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Stanić M, Jevtović M, Kovačević S, Dimitrijević M, Danilović Luković J, McIntosh OA, Zechmann B, Lizzul AM, Spasojević I, Pittman JK. Low-dose ionizing radiation generates a hormetic response to modify lipid metabolism in Chlorella sorokiniana. Commun Biol 2024; 7:821. [PMID: 38969726 PMCID: PMC11226653 DOI: 10.1038/s42003-024-06526-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Accepted: 06/28/2024] [Indexed: 07/07/2024] Open
Abstract
Algal biomass is a viable source of chemicals and metabolites for various energy, nutritional, medicinal and agricultural uses. While stresses have commonly been used to induce metabolite accumulation in microalgae in attempts to enhance high-value product yields, this is often very detrimental to growth. Therefore, understanding how to modify metabolism without deleterious consequences is highly beneficial. We demonstrate that low-doses (1-5 Gy) of ionizing radiation in the X-ray range induces a non-toxic, hormetic response in microalgae to promote metabolic activation. We identify specific radiation exposure parameters that give reproducible metabolic responses in Chlorella sorokiniana caused by transcriptional changes. This includes up-regulation of >30 lipid metabolism genes, such as genes encoding an acetyl-CoA carboxylase subunit, phosphatidic acid phosphatase, lysophosphatidic acid acyltransferase, and diacylglycerol acyltransferase. The outcome is an increased lipid yield in stationary phase cultures by 25% in just 24 hours, without any negative effects on cell viability or biomass.
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Affiliation(s)
- Marina Stanić
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia
| | - Mima Jevtović
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia
- Innovative Centre of the Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Snežana Kovačević
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia
| | - Milena Dimitrijević
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia
| | - Jelena Danilović Luković
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia
- Institute for Application of Nuclear Energy-INEP, University of Belgrade, Belgrade, Serbia
| | - Owen A McIntosh
- Department of Earth and Environmental Sciences, School of Natural Sciences, The University of Manchester, Manchester, UK
| | - Bernd Zechmann
- Center for Microscopy and Imaging, Baylor University, Waco, TX, USA
| | | | - Ivan Spasojević
- University of Belgrade-Institute for Multidisciplinary Research, Life Sciences Department, Belgrade, Serbia.
| | - Jon K Pittman
- Department of Earth and Environmental Sciences, School of Natural Sciences, The University of Manchester, Manchester, UK.
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Ezhumalai G, Arun M, Manavalan A, Rajkumar R, Heese K. A Holistic Approach to Circular Bioeconomy Through the Sustainable Utilization of Microalgal Biomass for Biofuel and Other Value-Added Products. MICROBIAL ECOLOGY 2024; 87:61. [PMID: 38662080 PMCID: PMC11045622 DOI: 10.1007/s00248-024-02376-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2023] [Accepted: 04/03/2024] [Indexed: 04/26/2024]
Abstract
Emissions from transportation and industry primarily cause global warming, leading to floods, glacier melt, and rising seas. Widespread greenhouse gas emissions and resulting global warming pose significant risks to the environment, economy, and society. The need for alternative fuels drives the development of third-generation feedstocks: microalgae, seaweed, and cyanobacteria. These microalgae offer traits like rapid growth, high lipid content, non-competition with human food, and growth on non-arable land using brackish or waste water, making them promising for biofuel. These unique phototrophic organisms use sunlight, water, and carbon dioxide (CO2) to produce biofuels, biochemicals, and more. This review delves into the realm of microalgal biofuels, exploring contemporary methodologies employed for lipid extraction, significant value-added products, and the challenges inherent in their commercial-scale production. While the cost of microalgae bioproducts remains high, utilizing wastewater nutrients for cultivation could substantially cut production costs. Furthermore, this review summarizes the significance of biocircular economy approaches, which encompass the utilization of microalgal biomass as a feed supplement and biofertilizer, and biosorption of heavy metals and dyes. Besides, the discussion extends to the in-depth analysis and future prospects on the commercial potential of biofuel within the context of sustainable development. An economically efficient microalgae biorefinery should prioritize affordable nutrient inputs, efficient harvesting techniques, and the generation of valuable by-products.
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Affiliation(s)
- Ganesan Ezhumalai
- Department of Environmental Sciences, School of Life Sciences, Bharathiar University, Coimbatore, Tamil Nadu, 641046, India
| | - Muthukrishnan Arun
- Department of Biotechnology, School of Life Sciences, Bharathiar University, Coimbatore, Tamil Nadu, 641046, India
| | - Arulmani Manavalan
- Department of Cariology, Saveetha Dental College and Hospitals, Saveetha Institute of Medical and Technical Sciences, Chennai, Tamil Nadu, 600077, India
| | - Renganathan Rajkumar
- Department of Environmental Sciences, School of Life Sciences, Bharathiar University, Coimbatore, Tamil Nadu, 641046, India.
| | - Klaus Heese
- Graduate School of Biomedical Science and Engineering, Hanyang University, 222 Wangsimni-ro, Seongdong-gu, Seoul, 133791, Republic of Korea.
