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Stebegg R, Schmetterer G, Rompel A. Heterotrophy among Cyanobacteria. ACS OMEGA 2023; 8:33098-33114. [PMID: 37744813 PMCID: PMC10515406 DOI: 10.1021/acsomega.3c02205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/02/2023] [Accepted: 07/10/2023] [Indexed: 09/26/2023]
Abstract
Cyanobacteria have been studied in recent decades to investigate the principle mechanisms of plant-type oxygenic photosynthesis, as they are the inventors of this process, and their cultivation and research is much easier compared to land plants. Nevertheless, many cyanobacterial strains possess the capacity for at least some forms of heterotrophic growth. This review demonstrates that cyanobacteria are much more than simple photoautotrophs, and their flexibility toward different environmental conditions has been underestimated in the past. It summarizes the strains capable of heterotrophy known by date structured by their phylogeny and lists the possible substrates for heterotrophy for each of them in a table in the Supporting Information. The conditions are discussed in detail that cause heterotrophic growth for each strain in order to allow for reproduction of the results. The review explains the importance of this knowledge for the use of new methods of cyanobacterial cultivation, which may be advantageous under certain conditions. It seeks to stimulate other researchers to identify new strains capable of heterotrophy that have not been known so far.
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Affiliation(s)
- Ronald Stebegg
- Universität Wien, Fakultät für Chemie, Institut für
Biophysikalische Chemie, 1090 Wien, Austria
| | - Georg Schmetterer
- Universität Wien, Fakultät für Chemie, Institut für
Biophysikalische Chemie, 1090 Wien, Austria
| | - Annette Rompel
- Universität Wien, Fakultät für Chemie, Institut für
Biophysikalische Chemie, 1090 Wien, Austria
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2
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Tanniche I, Collakova E, Denbow C, Senger RS. Characterizing glucose, illumination, and nitrogen-deprivation phenotypes of Synechocystis PCC6803 with Raman spectroscopy. PeerJ 2020; 8:e8585. [PMID: 32266111 PMCID: PMC7115749 DOI: 10.7717/peerj.8585] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2019] [Accepted: 01/17/2020] [Indexed: 11/22/2022] Open
Abstract
Background Synechocystis sp. PCC6803 is a model cyanobacterium that has been studied widely and is considered for metabolic engineering applications. Here, Raman spectroscopy and Raman chemometrics (Rametrix™) were used to (i) study broad phenotypic changes in response to growth conditions, (ii) identify phenotypic changes associated with its circadian rhythm, and (iii) correlate individual Raman bands with biomolecules and verify these with more accepted analytical methods. Methods Synechocystis cultures were grown under various conditions, exploring dependencies on light and/or external carbon and nitrogen sources. The Rametrix™ LITE Toolbox for MATLAB® was used to process Raman spectra and perform principal component analysis (PCA) and discriminant analysis of principal components (DAPC). The Rametrix™ PRO Toolbox was used to validate these models through leave-one-out routines that classified a Raman spectrum when growth conditions were withheld from the model. Performance was measured by classification accuracy, sensitivity, and specificity. Raman spectra were also subjected to statistical tests (ANOVA and pairwise comparisons) to identify statistically relevant changes in Synechocystis phenotypes. Finally, experimental methods, including widely used analytical and spectroscopic assays were used to quantify the levels of glycogen, fatty acids, amino acids, and chlorophyll a for correlations with Raman data. Results PCA and DAPC models produced distinct clustering of Raman spectra, representing multiple Synechocystis phenotypes, based on (i) growth in the presence of 5 mM glucose, (ii) illumination (dark, light/dark [12 h/12 h], and continuous light at 20 µE), (iii) nitrogen deprivation (0–100% NaNO3 of native BG-11 medium in continuous light), and (iv) throughout a 24 h light/dark (12 h/12 h) circadian rhythm growth cycle. Rametrix™ PRO was successful in identifying glucose-induced phenotypes with 95.3% accuracy, 93.4% sensitivity, and 96.9% specificity. Prediction accuracy was above random chance values for all other studies. Circadian rhythm analysis showed a return to the initial phenotype after 24 hours for cultures grown in light/dark (12 h/12 h) cycles; this did not occur for cultures grown in the dark. Finally, correlation coefficients (R > 0.7) were found for glycogen, all amino acids, and chlorophyll a when comparing specific Raman bands to other experimental results.
