101
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Patil Y, Junghare M, Müller N. Fermentation of glycerol by Anaerobium acetethylicum and its potential use in biofuel production. Microb Biotechnol 2016; 10:203-217. [PMID: 28004884 PMCID: PMC5270724 DOI: 10.1111/1751-7915.12484] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2016] [Revised: 10/27/2016] [Accepted: 11/10/2016] [Indexed: 11/29/2022] Open
Abstract
Growth of biodiesel industries resulted in increased coproduction of crude glycerol which is therefore becoming a waste product instead of a valuable 'coproduct'. Glycerol can be used for the production of valuable chemicals, e.g. biofuels, to reduce glycerol waste disposal. In this study, a novel bacterial strain is described which converts glycerol mainly to ethanol and hydrogen with very little amounts of acetate, formate and 1,2-propanediol as coproducts. The bacterium offers certain advantages over previously studied glycerol-fermenting microorganisms. Anaerobium acetethylicum during growth with glycerol produces very little side products and grows in the presence of maximum glycerol concentrations up to 1500 mM and in the complete absence of complex organic supplements such as yeast extract or tryptone. The highest observed growth rate of 0.116 h-1 is similar to that of other glycerol degraders, and the maximum concentration of ethanol that can be tolerated was found to be about 60 mM (2.8 g l-1 ) and further growth was likely inhibited due to ethanol toxicity. Proteome analysis as well as enzyme assays performed in cell-free extracts demonstrated that glycerol is degraded via glyceraldehyde-3-phosphate, which is further metabolized through the lower part of glycolysis leading to formation of mainly ethanol and hydrogen. In conclusion, fermentation of glycerol to ethanol and hydrogen by this bacterium represents a remarkable option to add value to the biodiesel industries by utilization of surplus glycerol.
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Affiliation(s)
- Yogita Patil
- Department of Biology, Microbial Ecology, University of Konstanz, Konstanz, D-78457, Germany
| | - Madan Junghare
- Department of Biology, Microbial Ecology, University of Konstanz, Konstanz, D-78457, Germany.,Konstanz Research School of Chemical Biology, University of Konstanz, Konstanz, D-78457, Germany
| | - Nicolai Müller
- Department of Biology, Microbial Ecology, University of Konstanz, Konstanz, D-78457, Germany
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102
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Magalhães RSS, De Lima KC, de Almeida DSG, De Mesquita JF, Eleutherio ECA. Trehalose-6-Phosphate as a Potential Lead Candidate for the Development of Tps1 Inhibitors: Insights from the Trehalose Biosynthesis Pathway in Diverse Yeast Species. Appl Biochem Biotechnol 2016; 181:914-924. [PMID: 27796871 DOI: 10.1007/s12010-016-2258-6] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2016] [Accepted: 09/19/2016] [Indexed: 11/30/2022]
Abstract
In some pathogens, trehalose biosynthesis is induced in response to stress as a protection mechanism. This pathway is an attractive target for antimicrobials as neither the enzymes, Tps1, and Tps2, nor is trehalose present in humans. Accumulation of T6P in Candida albicans, achieved by deletion of TPS2, resulted in strong reduction of fungal virulence. In this work, the effect of T6P on Tps1 activity was evaluated. Saccharomyces cerevisiae, C. albicans, and Candida tropicalis were used as experimental models. As expected, a heat stress induced both trehalose accumulation and increased Tps1 activity. However, the addition of 125 μM T6P to extracts obtained from stressed cells totally abolished or reduced in 50 and 60 % the induction of Tps1 activity in S. cerevisiae, C. tropicalis, and C. albicans, respectively. According to our results, T6P is an uncompetitive inhibitor of S. cerevisiae Tps1. This kind of inhibitor is able to decrease the rate of reaction to zero at increased concentrations. Based on the similarities found in sequence and function between Tps1 of S. cerevisiae and some pathogens and on the inhibitory effect of T6P on Tps1 activity observed in vitro, novel drugs can be developed for the treatment of infectious diseases caused by organisms whose infectivity and survival on the host depend on trehalose.
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Affiliation(s)
- Rayne S S Magalhães
- Department of Biochemistry, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Karina C De Lima
- Department of Biochemistry, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Diego S G de Almeida
- Department of Biochemistry, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Joelma F De Mesquita
- Department of Genetics and Molecular Biology, Federal University of the State of Rio de Janeiro (UNIRIO), Rio de Janeiro, Brazil
| | - Elis C A Eleutherio
- Department of Biochemistry, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil.
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103
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Zhu Z, Wu X, Lv B, Wu G, Wang J, Jiang W, Li P, He J, Chen J, Chen M, Bao D, Zhang J, Tan Q, Tang X. A new approach for breeding low-temperature-resistantVolvariella volvaceastrains: Genome shuffling in edible fungi. Biotechnol Appl Biochem 2016; 63:605-615. [DOI: 10.1002/bab.1420] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2014] [Accepted: 05/15/2015] [Indexed: 11/09/2022]
Affiliation(s)
- Ziping Zhu
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- School of Life Science; Taizhou University; Taizhou People's Republic of China
| | - Xiao Wu
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Beibei Lv
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Guogan Wu
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Jinbin Wang
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Wei Jiang
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Peng Li
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Jianhua He
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Jianzhong Chen
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
| | - Mingjie Chen
- National Engineering Research Center of Edible Fungi; Shanghai People's Republic of China
| | - Dapeng Bao
- National Engineering Research Center of Edible Fungi; Shanghai People's Republic of China
| | - Jinsong Zhang
- National Engineering Research Center of Edible Fungi; Shanghai People's Republic of China
| | - Qi Tan
- National Engineering Research Center of Edible Fungi; Shanghai People's Republic of China
| | - Xueming Tang
- Biotechnology Research Institute; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
- Key Laboratory of Agricultural Genetics and Breeding; Shanghai Academy of Agricultural Sciences; Shanghai People's Republic of China
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104
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Phylogenetic signal in phenotypic traits related to carbon source assimilation and chemical sensitivity in Acinetobacter species. Appl Microbiol Biotechnol 2016; 101:367-379. [PMID: 27734121 DOI: 10.1007/s00253-016-7866-0] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2016] [Revised: 08/31/2016] [Accepted: 09/16/2016] [Indexed: 10/20/2022]
Abstract
A common belief is that the phylogeny of bacteria may reflect molecular functions and phenotypic characteristics, pointing towards phylogenetic conservatism of traits. Here, we tested this hypothesis for a large set of Acinetobacter strains. Members of the genus Acinetobacter are widespread in nature, demonstrate a high metabolic diversity and are resistant to several environmental stressors. Notably, some species are known to cause opportunistic human infections. A total of 133 strains belonging to 33 species with validly published names, two genomic species and species of an as-yet unknown taxonomic status were analyzed using the GENIII technology of Biolog, which allows high-throughput phenotyping. We estimated the strength and significance of the phylogenetic signal of each trait across phylogenetic reconstructions based on partial RNA polymerase subunit B (rpoB) and core genome sequences. Secondly, we tested whether phylogenetic distance was a good predictor of trait differentiation by Mantel test analysis. And finally, evolutionary model fitting was used to determine if the data for each phenotypic character was consistent with a phylogenetic or an essentially random model of trait distribution. Our data revealed that some key phenotypic traits related to substrate assimilation and chemical sensitivity are linked to the phylogenetic placement of Acinetobacter species. The strongest phylogenetic signals found were for utilization of different carbon sources such as some organic acids, amino acids and sugars, thus suggesting that in the diversification of Acinetobacter carbon source assimilation has had a relevant role. Future work should be aimed to clarify how such traits have shaped the remarkable ability of this bacterial group to dominate in a wide variety of habitats.