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Plouviez M, Dubreucq E. Key Proteomics Tools for Fundamental and Applied Microalgal Research. Proteomes 2024; 12:13. [PMID: 38651372 PMCID: PMC11036299 DOI: 10.3390/proteomes12020013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Revised: 03/28/2024] [Accepted: 04/02/2024] [Indexed: 04/25/2024] Open
Abstract
Microscopic, photosynthetic prokaryotes and eukaryotes, collectively referred to as microalgae, are widely studied to improve our understanding of key metabolic pathways (e.g., photosynthesis) and for the development of biotechnological applications. Omics technologies, which are now common tools in biological research, have been shown to be critical in microalgal research. In the past decade, significant technological advancements have allowed omics technologies to become more affordable and efficient, with huge datasets being generated. In particular, where studies focused on a single or few proteins decades ago, it is now possible to study the whole proteome of a microalgae. The development of mass spectrometry-based methods has provided this leap forward with the high-throughput identification and quantification of proteins. This review specifically provides an overview of the use of proteomics in fundamental (e.g., photosynthesis) and applied (e.g., lipid production for biofuel) microalgal research, and presents future research directions in this field.
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Affiliation(s)
- Maxence Plouviez
- School of Agriculture and Environment, Massey University, Palmerston North 4410, New Zealand
- The Cawthron Institute, Nelson 7010, New Zealand
| | - Eric Dubreucq
- Agropolymer Engineering and Emerging Technologies, L’Institut Agro Montpellier, 34060 Montpellier, France;
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Patel AK, Tambat VS, Chen CW, Chauhan AS, Kumar P, Vadrale AP, Huang CY, Dong CD, Singhania RR. Recent advancements in astaxanthin production from microalgae: A review. BIORESOURCE TECHNOLOGY 2022; 364:128030. [PMID: 36174899 DOI: 10.1016/j.biortech.2022.128030] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Revised: 09/20/2022] [Accepted: 09/22/2022] [Indexed: 06/16/2023]
Abstract
Microalgae have emerged as the best source of high-value astaxanthin producers. Algal astaxanthin possesses numerous bioactivities hence the rising demand for several health applications and is broadly used in pharmaceuticals, aquaculture, health foods, cosmetics, etc. Among several low-priced synthetic astaxanthin, natural astaxanthin is still irreplaceable for human consumption and food-additive uses. This review highlights the recent development in production enhancement and cost-effective extraction techniques that may apply to large-scale astaxanthin biorefinery. Primarily, the biosynthetic pathway of astaxanthin is elaborated with the key enzymes involved in the metabolic process. Moreover, discussed the latest astaxanthin enhancement strategies mainly including chemicals as product inducers and byproducts inhibitors. Later, various physical, chemical, and biological cell disruption methods are compared for cell disruption efficiency, and astaxanthin extractability. The aim of this review is to provide a comprehensive review of advancements in astaxanthin research covering scalable upstream and downstream astaxanthin bioproduction aspects.
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Affiliation(s)
- Anil Kumar Patel
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India
| | - Vaibhav Sunil Tambat
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India
| | - Chiu-Wen Chen
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Sustainable Environment Research Centre, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Department of Marine Environmental Engineering, National Kaohsiung University of Science and Technology, Kaohsiung City, Taiwan
| | - Ajeet Singh Chauhan
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India
| | - Prashant Kumar
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India
| | - Akash Pralhad Vadrale
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India; Department of Marine Environmental Engineering, National Kaohsiung University of Science and Technology, Kaohsiung City, Taiwan
| | - Chun-Yung Huang
- Department of Seafood Science, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan
| | - Cheng-Di Dong
- Institute of Aquatic Science and Technology, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Department of Marine Environmental Engineering, National Kaohsiung University of Science and Technology, Kaohsiung City, Taiwan.