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Affiliation(s)
- Imen Tanniche
- Department of Biological Systems Engineering, Virginia Polytechnic Institute and State University (Virginia Tech), Blacksburg, VA, United States of America
| | - Eva Collakova
- School of Plant & Environmental Sciences, Virginia Polytechnic Institute and State University (Virginia Tech), Blacksburg, VA, United States of America
| | - Cynthia Denbow
- School of Plant & Environmental Sciences, Virginia Polytechnic Institute and State University (Virginia Tech), Blacksburg, VA, United States of America
| | - Ryan S Senger
- Department of Biological Systems Engineering, Virginia Polytechnic Institute and State University (Virginia Tech), Blacksburg, VA, United States of America.,Department of Chemical Engineering, Virginia Polytechnic Institute and State University (Virginia Tech), Blacksburg, VA, United States of America
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Performance of a Geosynthetic-Clay-Liner Cover System at a Cu/Zn Mine Tailings Impoundment. Appl Environ Microbiol 2020; 86:AEM.02846-19. [PMID: 32033946 DOI: 10.1128/aem.02846-19] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Accepted: 01/29/2020] [Indexed: 12/18/2022] Open
Abstract
The abandoned Kam Kotia Mine (Canada) is undergoing remediation. A geosynthetic-clay-liner (GCL) cover system was installed in the Northern Impounded Tailings (NIT) area in 2008 to isolate acid-generating tailings from water and oxygen and to mitigate sulfide oxidation. The cover system includes a vegetated uppermost soil layer underlain by a granular protective layer (sand), a clay moisture-retaining layer, a GCL, a granular capillary-break material (cushion sand), and a crushed waste rock-capillary break layer installed above the tailings. The goal of this study was to characterize the microbiology of the covered tailings to assess the performance of the cover system for mitigating sulfide bio-oxidation. Tailings beneath the GCL were characterized by high sulfur and low carbon content. The bulk pH of the tailings pore water was circumneutral (∼5.5 to 7.3). Total genomic DNA was extracted from 36 samples recovered from the constituent layers of the cover system and the underlying tailings and was analyzed in triplicates using high-throughput amplicon sequencing of 16S rRNA genes. Iron-oxidizing, sulfur-oxidizing, sulfate-reducing, and aerobic heterotrophic microorganisms were enumerated by use of most probable number enumeration, which identified heterotrophs as the most numerous group of culturable microorganisms throughout the depth profile. Low relative abundances and viable counts of microorganisms that catalyze transformations of iron and sulfur in the covered tailings, compared to previous studies on unreclaimed tailings, indicate that sulfide oxidation rates have decreased due to the presence of the GCL. Characterization of the microbial community can provide a sensitive indicator for assessing the performance of remediation systems.IMPORTANCE Mining activities are accompanied by significant environmental and financial liabilities, including the release of acid mine drainage (AMD). AMD is caused by accelerated chemical and biological oxidation of sulfide minerals in mine wastes and is characterized by low pH and high concentrations of sulfate and metal(loid)s. Microorganisms assume important roles in the catalysis of redox reactions. Our research elucidates linkages among the biogeochemistry of mine wastes and remediation systems and microbial community and activity. This study assesses the performance and utility of geosynthetic-clay-liner cover systems for management of acid-generating mine wastes. Analyses of the microbial communities in tailings isolated beneath an engineered cover system provide a better understanding of the complex biogeochemical processes involved in the redox cycling of key elements, contribute to the remediation of mine wastes, and provide a valuable tool for assessment of the effectiveness of the remediation system.