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105
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Vikram A, Lipus D, Bibby K. Metatranscriptome analysis of active microbial communities in produced water samples from the Marcellus Shale. MICROBIAL ECOLOGY 2016; 72:571-581. [PMID: 27457653 DOI: 10.1007/s00248-016-0811-z] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2016] [Accepted: 06/29/2016] [Indexed: 06/06/2023]
Abstract
Controlling microbial activity is a primary concern during the management of the large volumes of wastewater (produced water) generated during high-volume hydraulic fracturing. In this study we analyzed the transcriptional activity (metatranscriptomes) of three produced water samples from the Marcellus Shale. The goal of this study was to describe active metabolic pathways of industrial concern for produced water management and reuse, and to improve understanding of produced water microbial activity. Metatranscriptome analysis revealed active biofilm formation, sulfide production, and stress management mechanisms of the produced water microbial communities. Biofilm-formation and sulfate-reduction pathways were identified in all samples. Genes related to a diverse array of stress response mechanisms were also identified with implications for biocide efficacy. Additionally, active expression of a methanogenesis pathway was identified in a sample of produced water collected prior to holding pond storage. The active microbial community identified by metatranscriptome analysis was markedly different than the community composition as identified by 16S rRNA sequencing, highlighting the value of evaluating the active microbial fraction during assessments of produced water biofouling potential and evaluation of biocide application strategies. These results indicate biofouling and corrosive microbial processes are active in produced water and should be taken into consideration while designing produced water reuse strategies.
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Affiliation(s)
- Amit Vikram
- Department of Civil and Environmental Engineering, University of Pittsburgh, Pittsburgh, PA, 15261, USA
| | - Daniel Lipus
- Department of Civil and Environmental Engineering, University of Pittsburgh, Pittsburgh, PA, 15261, USA
| | - Kyle Bibby
- Department of Civil and Environmental Engineering, University of Pittsburgh, Pittsburgh, PA, 15261, USA.
- Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, 15261, USA.
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106
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Stevenson A, Hamill PG, Dijksterhuis J, Hallsworth JE. Water-, pH- and temperature relations of germination for the extreme xerophiles Xeromyces bisporus (FRR 0025), Aspergillus penicillioides (JH06THJ) and Eurotium halophilicum (FRR 2471). Microb Biotechnol 2016; 10:330-340. [PMID: 27562192 PMCID: PMC5328819 DOI: 10.1111/1751-7915.12406] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Revised: 07/22/2016] [Accepted: 07/27/2016] [Indexed: 12/01/2022] Open
Abstract
Water activity, temperature and pH are determinants for biotic activity of cellular systems, biosphere function and, indeed, for all life processes. This study was carried out at high concentrations of glycerol, which concurrently reduces water activity and acts as a stress protectant, to characterize the biophysical capabilities of the most extremely xerophilic organisms known. These were the fungal xerophiles: Xeromyces bisporus (FRR 0025), Aspergillus penicillioides (JH06THJ) and Eurotium halophilicum (FRR 2471). High‐glycerol spores were produced and germination was determined using 38 media in the 0.995–0.637 water activity range, 33 media in the 2.80–9.80 pH range and 10 incubation temperatures, from 2 to 50°C. Water activity was modified by supplementing media with glycerol+sucrose, glycerol+NaCl and glycerol+NaCl+sucrose which are known to be biologically permissive for X. bisporus, A. penicillioides and E. halophilicum respectively. The windows and rates for spore germination were quantified for water activity, pH and temperature; symmetry/asymmetry of the germination profiles were then determined in relation to supra‐ and sub‐optimal conditions; and pH‐ and temperature optima for extreme xerophilicity were quantified. The windows for spore germination were ~1 to 0.637 water activity, pH 2.80–9.80 and > 10 and < 44°C, depending on strain. Germination profiles in relation to water activity and temperature were asymmetrical because conditions known to entropically disorder cellular macromolecules, i.e. supra‐optimal water activity and high temperatures, were severely inhibitory. Implications of these processes were considered in relation to the in‐situ ecology of extreme conditions and environments; the study also raises a number of unanswered questions which suggest the need for new lines of experimentation.