| | - Reeta Rani Singhania
- Centre for Energy and Environmental Sustainability, Lucknow 226 029, Uttar Pradesh, India; Sustainable Environment Research Centre, National Kaohsiung University of Science and Technology, Kaohsiung City 81157, Taiwan; Department of Marine Environmental Engineering, National Kaohsiung University of Science and Technology, Kaohsiung City, Taiwan
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Zou S, Huang Z, Wu X, Yu X. Physiological and Genetic Regulation for High Lipid Accumulation by Chlorella sorokiniana Strains from Different Environments of an Arctic Glacier, Desert, and Temperate Lake under Nitrogen Deprivation Conditions. Microbiol Spectr 2022; 10:e0039422. [PMID: 36200894 PMCID: PMC9603131 DOI: 10.1128/spectrum.00394-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Accepted: 09/07/2022] [Indexed: 11/20/2022] Open
Abstract
Microalgae can adapt to extreme environments with specialized metabolic mechanisms. Here, we report comparative physiological and genetic regulation analyses of Chlorella sorokiniana from different environmental regions of an arctic glacier, desert, and temperate native lake in response to N deprivation, for screening the optimal strain with high lipid accumulation. Strains from the three regions showed different growth and biochemical compositions under N deprivation. The arctic glacier and desert strains produced higher soluble sugar content than strains from the native lake. The arctic glacier strains produced the highest levels of lipid content and neutral lipids under N deprivation compared with strains from desert and native lake. At a molecular level, the arctic strain produced more differentially expressed genes related to fatty acid biosynthesis, glycolysis gluconeogenesis, and glycerolipid metabolism. The important functional genes acetyl coenzyme A (acetyl-CoA) carboxylase (ACCase), fatty acid synthase complex, pyruvate dehydrogenase component, and fatty acyl-acyl carrier protein (acyl-ACP) thioesterase were highly expressed in arctic strains. More acetyl-CoA was produced from glycolysis gluconeogenesis and glycerolipid metabolism, which then produced more fatty acid with the catalytic function of ACCase and acyl-ACP thioesterase in fatty acid biosynthesis. Our results indicated that the C. sorokiniana strains from the arctic region had the fullest potential for biodiesel production due to special genetic regulation related to fatty acid synthesis, glycolysis gluconeogenesis, and glycerolipid metabolism. IMPORTANCE It is important to reveal the physiological and genetic regulation mechanisms of microalgae for screening potential strains with high lipid production. Our results showed that Chlorella sorokiniana strains from arctic glacier, desert, and temperate native lake had different growth, biochemical composition, and genetic expression under N deprivation. The strains from an arctic glacier produced the highest lipid content (including neutral lipid), which was related to the genetic regulation of fatty acid biosynthesis, glycolysis gluconeogenesis, and glycerolipid metabolism. The functional genes for acetyl-CoA carboxylase, fatty acid synthase complex, pyruvate dehydrogenase component, and fatty acyl-ACP thioesterase in the three pathways were highly expressed in arctic strains. The revelation of physiological and genetic regulation of strains from different environmental regions will contribute to the microalgae selection for high lipid accumulation.
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Affiliation(s)
- Shanmei Zou
- Jiangsu Provincial Key Laboratory of Marine Biology, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing, P. R. China
| | - Zheng Huang
- Jiangsu Provincial Key Laboratory of Marine Biology, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing, P. R. China
| | - Xuemin Wu
- Jiangsu Provincial Key Laboratory of Marine Biology, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing, P. R. China
| | - Xinke Yu
- Jiangsu Provincial Key Laboratory of Marine Biology, College of Resources and Environmental Science, Nanjing Agricultural University, Nanjing, P. R. China
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Kuo EY, Yang RY, Chin YY, Chien YL, Chen YC, Wei CY, Kao LJ, Chang YH, Li YJ, Chen TY, Lee TM. Multi-omics approaches and genetic engineering of metabolism for improved biorefinery and wastewater treatment in microalgae. Biotechnol J 2022; 17:e2100603. [PMID: 35467782 DOI: 10.1002/biot.202100603] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2021] [Revised: 03/12/2022] [Accepted: 04/01/2022] [Indexed: 11/06/2022]
Abstract
Microalgae, a group of photosynthetic microorganisms rich in diverse and novel bioactive metabolites, have been explored for the production of biofuels, high value-added compounds as food and feeds, and pharmaceutical chemicals as agents with therapeutic benefits. This article reviews the development of omics resources and genetic engineering techniques including gene transformation methodologies, mutagenesis, and genome-editing tools in microalgae biorefinery and wastewater treatment. The introduction of these enlisted techniques has simplified the understanding of complex metabolic pathways undergoing microalgal cells. The multiomics approach of the integrated omics datasets, big data analysis, and machine learning for the discovery of objective traits and genes responsible for metabolic pathways was reviewed. Recent advances and limitations of multiomics analysis and genetic bioengineering technology to facilitate the improvement of microalgae as the dual role of wastewater treatment and biorefinery feedstock production are discussed. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Eva YuHua Kuo
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan.,Frontier Center for Ocean Science and Technology, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Ru-Yin Yang
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Yuan Yu Chin
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Yi-Lin Chien
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan.,Frontier Center for Ocean Science and Technology, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Yu Chu Chen
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Cheng-Yu Wei
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Li-Jung Kao
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Yi-Hua Chang
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Yu-Jia Li
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Te-Yuan Chen
- Doctoral Degree Program in Marine Biotechnology, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
| | - Tse-Min Lee
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 804, Taiwan.,Frontier Center for Ocean Science and Technology, National Sun Yat-sen University, Kaohsiung, 804, Taiwan.,Doctoral Degree Program in Marine Biotechnology, National Sun Yat-sen University, Kaohsiung, 804, Taiwan
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Limited fatty-acid supply from the plastid and active catabolism of triacylglycerol prevent the accumulation of triacylglycerol in Coccomyxa sp. strain Obi grown under nitrogen-replete conditions. ALGAL RES 2022. [DOI: 10.1016/j.algal.2021.102620] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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8
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Carrasco-Reinado R, Bermudez-Sauco M, Escobar-Niño A, Cantoral JM, Fernández-Acero FJ. Development of the "Applied Proteomics" Concept for Biotechnology Applications in Microalgae: Example of the Proteome Data in Nannochloropsis gaditana. Mar Drugs 2021; 20:38. [PMID: 35049892 PMCID: PMC8780095 DOI: 10.3390/md20010038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Revised: 12/19/2021] [Accepted: 12/26/2021] [Indexed: 11/23/2022] Open
Abstract
Most of the marine ecosystems on our planet are still unknown. Among these ecosystems, microalgae act as a baseline due to their role as primary producers. The estimated millions of species of these microorganisms represent an almost infinite source of potentially active biocomponents offering unlimited biotechnology applications. This review considers current research in microalgae using the "omics" approach, which today is probably the most important biotechnology tool. These techniques enable us to obtain a large volume of data from a single experiment. The specific focus of this review is proteomics as a technique capable of generating a large volume of interesting information in a single proteomics assay, and particularly the concept of applied proteomics. As an example, this concept has been applied to the study of Nannochloropsis gaditana, in which proteomics data generated are transformed into information of high commercial value by identifying proteins with direct applications in the biomedical and agri-food fields, such as the protein designated UCA01 which presents antitumor activity, obtained from N. gaditana.
