Xu Y, AlMasoud N, Pimblott SM, Goodacre R, Lloyd JR. Phenotypic Characterisation of Shewanella oneidensis MR-1 Exposed to X-Radiation. PLoS One 2015; 10:e0131249. [PMID: 26098880 DOI: 10.1371/journal.pone.0131249] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Accepted: 05/29/2015] [Indexed: 12/01/2022] Open
Abstract
Biogeochemical processes mediated by Fe(III)-reducing bacteria such as Shewanella oneidensis have the potential to influence the post-closure evolution of a geological disposal facility for radioactive wastes and to affect the solubility of some radionuclides. Furthermore, their potential to reduce both Fe(III) and radionuclides can be harnessed for the bioremediation of radionuclide-contaminated land. As some such sites are likely to have significant radiation fluxes, there is a need to characterise the impact of radiation stress on such microorganisms. There have, however, been few global cell analyses on the impact of ionizing radiation on subsurface bacteria, so here we address the metabolic response of S. oneidensis MR-1 to acute doses of X-radiation. UV/Vis spectroscopy and CFU counts showed that although X-radiation decreased initial viability and extended the lag phase of batch cultures, final biomass yields remained unchanged. FT-IR spectroscopy of whole cells indicated an increase in lipid associated vibrations and decreases in vibrations tentatively assigned to nucleic acids, phosphate, saccharides and amines. MALDI-TOF-MS detected an increase in total protein expression in cultures exposed to 12 Gy. At 95 Gy, a decrease in total protein levels was generally observed, although an increase in a putative cold shock protein was observed, which may be related to the radiation stress response of this organism. Multivariate statistical analyses applied to these FT-IR and MALDI-TOF-MS spectral data suggested that an irradiated phenotype developed throughout subsequent generations. This study suggests that significant alteration to the metabolism of S. oneidensis MR-1 is incurred as a result of X-irradiation and that dose dependent changes to specific biomolecules characterise this response. Irradiated S. oneidensis also displayed enhanced levels of poorly crystalline Fe(III) oxide reduction, though the mechanism underpinning this phenomenon is unclear.
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He HJ, Sun DW. Toward enhancement in prediction of Pseudomonas counts distribution in salmon fillets using NIR hyperspectral imaging. Lebensm Wiss Technol 2015. [DOI: 10.1016/j.lwt.2015.01.036] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Muhamadali H, Xu Y, Ellis DI, Allwood JW, Rattray NJ, Correa E, Alrabiah H, Lloyd JR, Goodacre R. Metabolic Profiling of Geobacter sulfurreducens during Industrial Bioprocess Scale-Up. Appl Environ Microbiol 2015; 81:3288-98. [PMID: 25746987 DOI: 10.1128/AEM.00294-15] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2015] [Accepted: 02/24/2015] [Indexed: 11/20/2022] Open
Abstract
During the industrial scale-up of bioprocesses it is important to establish that the biological system has not changed significantly when moving from small laboratory-scale shake flasks or culturing bottles to an industrially relevant production level. Therefore, during upscaling of biomass production for a range of metal transformations, including the production of biogenic magnetite nanoparticles by Geobacter sulfurreducens, from 100-ml bench-scale to 5-liter fermentors, we applied Fourier transform infrared (FTIR) spectroscopy as a metabolic fingerprinting approach followed by the analysis of bacterial cell extracts by gas chromatography-mass spectrometry (GC-MS) for metabolic profiling. FTIR results clearly differentiated between the phenotypic changes associated with different growth phases as well as the two culturing conditions. Furthermore, the clustering patterns displayed by multivariate analysis were in agreement with the turbidimetric measurements, which displayed an extended lag phase for cells grown in a 5-liter bioreactor (24 h) compared to those grown in 100-ml serum bottles (6 h). GC-MS analysis of the cell extracts demonstrated an overall accumulation of fumarate during the lag phase under both culturing conditions, coinciding with the detected concentrations of oxaloacetate, pyruvate, nicotinamide, and glycerol-3-phosphate being at their lowest levels compared to other growth phases. These metabolites were overlaid onto a metabolic network of G. sulfurreducens, and taking into account the levels of these metabolites throughout the fermentation process, the limited availability of oxaloacetate and nicotinamide would seem to be the main metabolic bottleneck resulting from this scale-up process. Additional metabolite-feeding experiments were carried out to validate the above hypothesis. Nicotinamide supplementation (1 mM) did not display any significant effects on the lag phase of G. sulfurreducens cells grown in the 100-ml serum bottles. However, it significantly improved the growth behavior of cells grown in the 5-liter bioreactor by reducing the lag phase from 24 h to 6 h, while providing higher yield than in the 100-ml serum bottles.
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Zeng S, Wang L, Zhang L, Qu H, Gong X. Multi-criteria optimization for ultrasonic-assisted extraction of antioxidants from Pericarpium Citri Reticulatae using response surface methodology, an activity-based approach. J Sep Sci 2013; 36:1861-8. [DOI: 10.1002/jssc.201201126] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2012] [Revised: 03/16/2013] [Accepted: 03/17/2013] [Indexed: 11/08/2022]
Affiliation(s)
- Shanshan Zeng
- Pharmaceutical Informatics Institute; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou P. R. China
| | - Lu Wang
- Pharmaceutical Informatics Institute; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou P. R. China
| | - Lei Zhang
- Pharmaceutical Informatics Institute; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou P. R. China
| | - Haibin Qu
- Pharmaceutical Informatics Institute; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou P. R. China
| | - Xingchu Gong
- Pharmaceutical Informatics Institute; College of Pharmaceutical Sciences, Zhejiang University; Hangzhou P. R. China
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