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Affiliation(s)
- Andrew Stevenson
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, UK
| | - Philip G Hamill
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, UK
| | - Jan Dijksterhuis
- CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, CT 3584, Utrecht, The Netherlands
| | - John E Hallsworth
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, UK
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107
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Kar JR, Hallsworth JE, Singhal RS. Glycine Betaine-Mediated Protection of Peas (Pisum sativum L.) During Blanching and Frozen Storage. INTERNATIONAL JOURNAL OF FOOD PROPERTIES 2016. [DOI: 10.1080/10942912.2015.1099043] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Affiliation(s)
- Jayaranjan R. Kar
- Department of Food Engineering and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, India
| | - John E. Hallsworth
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen’s University Belfast, UK
| | - Rekha S. Singhal
- Department of Food Engineering and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, India
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108
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Sandoval NR, Papoutsakis ET. Engineering membrane and cell-wall programs for tolerance to toxic chemicals: Beyond solo genes. Curr Opin Microbiol 2016; 33:56-66. [PMID: 27376665 DOI: 10.1016/j.mib.2016.06.005] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2016] [Revised: 06/09/2016] [Accepted: 06/16/2016] [Indexed: 10/21/2022]
Abstract
Metabolite toxicity in microbes, particularly at the membrane, remains a bottleneck in the production of fuels and chemicals. Under chemical stress, native adaptation mechanisms combat hyper-fluidization by modifying the phospholipids in the membrane. Recent work in fluxomics reveals the mechanism of how membrane damage negatively affects energy metabolism while lipidomic and transcriptomic analyses show that strains evolved to be tolerant maintain membrane fluidity under stress through a variety of mechanisms such as incorporation of cyclopropanated fatty acids, trans-unsaturated fatty acids, and upregulation of cell wall biosynthesis genes. Engineered strains with modifications made in the biosynthesis of fatty acids, peptidoglycan, and lipopolysaccharide have shown increased tolerance to exogenous stress as well as increased production of desired metabolites of industrial importance. We review recent advances in elucidation of mechanisms or toxicity and tolerance as well as efforts to engineer the bacterial membrane and cell wall.
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Affiliation(s)
- Nicholas R Sandoval
- Department of Chemical and Biomolecular Engineering, Molecular Biotechnology Laboratory, Delaware Biotechnology Institute, University of Delaware, 15 Innovation Way, Newark, DE 19711, USA
| | - Eleftherios T Papoutsakis
- Department of Chemical and Biomolecular Engineering, Molecular Biotechnology Laboratory, Delaware Biotechnology Institute, University of Delaware, 15 Innovation Way, Newark, DE 19711, USA.
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109
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Suryawanshi RK, Patil CD, Koli SH, Hallsworth JE, Patil SV. Antimicrobial activity of prodigiosin is attributable to plasma-membrane damage. Nat Prod Res 2016; 31:572-577. [PMID: 27353356 DOI: 10.1080/14786419.2016.1195380] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
The bacterial pigment prodigiosin has various biological activities; it is, for instance, an effective antimicrobial. Here, we investigate the primary site targeted by prodigiosin, using the cells of microbial pathogens of humans as model systems: Candida albicans, Escherichia coli, Staphylococcus aureus. Inhibitory concentrations of prodigiosin; leakage of intracellular K+ ions, amino acids, proteins and sugars; impacts on activities of proteases, catalases and oxidases; and changes in surface appearance of pathogen cells were determined. Prodigiosin was highly inhibitory (30% growth rate reduction of C. albicans, E. coli, S. aureus at 0.3, 100 and 0.18 μg ml-1, respectively); caused leakage of intracellular substances (most severe in S. aureus); was highly inhibitory to each enzyme; and caused changes to S. aureus indicative of cell-surface damage. Collectively, these findings suggest that prodigiosin, log Poctanol-water 5.16, is not a toxin but is a hydrophobic stressor able to disrupt the plasma membrane via a chaotropicity-mediated mode-of-action.
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Affiliation(s)
| | | | - Sunil H Koli
- a School of Life Sciences, North Maharashtra University , Jalgaon , India
| | - John E Hallsworth
- b Institute for Global Food Security, School of Biological Sciences, Queen's University Belfast, Medical Biology Centre , Belfast , UK
| | - Satish V Patil
- a School of Life Sciences, North Maharashtra University , Jalgaon , India
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110
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Chougle JA, Bankar SB, Chavan PV, Patravale VB, Singhal RS. Supercritical carbon dioxide extraction of astaxanthin from Paracoccus NBRC 101723: Mathematical modelling study. SEP SCI TECHNOL 2016. [DOI: 10.1080/01496395.2016.1178288] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Jyoti A. Chougle
- Food Engineering and Technology Department, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
| | - Sandip B. Bankar
- Food Engineering and Technology Department, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
- Department of Chemical Engineering, College of Engineering, Bharati Vidyapeeth University, Dhankawadi, Pune, India
| | - Prakash V. Chavan
- Department of Chemical Engineering, College of Engineering, Bharati Vidyapeeth University, Dhankawadi, Pune, India
| | - Vandana B. Patravale
- Department of Pharmaceutical Sciences and Technology, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
| | - Rekha S. Singhal
- Food Engineering and Technology Department, Institute of Chemical Technology, Nathalal Parekh Marg, Matunga, Mumbai, India
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111
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Fox-Powell MG, Hallsworth JE, Cousins CR, Cockell CS. Ionic Strength Is a Barrier to the Habitability of Mars. ASTROBIOLOGY 2016; 16:427-42. [PMID: 27213516 DOI: 10.1089/ast.2015.1432] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
UNLABELLED The thermodynamic availability of water (water activity) strictly limits microbial propagation on Earth, particularly in hypersaline environments. A considerable body of evidence indicates the existence of hypersaline surface waters throughout the history of Mars; therefore it is assumed that, as on Earth, water activity is a major limiting factor for martian habitability. However, the differing geological histories of Earth and Mars have driven variations in their respective aqueous geochemistry, with as-yet-unknown implications for habitability. Using a microbial community enrichment approach, we investigated microbial habitability for a suite of simulated martian brines. While the habitability of some martian brines was consistent with predictions made from water activity, others were uninhabitable even when the water activity was biologically permissive. We demonstrate experimentally that high ionic strength, driven to extremes on Mars by the ubiquitous occurrence of multivalent ions, renders these environments uninhabitable despite the presence of biologically available water. These findings show how the respective geological histories of Earth and Mars, which have produced differences in the planets' dominant water chemistries, have resulted in different physicochemical extremes which define the boundary space for microbial habitability. KEY WORDS Habitability-Mars-Salts-Water activity-Life in extreme environments. Astrobiology 16, 427-442.