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Affiliation(s)
- Rafael Carrasco-Reinado
- Microbiology Laboratory, Institute of Viticulture and Agri-Food Research (IVAGRO), Marine and Environmental Sciences Faculty, University of Cadiz (UCA), 11500 Puerto Real, Spain; (R.C.-R.); (M.B.-S.); (A.E.-N.); (J.M.C.)
| | - María Bermudez-Sauco
- Microbiology Laboratory, Institute of Viticulture and Agri-Food Research (IVAGRO), Marine and Environmental Sciences Faculty, University of Cadiz (UCA), 11500 Puerto Real, Spain; (R.C.-R.); (M.B.-S.); (A.E.-N.); (J.M.C.)
| | - Almudena Escobar-Niño
- Microbiology Laboratory, Institute of Viticulture and Agri-Food Research (IVAGRO), Marine and Environmental Sciences Faculty, University of Cadiz (UCA), 11500 Puerto Real, Spain; (R.C.-R.); (M.B.-S.); (A.E.-N.); (J.M.C.)
| | - Jesús M. Cantoral
- Microbiology Laboratory, Institute of Viticulture and Agri-Food Research (IVAGRO), Marine and Environmental Sciences Faculty, University of Cadiz (UCA), 11500 Puerto Real, Spain; (R.C.-R.); (M.B.-S.); (A.E.-N.); (J.M.C.)
| | - Francisco Javier Fernández-Acero
- Microbiology Laboratory, Institute of Viticulture and Agri-Food Research (IVAGRO), Marine and Environmental Sciences Faculty, University of Cadiz (UCA), 11500 Puerto Real, Spain; (R.C.-R.); (M.B.-S.); (A.E.-N.); (J.M.C.)
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Guardini Z, Dall’Osto L, Barera S, Jaberi M, Cazzaniga S, Vitulo N, Bassi R. High Carotenoid Mutants of Chlorella vulgaris Show Enhanced Biomass Yield under High Irradiance. PLANTS 2021; 10:plants10050911. [PMID: 34062906 PMCID: PMC8147269 DOI: 10.3390/plants10050911] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/05/2021] [Revised: 04/26/2021] [Accepted: 04/27/2021] [Indexed: 12/30/2022]
Abstract
Microalgae represent a carbon-neutral source of bulk biomass, for extraction of high-value compounds and production of renewable fuels. Due to their high metabolic activity and reproduction rates, species of the genus Chlorella are highly productive when cultivated in photobioreactors. However, wild-type strains show biological limitations making algal bioproducts expensive compared to those extracted from other feedstocks. Such constraints include inhomogeneous light distribution due to high optical density of the culture, and photoinhibition of the surface-exposed cells. Thus, the domestication of algal strains for industry makes it increasingly important to select traits aimed at enhancing light-use efficiency while withstanding excess light stress. Carotenoids have a crucial role in protecting against photooxidative damage and, thus, represent a promising target for algal domestication. We applied chemical mutagenesis to Chlorella vulgaris and selected for enhanced tolerance to the carotenoid biosynthesis inhibitor norflurazon. The NFR (norflurazon-resistant) strains showed an increased carotenoid pool size and enhanced tolerance towards photooxidative stress. Growth under excess light revealed an improved carbon assimilation rate of NFR strains with respect to WT. We conclude that domestication of Chlorella vulgaris, by optimizing both carotenoid/chlorophyll ratio and resistance to photooxidative stress, boosted light-to-biomass conversion efficiency under high light conditions typical of photobioreactors. Comparison with strains previously reported for enhanced tolerance to singlet oxygen, reveals that ROS resistance in Chlorella is promoted by at least two independent mechanisms, only one of which is carotenoid-dependent.