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Tschörtner J, Lai B, Krömer JO. Biophotovoltaics: Green Power Generation From Sunlight and Water. Front Microbiol 2019; 10:866. [PMID: 31114551 PMCID: PMC6503001 DOI: 10.3389/fmicb.2019.00866] [Citation(s) in RCA: 61] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Accepted: 04/04/2019] [Indexed: 11/29/2022] Open
Abstract
Biophotovoltaics is a relatively new discipline in microbial fuel cell research. The basic idea is the conversion of light energy into electrical energy using photosynthetic microorganisms. The microbes will use their photosynthetic apparatus and the incoming light to split the water molecule. The generated protons and electrons are harvested using a bioelectrochemical system. The key challenge is the extraction of electrons from the microbial electron transport chains into a solid-state anode. On the cathode, a corresponding electrochemical counter reaction will consume the protons and electrons, e.g., through the oxygen reduction to water, or hydrogen formation. In this review, we are aiming to summarize the current state of the art and point out some limitations. We put a specific emphasis on cyanobacteria, as these microbes are considered future workhorses for photobiotechnology and are currently the most widely applied microbes in biophotovoltaics research. Current progress in biophotovoltaics is limited by very low current outputs of the devices while a lack of comparability and standardization of the experimental set-up hinders a systematic optimization of the systems. Nevertheless, the fundamental questions of redox homeostasis in photoautotrophs and the potential to directly harvest light energy from a highly efficient photosystem, rather than through oxidation of inefficiently produced biomass are highly relevant aspects of biophotovoltaics.
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Affiliation(s)
| | | | - Jens O. Krömer
- Systems Biotechnology, Department of Solar Materials, Helmholtz Centre for Environmental Research, Leipzig, Germany
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Shoener BD, Schramm SM, Béline F, Bernard O, Martínez C, Plósz BG, Snowling S, Steyer JP, Valverde-Pérez B, Wágner D, Guest JS. Microalgae and cyanobacteria modeling in water resource recovery facilities: A critical review. WATER RESEARCH X 2019; 2:100024. [PMID: 31194023 PMCID: PMC6549905 DOI: 10.1016/j.wroa.2018.100024] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2018] [Revised: 12/19/2018] [Accepted: 12/20/2018] [Indexed: 05/31/2023]
Abstract
Microalgal and cyanobacterial resource recovery systems could significantly advance nutrient recovery from wastewater by achieving effluent nitrogen (N) and phosphorus (P) levels below the current limit of technology. The successful implementation of phytoplankton, however, requires the formulation of process models that balance fidelity and simplicity to accurately simulate dynamic performance in response to environmental conditions. This work synthesizes the range of model structures that have been leveraged for algae and cyanobacteria modeling and core model features that are required to enable reliable process modeling in the context of water resource recovery facilities. Results from an extensive literature review of over 300 published phytoplankton models are presented, with particular attention to similarities with and differences from existing strategies to model chemotrophic wastewater treatment processes (e.g., via the Activated Sludge Models, ASMs). Building on published process models, the core requirements of a model structure for algal and cyanobacterial processes are presented, including detailed recommendations for the prediction of growth (under phototrophic, heterotrophic, and mixotrophic conditions), nutrient uptake, carbon uptake and storage, and respiration.