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Affiliation(s)
- Mark G Fox-Powell
- 1 UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh , UK
| | - John E Hallsworth
- 2 Institute for Global Food Security, Queen's University Belfast , UK
| | - Claire R Cousins
- 3 Department of Earth and Environmental Sciences, University of St. Andrews , UK
| | - Charles S Cockell
- 1 UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh , UK
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112
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Gupta VK, Kubicek CP, Berrin JG, Wilson DW, Couturier M, Berlin A, Filho EXF, Ezeji T. Fungal Enzymes for Bio-Products from Sustainable and Waste Biomass. Trends Biochem Sci 2016; 41:633-645. [PMID: 27211037 DOI: 10.1016/j.tibs.2016.04.006] [Citation(s) in RCA: 146] [Impact Index Per Article: 16.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2015] [Revised: 04/13/2016] [Accepted: 04/22/2016] [Indexed: 12/19/2022]
Abstract
Lignocellulose, the most abundant renewable carbon source on earth, is the logical candidate to replace fossil carbon as the major biofuel raw material. Nevertheless, the technologies needed to convert lignocellulose into soluble products that can then be utilized by the chemical or fuel industries face several challenges. Enzymatic hydrolysis is of major importance, and we review the progress made in fungal enzyme technology over the past few years with major emphasis on (i) the enzymes needed for the conversion of polysaccharides (cellulose and hemicellulose) into soluble products, (ii) the potential uses of lignin degradation products, and (iii) current progress and bottlenecks for the use of the soluble lignocellulose derivatives in emerging biorefineries.
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Affiliation(s)
- Vijai K Gupta
- Molecular Glycobiotechnology Group, Discipline of Biochemistry, National University of Ireland Galway, Galway City, Ireland.
| | - Christian P Kubicek
- Biotechnology and Microbiology, Institute of Chemical Engineering, Technische Universität Wien, Gumpendorferstrasse, 1060 Wien, Austria
| | - Jean-Guy Berrin
- Institut National de la Recherche Agronomique (INRA), Unité Mixte de Recherche (UMR) 1163-Biodiversité et Biotechnologie Fongiques, Avenue de Luminy, 13288 Marseille, France; Aix Marseille Université, UMR1163 Biodiversité et Biotechnologie Fongiques, Avenue de Luminy, 13288 Marseille, France
| | - David W Wilson
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA
| | - Marie Couturier
- Institut National de la Recherche Agronomique (INRA), Unité Mixte de Recherche (UMR) 1163-Biodiversité et Biotechnologie Fongiques, Avenue de Luminy, 13288 Marseille, France; Aix Marseille Université, UMR1163 Biodiversité et Biotechnologie Fongiques, Avenue de Luminy, 13288 Marseille, France
| | - Alex Berlin
- Novozymes, Inc., 1445 Drew Ave, Davis CA 95618 USA
| | - Edivaldo X F Filho
- Laboratory of Enzymology, Department of Cell Biology, University of Brasilia, Asa Norte, 70910-900 Brasilia, DF Brazil
| | - Thaddeus Ezeji
- Biotechnology and Fermentation Group, Department of Animal Sciences, Ohio State University and Ohio Agricultural Research and Development Center (OARDC), Madison Avenue, Wooster, OH 44691, USA
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113
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Youssef MM, Arafa RK, Ismail MA. Synthesis, antimicrobial, and antiproliferative activities of substituted phenylfuranylnicotinamidines. Drug Des Devel Ther 2016; 10:1133-46. [PMID: 27042005 PMCID: PMC4795586 DOI: 10.2147/dddt.s102128] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
This research work deals with the design and synthesis of a series of substituted phenylfuranylnicotinamidines 4a-i. Facile preparation of the target compounds was achieved by Suzuki coupling-based synthesis of the nitrile precursors 3a-i, followed by their conversion to the corresponding nicotinamidines 4a-i utilizing LiN(TMS)2. The antimicrobial activities of the newly synthesized nicotinamidine derivatives were evaluated against the Gram-negative bacterial strains Escherichia coli and Pseudomonas aeruginosa as well as the Gram-positive bacterial strains Staphylococcus aureus and Bacillus megaterium. The minimum inhibitory concentration values of nicotinamidines against all tested microorganisms were in the range of 10-20 μM. In specific, compounds 4a and 4b showed excellent minimum inhibitory concentration values of 10 μM against Staphylococcus aureus bacterial strain and were similar to ampicillin as an antibacterial reference. On the other hand, selected nicotinamidine derivatives were biologically screened for their cytotoxic activities against a panel of 60 cell lines representing nine types of human cancer at a single high dose at National Cancer Institute, Bethesda, MD, USA. Nicotinamidines showing promising activities were further assessed in a five-dose screening assay to determine their compound concentration causing 50% growth inhibition of tested cell (GI50), compound concentration causing 100% growth inhibition of tested cell (TGI), and compound concentration causing 50% lethality of tested cell (LC50) values. Structure-activity relationship studies demonstrated that the activity of members of this series can be modulated from cytostatic to cytotoxic based on the substitution pattern/nature on the terminal phenyl ring. The most active compound was found to be 4e displaying a submicromolar GI50 value of 0.83 μM, with TGI and LC50 values of 2.51 and 100 μM, respectively. Finally, the possible underlying mechanism of action of this series of compounds was investigated by determining their nuclease-like DNA degradation ability in addition to their antioxidant power and all monocations proved to be effective in all assays.