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Giraldo ND, Correa SM, Arbeláez A, Figueroa FL, Ríos-Estepa R, Atehortúa L. Reducing self-shading effects in Botryococcus braunii cultures: effect of Mg 2+ deficiency on optical and biochemical properties, photosynthesis and lipidomic profile. BIORESOUR BIOPROCESS 2021; 8:33. [PMID: 38650232 PMCID: PMC10992481 DOI: 10.1186/s40643-021-00389-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 04/23/2021] [Indexed: 11/10/2022] Open
Abstract
Microalgae biomass exploitation as a carbon-neutral energy source is currently limited by several factors, productivity being one of the most relevant. Due to the high absorption properties of light-harvesting antenna, photosynthetic cells tend to capture an excessive amount of energy that cannot be entirely channeled through the electron transfer chain that ends up dissipated as heat and fluorescence, reducing the overall light use efficiency. Aiming to minimize this hurdle, in this work we studied the effect of decreasing concentrations of Magnesium (Mg2+) on the chlorophyll a content, photosynthetic performance, biomass and lipid production of autotrophic cultures of Botryococcus braunii LB 572. We also performed, for the first time, a comparative lipidomic analysis to identify the influence of limited Mg2+ supply on the lipid profile of this algae. The results indicated that a level of 0.0037 g L-1 MgSO4 caused a significant decline on chlorophyll a content with a concomitant 2.3-fold reduction in the biomass absorption coefficient. In addition, the Mg2+ limitation caused a decrease in the total carbohydrate content and triggered lipid accumulation, achieving levels of up to 53% DCW, whereas the biomass productivity remained similar for all tested conditions. The lipidome analysis revealed that the lowest Mg2+ concentrations also caused a differential lipid profile distribution, with an enrichment of neutral lipids and an increase of structural lipids. In that sense, we showed that Mg2+ limitation represents an alternative optimization approach that not only enhances accumulation of neutral lipids in B. braunii cells but also may potentially lead to a better areal biomass productivity due to the reduction in the cellular light absorption properties of the cells.
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Affiliation(s)
- Néstor David Giraldo
- Grupo de Biotecnología, Instituto de Biología, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Calle 67 No. 53-108, Medellín, Colombia.
| | - Sandra Marcela Correa
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, Potsdam, Germany
| | - Andrés Arbeláez
- Grupo de Biotecnología, Instituto de Biología, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Calle 67 No. 53-108, Medellín, Colombia
| | - Felix L Figueroa
- Institute of Biotechnology and Blue Development (IBYDA), University of Malaga, Campus Universitario de Teatinos s/n, 29071, Málaga, Spain
| | - Rigoberto Ríos-Estepa
- Grupo de Bioprocesos, Departamento de Ingeniería Química, Universidad de Antioquia UdeA, Calle 67 No. 53-108, Medellín, Colombia
| | - Lucía Atehortúa
- Grupo de Biotecnología, Instituto de Biología, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Calle 67 No. 53-108, Medellín, Colombia
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Torres S, Lama C, Mantecón L, Flemetakis E, Infante C. Selection and validation of reference genes for quantitative real-time PCR in the green microalgae Tetraselmis chui. PLoS One 2021; 16:e0245495. [PMID: 33444403 PMCID: PMC7808622 DOI: 10.1371/journal.pone.0245495] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Accepted: 12/30/2020] [Indexed: 01/08/2023] Open
Abstract
Quantitative real-time reverse transcription PCR (RT-qPCR) is a highly sensitive technique that can be applied to analyze how genes are modulated by culture conditions, but identification of appropriate reference genes for normalization is a critical factor to be considered. For this reason, the expression stability of 18 candidate reference genes was evaluated for the green microalgae Tetraselmis chui using the widely employed algorithms geNorm, NormFinder, BestKeeper, the comparative ΔCT method, and RefFinder. Microalgae samples were collected from large scale outdoor photobioreactors during the growing phase (OUT_GP), and during the semi-continuous phase at different times of the day (OUT_DC). Samples from standard indoor cultures under highly controlled conditions (IND) were also collected to complement the other data. Different rankings for the candidate reference genes were obtained depending on the culture conditions and the algorithm employed. After comparison of the achieved ranks with the different methods, the references genes selected for samples from specific culture conditions were ALD and EFL in OUT_GP, RPL32 and UBCE in OUT_DC, and cdkA and UBCE in IND. Moreover, the genes EFL and cdkA or EFL and UBCE appeared as appropriate combinations for pools generated from all samples (ALL). Examination in the OUT_DC cultures of genes encoding the large and small subunits of ADP-glucose pyrophosphorylase (AGPL and AGPS, respectively) confirmed the reliability of the identified reference genes, RPL32 and UBCE. The present study represents a useful contribution for studies of gene expression in T. chui, and also represents the first step to set-up an RT-qPCR platform for quality control of T. chui biomass production in industrial facilities.