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Affiliation(s)
- Brian D. Shoener
- Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 N. Mathews Avenue, Urbana, IL, 61801, USA
| | - Stephanie M. Schramm
- Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 N. Mathews Avenue, Urbana, IL, 61801, USA
| | | | - Olivier Bernard
- Université Côte d’Azur, INRIA, Biocore, 2004, Route des Lucioles – BP 93, 06 902, Sophia Antipolis Cedex, France
| | - Carlos Martínez
- Université Côte d’Azur, INRIA, Biocore, 2004, Route des Lucioles – BP 93, 06 902, Sophia Antipolis Cedex, France
| | - Benedek G. Plósz
- Department of Chemical Engineering, University of Bath, Claverton Down, Bath, BA2 7AY, UK
| | - Spencer Snowling
- Hydromantis Environmental Software Solutions, Inc., 407 King Street West, Hamilton, Ontario, L8P 1B5, Canada
| | | | - Borja Valverde-Pérez
- Department of Environmental Engineering, Technical Univ. of Denmark, Bygningstorvet, Building 115, 2800, Kgs. Lyngby, Denmark
| | - Dorottya Wágner
- Chemistry and Bioscience, Aalborg University, Fredrik Bajers Vej 7H, 9220, Aalborg East, Denmark
| | - Jeremy S. Guest
- Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 N. Mathews Avenue, Urbana, IL, 61801, USA
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Nguyen BT, Rittmann BE. Effects of inorganic carbon and pH on growth kinetics of Synechocystis sp. PCC 6803. ALGAL RES 2016. [DOI: 10.1016/j.algal.2016.03.011] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Touloupakis E, Cicchi B, Benavides AMS, Torzillo G. Effect of high pH on growth of Synechocystis sp. PCC 6803 cultures and their contamination by golden algae (Poterioochromonas sp.). Appl Microbiol Biotechnol 2015; 100:1333-1341. [PMID: 26541331 PMCID: PMC4717179 DOI: 10.1007/s00253-015-7024-0] [Citation(s) in RCA: 64] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2015] [Revised: 08/31/2015] [Accepted: 09/08/2015] [Indexed: 11/29/2022]
Abstract
Culturing cyanobacteria in a highly alkaline environment is a possible strategy for controlling contamination by other organisms. Synechocystis PCC 6803 cells were grown in continuous cultures to assess their growth performance at different pH values. Light conversion efficiency linearly decreased with the increase in pH and ranged between 12.5 % (PAR) at pH 7.5 (optimal) and decreased to 8.9 % at pH 11.0. Photosynthetic activity, assessed by measuring both chlorophyll fluorescence and photosynthesis rate, was not much affected going from pH 7.5 to 11.0, while productivity, growth yield, and biomass yield on light energy declined by 32, 28, and 26 % respectively at pH 11.0. Biochemical composition of the biomass did not change much within pH 7 and 10, while when grown at pH 11.0, carbohydrate content increased by 33 % while lipid content decreased by about the same amount. Protein content remained almost constant (average 65.8 % of dry weight). Cultures maintained at pH above 11.0 could grow free of contaminants (protozoa and other competing microalgae belonging to the species of Poterioochromonas).
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Affiliation(s)
- Eleftherios Touloupakis
- Istituto per lo Studio degli Ecosistemi, CNR, Via Madonna del Piano 10, I-50019, Sesto Fiorentino, Italy
| | - Bernardo Cicchi
- Istituto per lo Studio degli Ecosistemi, CNR, Via Madonna del Piano 10, I-50019, Sesto Fiorentino, Italy
| | - Ana Margarita Silva Benavides
- Escuela de Biología, Universidad de Costa Rica, San Pedro, San José, 2060, Costa Rica
- Centro de Investigación en Ciencias del Mar y Limnología (CIMAR), Universidad de Costa Rica, San Pedro, San José, 2060, Costa Rica
| | - Giuseppe Torzillo
- Istituto per lo Studio degli Ecosistemi, CNR, Via Madonna del Piano 10, I-50019, Sesto Fiorentino, Italy.