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Affiliation(s)
- Magdy M Youssef
- Department of Chemistry, College of Science, King Faisal University, Hofuf, Saudi Arabia
- Department of Chemistry, Faculty of Science, Mansoura University, Mansoura, Egypt
| | - Reem K Arafa
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Cairo University, Cairo, Egypt
- Biomedical Sciences Program, University of Science and Technology, Zewail City of Science and Technology, Cairo, Egypt
| | - Mohamed A Ismail
- Department of Chemistry, College of Science, King Faisal University, Hofuf, Saudi Arabia
- Department of Chemistry, Faculty of Science, Mansoura University, Mansoura, Egypt
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114
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Cray JA, Connor MC, Stevenson A, Houghton JDR, Rangel DEN, Cooke LR, Hallsworth JE. Biocontrol agents promote growth of potato pathogens, depending on environmental conditions. Microb Biotechnol 2016; 9:330-54. [PMID: 26880001 PMCID: PMC4835571 DOI: 10.1111/1751-7915.12349] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2015] [Revised: 12/29/2015] [Accepted: 12/31/2015] [Indexed: 11/30/2022] Open
Abstract
There is a pressing need to understand and optimize biological control so as to avoid over‐reliance on the synthetic chemical pesticides that can damage environmental and human health. This study focused on interactions between a novel biocontrol‐strain, Bacillus sp. JC12GB43, and potato‐pathogenic Phytophthora and Fusarium species. In assays carried out in vitro and on the potato tuber, the bacterium was capable of near‐complete inhibition of pathogens. This Bacillus was sufficiently xerotolerant (water activity limit for growth = 0.928) to out‐perform Phytophthora infestans (~0.960) and challenge Fusarium coeruleum (~0.847) and Fusarium sambucinum (~0.860) towards the lower limits of their growth windows. Under some conditions, however, strain JC12GB43 stimulated proliferation of the pathogens: for instance, Fusarium coeruleum growth‐rate was increased under chaotropic conditions in vitro (132 mM urea) by >100% and on tubers (2‐M glycerol) by up to 570%. Culture‐based assays involving macromolecule‐stabilizing (kosmotropic) compatible solutes provided proof‐of‐principle that the Bacillus may provide kosmotropic metabolites to the plant pathogen under conditions that destabilize macromolecular systems of the fungal cell. Whilst unprecedented, this finding is consistent with earlier reports that fungi can utilize metabolites derived from bacterial cells. Unless the antimicrobial activities of candidate biocontrol strains are assayed over a full range of field‐relevant parameters, biocontrol agents may promote plant pathogen infections and thereby reduce crop yields. These findings indicate that biocontrol activity, therefore, ought to be regarded as a mode‐of‐behaviour (dependent on prevailing conditions) rather than an inherent property of a bacterial strain.
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Affiliation(s)
- Jonathan A Cray
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland
| | - Mairéad C Connor
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland
| | - Andrew Stevenson
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland
| | - Jonathan D R Houghton
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland
| | - Drauzio E N Rangel
- Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Goiânia, GO, 74605-050, Brazil
| | - Louise R Cooke
- Agri-Food & Biosciences Institute (AFBI), Newforge Lane, Belfast, BT9 5PX, Northern Ireland
| | - John E Hallsworth
- Institute for Global Food Security, School of Biological Sciences, MBC, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland
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115
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He G, Wu C, Huang J, Zhou R. Acid tolerance response of Tetragenococcus halophilus: A combined physiological and proteomic analysis. Process Biochem 2016. [DOI: 10.1016/j.procbio.2015.11.035] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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116
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Herring CD, Kenealy WR, Joe Shaw A, Covalla SF, Olson DG, Zhang J, Ryan Sillers W, Tsakraklides V, Bardsley JS, Rogers SR, Thorne PG, Johnson JP, Foster A, Shikhare ID, Klingeman DM, Brown SD, Davison BH, Lynd LR, Hogsett DA. Strain and bioprocess improvement of a thermophilic anaerobe for the production of ethanol from wood. BIOTECHNOLOGY FOR BIOFUELS 2016; 9:125. [PMID: 27313661 PMCID: PMC4910263 DOI: 10.1186/s13068-016-0536-8] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2016] [Accepted: 05/31/2016] [Indexed: 05/16/2023]
Abstract
BACKGROUND The thermophilic, anaerobic bacterium Thermoanaerobacterium saccharolyticum digests hemicellulose and utilizes the major sugars present in biomass. It was previously engineered to produce ethanol at yields equivalent to yeast. While saccharolytic anaerobes have been long studied as potential biomass-fermenting organisms, development efforts for commercial ethanol production have not been reported. RESULTS Here, we describe the highest ethanol titers achieved from T. saccharolyticum during a 4-year project to develop it for industrial production of ethanol from pre-treated hardwood at 51-55 °C. We describe organism and bioprocess development efforts undertaken to improve ethanol production. The final strain M2886 was generated by removing genes for exopolysaccharide synthesis, the regulator perR, and re-introduction of phosphotransacetylase and acetate kinase into the methyglyoxal synthase gene. It was also subject to multiple rounds of adaptation and selection, resulting in mutations later identified by resequencing. The highest ethanol titer achieved was 70 g/L in batch culture with a mixture of cellobiose and maltodextrin. In a "mock hydrolysate" Simultaneous Saccharification and Fermentation (SSF) with Sigmacell-20, glucose, xylose, and acetic acid, an ethanol titer of 61 g/L was achieved, at 92 % of theoretical yield. Fungal cellulases were rapidly inactivated under these conditions and had to be supplemented with cellulosomes from C. thermocellum. Ethanol titers of 31 g/L were reached in a 100 L SSF of pre-treated hardwood and 26 g/L in a fermentation of a hardwood hemicellulose extract. CONCLUSIONS This study demonstrates that thermophilic anaerobes are capable of producing ethanol at high yield and at titers greater than 60 g/L from purified substrates, but additional work is needed to produce the same ethanol titers from pre-treated hardwood.
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Affiliation(s)
- Christopher D. Herring
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, NH 03755 USA
| | - William R. Kenealy
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Verdezyne, Carlsbad, CA USA
| | - A. Joe Shaw
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Novogy Inc, Cambridge, MA 02138 USA
| | | | - Daniel G. Olson
- />Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, NH 03755 USA
- />Bioenergy Science Center, Oak Ridge, TN USA
| | - Jiayi Zhang
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Genzyme, Cambridge, MA USA
| | - W. Ryan Sillers
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Myriant Corporation, Quincy, MA USA
| | - Vasiliki Tsakraklides
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Novogy Inc, Cambridge, MA 02138 USA
| | | | | | | | - Jessica P. Johnson
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Washington, DC, USA
| | - Abigail Foster
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
| | - Indraneel D. Shikhare
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Nalco Champion, Houston, TX USA
| | - Dawn M. Klingeman
- />Bioenergy Science Center, Oak Ridge, TN USA
- />Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN USA
| | - Steven D. Brown
- />Bioenergy Science Center, Oak Ridge, TN USA
- />Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN USA
| | - Brian H. Davison
- />Bioenergy Science Center, Oak Ridge, TN USA
- />Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN USA
| | - Lee R. Lynd
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, NH 03755 USA
- />Bioenergy Science Center, Oak Ridge, TN USA
| | - David A. Hogsett
- />Mascoma Corporation, 67 Etna Rd, Lebanon, NH 03766 USA
- />Novozymes Inc, Davis, CA USA
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117
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Xia PF, Li Q, Tan LR, Sun XF, Song C, Wang SG. Extracellular polymeric substances protect Escherichia coli from organic solvents. RSC Adv 2016. [DOI: 10.1039/c6ra11707d] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The protective roles of extracellular polymeric substances againstn-butanol have been investigated and determined.