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Affiliation(s)
- Sonia Torres
- Fitoplancton Marino, S.L., El Puerto de Santa María, Cádiz, Spain
| | - Carmen Lama
- Fitoplancton Marino, S.L., El Puerto de Santa María, Cádiz, Spain
| | - Lalia Mantecón
- Fitoplancton Marino, S.L., El Puerto de Santa María, Cádiz, Spain
| | - Emmanouil Flemetakis
- Laboratory of Molecular Biology, Department of Biotechnology, Agricultural University of Athens, Athens, Greece
| | - Carlos Infante
- Fitoplancton Marino, S.L., El Puerto de Santa María, Cádiz, Spain
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12
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Development of New Antiproliferative Compound against Human Tumor Cells from the Marine Microalgae Nannochloropsis gaditana by Applied Proteomics. Int J Mol Sci 2020; 22:ijms22010096. [PMID: 33374179 PMCID: PMC7795124 DOI: 10.3390/ijms22010096] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2020] [Revised: 12/15/2020] [Accepted: 12/22/2020] [Indexed: 12/18/2022] Open
Abstract
Proteomics is a crucial tool for unravelling the molecular dynamics of essential biological processes, becoming a pivotal technique for basic and applied research. Diverse bioinformatic tools are required to manage and explore the huge amount of information obtained from a single proteomics experiment. Thus, functional annotation and protein-protein interactions are evaluated in depth leading to the biological conclusions that best fit the proteomic response in the system under study. To gain insight into potential applications of the identified proteins, a novel approach named "Applied Proteomics" has been developed by comparing the obtained protein information with the existing patents database. The development of massive sequencing technology and mass spectrometry (MS/MS) improvements has allowed the application of proteomics nonmodel microorganisms, which have been deeply described as a novel source of metabolites. Between them, Nannochloropsis gaditana has been pointed out as an alternative source of biomolecules. Recently, our research group has reported the first complete proteome analysis of this microalga, which was analysed using the applied proteomics concept with the identification of 488 proteins with potential industrial applications. To validate our approach, we selected the UCA01 protein from the prohibitin family. The recombinant version of this protein showed antiproliferative activity against two tumor cell lines, Caco2 (colon adenocarcinoma) and HepG-2 (hepatocellular carcinoma), proving that proteome data have been transformed into relevant biotechnological information. From Nannochloropsis gaditana has been developed a new tool against cancer-the protein named UCA01. This protein has selective effects inhibiting the growth of tumor cells, but does not show any effect on control cells. This approach describes the first practical approach to transform proteome information in a potential industrial application, named "applied proteomics". It is based on a novel bioalgorithm, which is able to identify proteins with potential industrial applications. From hundreds of proteins described in the proteome of N. gaditana, the bioalgorithm identified over 400 proteins with potential uses; one of them was selected as UCA01, "in vitro" and its potential was demonstrated against cancer. This approach has great potential, but the applications are potentially numerous and undefined.
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Azaman SNA, Wong DCJ, Tan SW, Yusoff FM, Nagao N, Yeap SK. De novo transcriptome analysis of Chlorella sorokiniana: effect of glucose assimilation, and moderate light intensity. Sci Rep 2020; 10:17331. [PMID: 33060668 PMCID: PMC7562877 DOI: 10.1038/s41598-020-74410-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 10/01/2020] [Indexed: 02/01/2023] Open
Abstract
Chlorella can produce an unusually wide range of metabolites under various nutrient availability, carbon source, and light availability. Glucose, an essential molecule for the growth of microorganisms, also contributes significantly to the metabolism of various metabolic compounds produced by Chlorella. In addition, manipulation of light intensity also induces the formation of secondary metabolites such as pigments, and carotenoids in Chlorella. This study will focus on the effect of glucose addition, and moderate light on the regulation of carotenoid, lipid, starch, and other key metabolic pathways in Chlorella sorokiniana. To gain knowledge about this, we performed transcriptome profiling on C. sorokiniana strain NIES-2168 in response to moderate light stress supplemented with glucose under mixotrophic conditions. A total of 60,982,352 raw paired-end (PE) reads 100 bp in length was obtained from both normal, and mixotrophic samples of C. sorokiniana. After pre-processing, 93.63% high-quality PE reads were obtained, and 18,310 predicted full-length transcripts were assembled. Differential gene expression showed that a total of 937, and 1124 genes were upregulated, and downregulated in mixotrophic samples, respectively. Transcriptome analysis revealed that the mixotrophic condition caused upregulation of genes involved in carotenoids production (specifically lutein biosynthesis), fatty acid biosynthesis, TAG accumulation, and the majority of the carbon fixation pathways. Conversely, starch biosynthesis, sucrose biosynthesis, and isoprenoid biosynthesis were downregulated. Novel insights into the pathways that link the enhanced production of valuable metabolites (such as carotenoids in C. sorokiniana) grown under mixotrophic conditions is presented.
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Affiliation(s)
- Siti Nor Ani Azaman
- Centre of Foundation Studies for Agricultural Sciences, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Aquatic Animal Health and Therapeutics Laboratory (AquaHealth), Institute of Bioscience, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Darren C J Wong
- Ecology and Evolution, Research School of Biology, The Australian National University, Canberra, ACT, 2600, Australia
| | - Sheau Wei Tan
- Laboratory of Vaccine and Biomolecules (VacBio), Institute of Bioscience, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Fatimah M Yusoff
- International Institute of Aquaculture and Aquatic Sciences (I-AQUAS), Universiti Putra Malaysia, Port Dickson, Negeri Sembilan, Malaysia
- Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Norio Nagao
- Aquatic Animal Health and Therapeutics Laboratory (AquaHealth), Institute of Bioscience, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- , 102 Naname-go, Shinkamigoto-cho, Minami Matsuura-Gun, Nagasaki, 857-4214, Japan
| | - Swee Keong Yeap
- China-ASEAN College of Marine Sciences, Xiamen University Malaysia, Sepang, Selangor, Malaysia.