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Pinto F, Pacheco CC, Oliveira P, Montagud A, Landels A, Couto N, Wright PC, Urchueguía JF, Tamagnini P. Improving a Synechocystis-based photoautotrophic chassis through systematic genome mapping and validation of neutral sites. DNA Res 2015; 22:425-37. [PMID: 26490728 PMCID: PMC4675711 DOI: 10.1093/dnares/dsv024] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2015] [Accepted: 09/15/2015] [Indexed: 01/04/2023] Open
Abstract
The use of microorganisms as cell factories frequently requires extensive molecular manipulation. Therefore, the identification of genomic neutral sites for the stable integration of ectopic DNA is required to ensure a successful outcome. Here we describe the genome mapping and validation of five neutral sites in the chromosome of Synechocystis sp. PCC 6803, foreseeing the use of this cyanobacterium as a photoautotrophic chassis. To evaluate the neutrality of these loci, insertion/deletion mutants were produced, and to assess their functionality, a synthetic green fluorescent reporter module was introduced. The constructed integrative vectors include a BioBrick-compatible multiple cloning site insulated by transcription terminators, constituting robust cloning interfaces for synthetic biology approaches. Moreover, Synechocystis mutants (chassis) ready to receive purpose-built synthetic modules/circuits are also available. This work presents a systematic approach to map and validate chromosomal neutral sites in cyanobacteria, and that can be extended to other organisms.
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Affiliation(s)
- Filipe Pinto
- i3S-Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto 4150-180, Portugal Faculdade de Ciências, Departamento de Biologia, Universidade do Porto, Porto 4150-171, Portugal
| | - Catarina C Pacheco
- i3S-Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto 4150-180, Portugal
| | - Paulo Oliveira
- i3S-Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto 4150-180, Portugal
| | - Arnau Montagud
- Instituto Universitario de Matemática Pura y Aplicada, Universitat Politècnica de València, Valencia 46022, Spain
| | - Andrew Landels
- ChELSI Institute, Department of Chemical and Biological Engineering, University of Sheffield, Sheffield S10 2TN, UK
| | - Narciso Couto
- ChELSI Institute, Department of Chemical and Biological Engineering, University of Sheffield, Sheffield S10 2TN, UK
| | - Phillip C Wright
- ChELSI Institute, Department of Chemical and Biological Engineering, University of Sheffield, Sheffield S10 2TN, UK
| | - Javier F Urchueguía
- Instituto Universitario de Matemática Pura y Aplicada, Universitat Politècnica de València, Valencia 46022, Spain
| | - Paula Tamagnini
- i3S-Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto 4150-180, Portugal Faculdade de Ciências, Departamento de Biologia, Universidade do Porto, Porto 4150-171, Portugal
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Zavřel T, Sinetova MA, Búzová D, Literáková P, Červený J. Characterization of a model cyanobacteriumSynechocystissp. PCC 6803 autotrophic growth in a flat-panel photobioreactor. Eng Life Sci 2015. [DOI: 10.1002/elsc.201300165] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- Tomáš Zavřel
- Faculty of Science, Department of Experimental Biology; Masaryk University; Brno Czech Republic
| | - Maria A. Sinetova
- Laboratory of Intracellular Regulation, Institute of Plant Physiology; Russian Academy of Sciences; Moscow Russian Federation
| | - Diana Búzová
- Department of Adaptation Biotechnologies, Global Change Research Centre; Academy of Science of the Czech Republic; Drásov Czech Republic
| | - Petra Literáková
- Department of Adaptation Biotechnologies, Global Change Research Centre; Academy of Science of the Czech Republic; Drásov Czech Republic
| | - Jan Červený
- Department of Adaptation Biotechnologies, Global Change Research Centre; Academy of Science of the Czech Republic; Drásov Czech Republic
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Ding X, Matsumoto T, Gena P, Liu C, Pellegrini-Calace M, Zhong S, Sun X, Zhu Y, Katsuhara M, Iwasaki I, Kitagawa Y, Calamita G. Water and CO2permeability of SsAqpZ, the cyanobacteriumSynechococcussp. PCC7942 aquaporin. Biol Cell 2013; 105:118-28. [DOI: 10.1111/boc.201200057] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2012] [Accepted: 12/22/2012] [Indexed: 01/14/2023]
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