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Affiliation(s)
- Peng-Fei Xia
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
| | - Qian Li
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
| | - Lin-Rui Tan
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
| | - Xue-Fei Sun
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
| | - Chao Song
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
| | - Shu-Guang Wang
- School of Environmental Science and Engineering
- Shandong University
- Jinan 250100
- China
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118
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Bhaganna P, Bielecka A, Molinari G, Hallsworth JE. Protective role of glycerol against benzene stress: insights from the Pseudomonas putida proteome. Curr Genet 2015; 62:419-29. [PMID: 26612269 DOI: 10.1007/s00294-015-0539-1] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Revised: 11/04/2015] [Accepted: 11/05/2015] [Indexed: 01/09/2023]
Abstract
Chemical activities of hydrophobic substances can determine the windows of environmental conditions over which microbial systems function and the metabolic inhibition of microorganisms by benzene and other hydrophobes can, paradoxically, be reduced by compounds that protect against cellular water stress (Bhaganna et al. in Microb Biotechnol 3:701-716, 2010; Cray et al. in Curr Opin Biotechnol 33:228-259, 2015a). We hypothesized that this protective effect operates at the macromolecule structure-function level and is facilitated, in part at least, by genome-mediated adaptations. Based on proteome profiling of the soil bacterium Pseudomonas putida, we present evidence that (1) benzene induces a chaotrope-stress response, whereas (2) cells cultured in media supplemented with benzene plus glycerol were protected against chaotrope stress. Chaotrope-stress response proteins, such as those involved in lipid and compatible-solute metabolism and removal of reactive oxygen species, were increased by up to 15-fold in benzene-stressed cells relative to those of control cultures (no benzene added). By contrast, cells grown in the presence of benzene + glycerol, even though the latter grew more slowly, exhibited only a weak chaotrope-stress response. These findings provide evidence to support the hypothesis that hydrophobic substances induce a chaotropicity-mediated water stress, that cells respond via genome-mediated adaptations, and that glycerol protects the cell's macromolecular systems. We discuss the possibility of using compatible solutes to mitigate hydrocarbon-induced stresses in lignocellulosic biofuel fermentations and for industrial and environmental applications.
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Affiliation(s)
- Prashanth Bhaganna
- MBC, School of Biological Sciences, Institute for Global Food Security, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland, UK
| | - Agata Bielecka
- Environmental Microbiology Laboratory, Helmholtz Centre for Infection Research, D-38124, Braunschweig, Germany
- Molecular Biology Department, Helmholtz Centre for Infection Research, D-38124, Braunschweig, Germany
| | - Gabriella Molinari
- Environmental Microbiology Laboratory, Helmholtz Centre for Infection Research, D-38124, Braunschweig, Germany
- Central Facility for Microscopy, Helmholtz Centre for Infection Research, D-38124, Braunschweig, Germany
| | - John E Hallsworth
- MBC, School of Biological Sciences, Institute for Global Food Security, Queen's University Belfast, Belfast, BT9 7BL, Northern Ireland, UK.
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119
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Santos R, de Carvalho CCCR, Stevenson A, Grant IR, Hallsworth JE. Extraordinary solute-stress tolerance contributes to the environmental tenacity of mycobacteria. ENVIRONMENTAL MICROBIOLOGY REPORTS 2015; 7:746-764. [PMID: 26059202 DOI: 10.1111/1758-2229.12306] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2014] [Accepted: 05/29/2015] [Indexed: 06/04/2023]
Abstract
Mycobacteria are associated with a number of well-characterized diseases, yet we know little about their stress biology in natural ecosystems. This study focuses on the isolation and characterization of strains from Yellowstone National Park (YNP) and Glacier National Park (GNP; USA), the majority of those identified were Mycobacterium parascrofulaceum, Mycobacterium avium (YNP) or Mycobacterium gordonae (GNP). Generally, their windows for growth spanned a temperature range of > 60 °C; selected isolates grew at super-saturated concentrations of hydrophobic stressors and at levels of osmotic stress and chaotropic activity (up to 13.4 kJ kg(-1) ) similar to, or exceeding, those for the xerophilic fungus Aspergillus wentii and solvent-tolerant bacterium Pseudomonas putida. For example, mycobacteria grew down to 0.800 water activity indicating that they are, with the sole exception of halophiles, more xerotolerant than other bacteria (or any Archaea). Furthermore, the fatty-acid composition of Mycobacterium cells grown over a range of salt concentrations changed less than that of other bacteria, indicating a high level of resilience, regardless of the stress load. Cells of M. parascrofulaceum, M. smegmatis and M. avium resisted the acute, potentially lethal challenges from extremes of pH (< 1; > 13), and saturated MgCl2 solutions (5 M; 212 kJ kg(-1) chaotropicity). Collectively, these findings challenge the paradigm that bacteria have solute tolerances inferior to those of eukaryotes.