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14
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Kumar G, Shekh A, Jakhu S, Sharma Y, Kapoor R, Sharma TR. Bioengineering of Microalgae: Recent Advances, Perspectives, and Regulatory Challenges for Industrial Application. Front Bioeng Biotechnol 2020; 8:914. [PMID: 33014997 PMCID: PMC7494788 DOI: 10.3389/fbioe.2020.00914] [Citation(s) in RCA: 84] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Accepted: 07/15/2020] [Indexed: 01/14/2023] Open
Abstract
Microalgae, due to their complex metabolic capacity, are being continuously explored for nutraceuticals, pharmaceuticals, and other industrially important bioactives. However, suboptimal yield and productivity of the bioactive of interest in local and robust wild-type strains are of perennial concerns for their industrial applications. To overcome such limitations, strain improvement through genetic engineering could play a decisive role. Though the advanced tools for genetic engineering have emerged at a greater pace, they still remain underused for microalgae as compared to other microorganisms. Pertaining to this, we reviewed the progress made so far in the development of molecular tools and techniques, and their deployment for microalgae strain improvement through genetic engineering. The recent availability of genome sequences and other omics datasets form diverse microalgae species have remarkable potential to guide strategic momentum in microalgae strain improvement program. This review focuses on the recent and significant improvements in the omics resources, mutant libraries, and high throughput screening methodologies helpful to augment research in the model and non-model microalgae. Authors have also summarized the case studies on genetically engineered microalgae and highlight the opportunities and challenges that are emerging from the current progress in the application of genome-editing to facilitate microalgal strain improvement. Toward the end, the regulatory and biosafety issues in the use of genetically engineered microalgae in commercial applications are described.
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Affiliation(s)
- Gulshan Kumar
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Ajam Shekh
- Plant Cell Biotechnology Department, CSIR-Central Food Technological Research Institute (CFTRI), Mysuru, India
| | - Sunaina Jakhu
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Yogesh Sharma
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Ritu Kapoor
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Tilak Raj Sharma
- Division of Crop Science, Indian Council of Agricultural Research, New Delhi, India
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15
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16
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Huang B, Mimouni V, Lukomska E, Morant-Manceau A, Bougaran G. Carbon Partitioning and Lipid Remodeling During Phosphorus and Nitrogen Starvation in the Marine Microalga Diacronema lutheri (Haptophyta). JOURNAL OF PHYCOLOGY 2020; 56:908-922. [PMID: 32215912 DOI: 10.1111/jpy.12995] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 03/03/2020] [Indexed: 06/10/2023]
Abstract
The domesticated marine microalga Diacronema lutheri is of great interest for producing various highly valuable molecules like lipids, particularly long-chain polyunsaturated fatty acids (LC-PUFA). In this study, we investigated the impact of phosphorus (P) and nitrogen (N) starvation on growth, carbon fixation (photosynthetic activity) and partitioning, and membrane lipid remodeling in this alga during batch culture. Our results show that the photosynthetic machinery was similarly affected by P and N stress. Under N starvation, we observed a much lower photosynthetic rate and biomass productivity. The degradation and re-use of cellular N-containing compounds contributed to triacylglycerol (TAG) accumulation. On the other hand, P-starved cells maintained pigment content and a carbon partitioning pattern more similar to the control, ensuring a high biomass. Betaine lipids constitute the major compounds of non-plastidial membranes, which are rich in eicosapentaenoic (EPA) and docosahexaenoic (DHA) acids. Under P and N starvations, EPA was transferred from the recycling of membrane polar lipids, most likely contributing to TAG accumulation.
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Affiliation(s)
- Bing Huang
- Laboratoire Mer, Molécules, Santé (IUML - FR 3473 CNRS), UFR Sciences et Techniques, Le Man Université, Avenue Olivier Messiaen, 72085, Le Mans Cedex 09, France
| | - Virginie Mimouni
- Laboratoire Mer, Molécules, Santé (IUML - FR 3473 CNRS), IUT de Laval, Département Génie Biologique, Le Mans Université, 52 rue des Docteurs Calmette et Guérin, 53020, Laval Cedex 9, France
| | - Ewa Lukomska
- Laboratoire Physiologie et Biotechnologie des Algues, IFREMER, rue de l'Ile d'Yeu, BP 21105, 44311, Nantes Cedex 03, France
| | - Annick Morant-Manceau
- Laboratoire Mer, Molécules, Santé (IUML - FR 3473 CNRS), UFR Sciences et Techniques, Le Man Université, Avenue Olivier Messiaen, 72085, Le Mans Cedex 09, France
| | - Gaël Bougaran
- Laboratoire Physiologie et Biotechnologie des Algues, IFREMER, rue de l'Ile d'Yeu, BP 21105, 44311, Nantes Cedex 03, France
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17
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Arora N, Tripathi S, Pruthi PA, Poluri KM, Pruthi V. Assessing the robust growth and lipid-accumulating characteristics of Scenedesmus sp. for biodiesel production. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:27449-27456. [PMID: 31823270 DOI: 10.1007/s11356-019-07023-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Accepted: 11/11/2019] [Indexed: 06/10/2023]
Abstract
In the present investigation, different salts of nitrogen and carbon sources were tested for their potential to boost biomass and lipid content in Scenedesmus sp. IITRIND2. Among the nitrogen sources, ammonium bicarbonate/nitrate cultures showed maximum dry cell weight (DCW) of ~ 1.8 g/L and lipid yield (~ 40%) while the addition of C6 sugars (glucose and mannose) and sodium acetate enhanced the DCW (~ 3 g/L) and lipid accumulation (~ 40%) compared with disaccharides, C4 and C5 sugars. On evaluating the synergistic effects of the nitrogen and carbon sources, maximum DCW (3.66 g/L) was obtained in ammonium bicarbonate + sodium acetate cultures with a lipid yield of 37.15%. The fatty acid profile of the derived biodiesel was similar to that of plant oils. The results clearly established the robust capability of the novel microalga to efficiently adapt, sustain, and grow in different carbon and nitrogen sources along with high lipid productivity, making it a potential source for biodiesel production.