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Affiliation(s)
- Ricardo Santos
- Institute for Global Food Security, School of Biological Sciences, Queen's University Belfast, Medical Biology Centre, Belfast, BT9 7BL, Northern Ireland
- Instituto Superior Técnico, Laboratório de Análises, Lisbon, 1049-001, Portugal
| | - Carla C C R de Carvalho
- iBB-Institute for Bioengineering and Biosciences, Department of Bioengineering, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, Lisbon, 1049-001, Portugal
| | - Andrew Stevenson
- Institute for Global Food Security, School of Biological Sciences, Queen's University Belfast, Medical Biology Centre, Belfast, BT9 7BL, Northern Ireland
| | - Irene R Grant
- Institute for Global Food Security, School of Biological Sciences, Queen's University Belfast, Medical Biology Centre, Belfast, BT9 7BL, Northern Ireland
| | - John E Hallsworth
- Institute for Global Food Security, School of Biological Sciences, Queen's University Belfast, Medical Biology Centre, Belfast, BT9 7BL, Northern Ireland
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Rahul S, Chandrashekhar P, Hemant B, Bipinchandra S, Mouray E, Grellier P, Satish P. In vitro antiparasitic activity of microbial pigments and their combination with phytosynthesized metal nanoparticles. Parasitol Int 2015; 64:353-6. [DOI: 10.1016/j.parint.2015.05.004] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2015] [Revised: 03/28/2015] [Accepted: 05/10/2015] [Indexed: 12/11/2022]
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121
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Shcherbakova V, Oshurkova V, Yoshimura Y. The Effects of Perchlorates on the Permafrost Methanogens: Implication for Autotrophic Life on Mars. Microorganisms 2015; 3:518-34. [PMID: 27682103 PMCID: PMC5023257 DOI: 10.3390/microorganisms3030518] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Revised: 07/30/2015] [Accepted: 09/01/2015] [Indexed: 11/16/2022] Open
Abstract
The terrestrial permafrost represents a range of possible cryogenic extraterrestrial ecosystems on Earth-like planets without obvious surface ice, such as Mars. The autotrophic and chemolithotrophic psychrotolerant methanogens are more likely than aerobes to function as a model for life forms that may exist in frozen subsurface environments on Mars, which has no free oxygen, inaccessible organic matter, and extremely low amounts of unfrozen water. Our research on the genesis of methane, its content and distribution in permafrost horizons of different ages and origin demonstrated the presence of methane in permanently frozen fine-grained sediments. Earlier, we isolated and described four strains of methanogenic archaea of Methanobacterium and Methanosarcina genera from samples of Pliocene and Holocene permafrost from Eastern Siberia. In this paper we study the effect of sodium and magnesium perchlorates on growth of permafrost and nonpermafrost methanogens, and present evidence that permafrost hydogenotrophic methanogens are more resistant to the chaotropic agent found in Martian soil. In this paper we study the effect of sodium and magnesium perchlorates on the growth of permafrost and nonpermafrost methanogens, and present evidence that permafrost hydogenotrophic methanogens are more resistant to the chaotropic agent found in Martian soil. Furthermore, as shown in the studies strain M2(T) M. arcticum, probably can use perchlorate anion as an electron acceptor in anaerobic methane oxidation. Earth's subzero subsurface environments are the best approximation of environments on Mars, which is most likely to harbor methanogens; thus, a biochemical understanding of these pathways is expected to provide a basis for designing experiments to detect autotrophic methane-producing life forms on Mars.
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Affiliation(s)
- Viktoria Shcherbakova
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Prospect Nauki 5, Pushchino, Moscow, 142290, Russia.
- Japan Aerospace Exploration Agency, Institute of Space and Astronautical Science (ISAS), 3-1-1 Yoshinodai, Chuo-ku, Sagamihara, Kanagawa, 252-5210, Japan.
| | - Viktoria Oshurkova
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Prospect Nauki 5, Pushchino, Moscow, 142290, Russia.
| | - Yoshitaka Yoshimura
- Japan Aerospace Exploration Agency, Institute of Space and Astronautical Science (ISAS), 3-1-1 Yoshinodai, Chuo-ku, Sagamihara, Kanagawa, 252-5210, Japan.
- College of Agriculture, Tamagawa University, 6-1-1 Tamagawagakuen, Machida, Tokyo, 194-8610, Japan.
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Salunkhe RB, Borase HP, Patil CD, Patil SN, Patil SV. Effect of different carbon sources on morphology and silver accumulation in Cochliobolus lunatus. Appl Biochem Biotechnol 2015; 177:1409-23. [PMID: 26319684 DOI: 10.1007/s12010-015-1822-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Accepted: 08/17/2015] [Indexed: 11/25/2022]
Abstract
The morphology of filamentous fungi plays very important role in uptake of metabolites and enzyme production. A filamentous fungus may be fibrous, hyphae, pellets, clumps, etc. Cochliobolus lunatus is a fungus which has previously been reported for silver accumulation and nanoparticles formation. The present study investigated the role of various carbon sources on morphology, biochemical profile, silver accumulation, and biosynthesis of silver nanoparticles by fungal strain C. lunatus. In this investigation, effect of different carbon sources was studied on morphology of C. lunatus and its silver accumulating ability. As a result of different carbon sources like carboxymethyl cellulose (CMC), pectin, starch, agar, sucrose, and mannitol, the organism showed three kinds of morphologies like homogenous smooth branched clumps, tough short fibrous filaments, and tough pellets, as well as silver accumulating ability. Atomic absorption spectroscopy (AAS) studies showed maximum uptake of Ag(+): 87.44 ± 0.23 and 82.57 ± 0.19 % in pectin- and CMC-grown biomass, respectively. The crystalline nature of silver nanoparticles (AgNPs) was confirmed by X-ray diffraction studies. Transmission electron microscopy (TEM) micrographs of silver nanoparticles confirmed size ranging from 5 to 38 nm.
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Affiliation(s)
- Rahul B Salunkhe
- School of Life Sciences, North Maharashtra University, Post Box 80, Jalgaon, 425001, Maharashtra, India
| | - Hemant P Borase
- School of Life Sciences, North Maharashtra University, Post Box 80, Jalgaon, 425001, Maharashtra, India
| | - Chandrashekhar D Patil
- School of Life Sciences, North Maharashtra University, Post Box 80, Jalgaon, 425001, Maharashtra, India
| | - Sucheta N Patil
- MVP Samaj's K.T.H.M. College, Nasik, 422001, Maharashtra, India
| | - Satish V Patil
- School of Life Sciences, North Maharashtra University, Post Box 80, Jalgaon, 425001, Maharashtra, India. .,North Maharashtra Microbial Culture Collection Centre (NMCC), North Maharashtra University, Post Box 80, Jalgaon, 425001, Maharashtra, India.
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Papoutsakis ET. Reassessing the Progress in the Production of Advanced Biofuels in the Current Competitive Environment and Beyond: What Are the Successes and Where Progress Eludes Us and Why. Ind Eng Chem Res 2015. [DOI: 10.1021/acs.iecr.5b01695] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Eleftherios T. Papoutsakis
- Molecular Biotechnology Laboratory, Department of Chemical & Biomolecular Engineering, Department of Biological Sciences & the Delaware Biotechnology Institute, University of Delaware, Newark, Delaware 19711, United States
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124
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Dynamic Response of Pseudomonas putida S12 to Sudden Addition of Toluene and the Potential Role of the Solvent Tolerance Gene trgI. PLoS One 2015; 10:e0132416. [PMID: 26181384 PMCID: PMC4504468 DOI: 10.1371/journal.pone.0132416] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Accepted: 06/12/2015] [Indexed: 01/14/2023] Open
Abstract
Pseudomonas putida S12 is exceptionally tolerant to various organic solvents. To obtain further insight into this bacterium’s primary defence mechanisms towards these potentially harmful substances, we studied its genome wide transcriptional response to sudden addition of toluene. Global gene expression profiles were monitored for 30 minutes after toluene addition. During toluene exposure, high oxygen-affinity cytochrome c oxidase is specifically expressed to provide for an adequate proton gradient supporting solvent efflux mechanisms. Concomitantly, the glyoxylate bypass route was up-regulated, to repair an apparent toluene stress-induced redox imbalance. A knock-out mutant of trgI, a recently identified toluene-repressed gene, was investigated in order to identify TrgI function. Remarkably, upon addition of toluene the number of differentially expressed genes initially was much lower in the trgI-mutant than in the wild-type strain. This suggested that after deletion of trgI cells were better prepared for sudden organic solvent stress. Before, as well as after, addition of toluene many genes of highly diverse functions were differentially expressed in trgI-mutant cells as compared to wild-type cells. This led to the hypothesis that TrgI may not only be involved in the modulation of solvent-elicited responses but in addition may affect basal expression levels of large groups of genes.
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125
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Rangel DEN, Alder-Rangel A, Dadachova E, Finlay RD, Kupiec M, Dijksterhuis J, Braga GUL, Corrochano LM, Hallsworth JE. Fungal stress biology: a preface to the Fungal Stress Responses special edition. Curr Genet 2015; 61:231-8. [PMID: 26116075 DOI: 10.1007/s00294-015-0500-3] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2015] [Revised: 05/28/2015] [Accepted: 05/29/2015] [Indexed: 01/08/2023]
Abstract
There is currently an urgent need to increase global food security, reverse the trends of increasing cancer rates, protect environmental health, and mitigate climate change. Toward these ends, it is imperative to improve soil health and crop productivity, reduce food spoilage, reduce pesticide usage by increasing the use of biological control, optimize bioremediation of polluted sites, and generate energy from sustainable sources such as biofuels. This review focuses on fungi that can help provide solutions to such problems. We discuss key aspects of fungal stress biology in the context of the papers published in this Special Issue of Current Genetics. This area of biology has relevance to pure and applied research on fungal (and indeed other) systems, including biological control of insect pests, roles of saprotrophic fungi in agriculture and forestry, mycotoxin contamination of the food-supply chain, optimization of microbial fermentations including those used for bioethanol production, plant pathology, the limits of life on Earth, and astrobiology.
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Affiliation(s)
- Drauzio E N Rangel
- Instituto de Pesquisa e Desenvolvimento, Universidade do Vale do Paraíba, São José dos Campos, SP, 12244-000, Brazil,
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Concomitant osmotic and chaotropicity-induced stresses in Aspergillus wentii: compatible solutes determine the biotic window. Curr Genet 2015; 61:457-77. [DOI: 10.1007/s00294-015-0496-8] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2015] [Revised: 04/28/2015] [Accepted: 05/13/2015] [Indexed: 12/17/2022]
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Affiliation(s)
- Eleftherios Terry Papoutsakis
- Department of Chem. & Biomolecular Engineering, Department of Biological Sciences, University of Delaware, Delaware Biotechnology Institute, Newark, DE 19711, USA.
| | - Jack T Pronk
- Department of Biotechnology, Delft University of Technology, Delft, The Netherlands.
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128
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Stress tolerance and virulence of insect-pathogenic fungi are determined by environmental conditions during conidial formation. Curr Genet 2015; 61:383-404. [PMID: 25791499 DOI: 10.1007/s00294-015-0477-y] [Citation(s) in RCA: 104] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2014] [Revised: 01/29/2015] [Accepted: 01/30/2015] [Indexed: 01/07/2023]
Abstract
The virulence to insects and tolerance to heat and UV-B radiation of conidia of entomopathogenic fungi are greatly influenced by physical, chemical, and nutritional conditions during mycelial growth. This is evidenced, for example, by the stress phenotypes of Metarhizium robertsii produced on various substrates. Conidia from minimal medium (Czapek's medium without sucrose), complex medium, and insect (Lepidoptera and Coleoptera) cadavers had high, moderate, and poor tolerance to UV-B radiation, respectively. Furthermore, conidia from minimal medium germinated faster and had increased heat tolerance and were more virulent to insects than those from complex medium. Low water-activity or alkaline culture conditions also resulted in production of conidia with high tolerance to heat or UV-B radiation. Conidia produced on complex media exhibited lower stress tolerance, whereas those from complex media supplemented with NaCl or KCl (to reduce water activity) were more tolerant to heat and UV-B than those from the unmodified complex medium. Osmotic and nutritive stresses resulted in production of conidia with a robust stress phenotype, but also were associated with low conidial yield. Physical conditions such as growth under illumination, hypoxic conditions, and heat shock before conidial production also induced both higher UV-B and heat tolerance; but conidial production was not decreased. In conclusion, physical and chemical parameters, as well as nutrition source, can induce great variability in conidial tolerance to stress for entomopathogenic fungi. Implications are discussed in relation to the ecology of entomopathogenic fungi in the field, and to their use for biological control. This review will cover recent technologies on improving stress tolerance of entomopathogenic fungi for biological control of insects.
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129
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Lee S, J. Mitchell R. Perspectives on the use of transcriptomics to advance biofuels. AIMS BIOENGINEERING 2015. [DOI: 10.3934/bioeng.2015.4.487] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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