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Affiliation(s)
- Neha Arora
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
| | - Shweta Tripathi
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
| | - Parul Aggarwal Pruthi
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
| | - Krishna Mohan Poluri
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
- Centre for Transportation Systems, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
| | - Vikas Pruthi
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India.
- Centre for Transportation Systems, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India.
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18
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De Luca D, Lauritano C. In Silico Identification of Type III PKS Chalcone and Stilbene Synthase Homologs in Marine Photosynthetic Organisms. BIOLOGY 2020; 9:E110. [PMID: 32456002 PMCID: PMC7284882 DOI: 10.3390/biology9050110] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 05/13/2020] [Accepted: 05/20/2020] [Indexed: 12/18/2022]
Abstract
Marine microalgae are photosynthetic microorganisms at the base of the marine food webs. They are characterized by huge taxonomic and metabolic diversity and several species have been shown to have bioactivities useful for the treatment of human pathologies. However, the compounds and the metabolic pathways responsible for bioactive compound synthesis are often still unknown. In this study, we aimed at analysing the microalgal transcriptomes available in the Marine Microbial Eukaryotic Transcriptome Sequencing Project (MMETSP) database for an in silico search of polyketide synthase type III homologs and, in particular, chalcone synthase (CHS) and stilbene synthase (STS), which are often referred to as the CHS/STS family. These enzymes were selected because they are known to produce compounds with biological properties useful for human health, such as cancer chemopreventive, anti-inflammatory, antioxidant, anti-angiogenic, anti-viral and anti-diabetic. In addition, we also searched for 4-Coumarate: CoA ligase, an upstream enzyme in the synthesis of chalcones and stilbenes. This study reports for the first time the occurrence of these enzymes in specific microalgal taxa, confirming the importance for microalgae of these pathways and giving new insights into microalgal physiology and possible biotechnological applications for the production of bioactive compounds.
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Affiliation(s)
- Daniele De Luca
- Department of Humanities, Università degli Studi Suor Orsola Benincasa, CAP80135 Naples, Italy
| | - Chiara Lauritano
- Department of Marine Biotechnology, Stazione Zoologica Anton Dohrn, CAP80121 Naples, Italy
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19
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Chen HH, Xue LL, Liang MH, Jiang JG. Intervention of triethylamine on Dunaliella tertiolecta reveals metabolic insights into triacylglycerol accumulation. ALGAL RES 2020. [DOI: 10.1016/j.algal.2020.101876] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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20
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Nagappan S, Devendran S, Tsai PC, Jayaraman H, Alagarsamy V, Pugazhendhi A, Ponnusamy VK. Metabolomics integrated with transcriptomics and proteomics: Evaluation of systems reaction to nitrogen deficiency stress in microalgae. Process Biochem 2020. [DOI: 10.1016/j.procbio.2019.11.027] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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21
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Ng I, Keskin BB, Tan S. A Critical Review of Genome Editing and Synthetic Biology Applications in Metabolic Engineering of Microalgae and Cyanobacteria. Biotechnol J 2020; 15:e1900228. [DOI: 10.1002/biot.201900228] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2019] [Revised: 02/07/2020] [Indexed: 12/13/2022]
Affiliation(s)
- I‐Son Ng
- Department of Chemical EngineeringNational Cheng Kung University Tainan 701 Taiwan
| | - Batuhan Birol Keskin
- Department of Chemical EngineeringNational Cheng Kung University Tainan 701 Taiwan
| | - Shih‐I Tan
- Department of Chemical EngineeringNational Cheng Kung University Tainan 701 Taiwan
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22
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Zhao Y, Hou Y, Chai W, Liu Z, Wang X, He C, Hu Z, Chen S, Wang W, chen F. Transcriptome analysis of Haematococcus pluvialis of multiple defensive systems against nitrogen starvation. Enzyme Microb Technol 2020; 134:109487. [DOI: 10.1016/j.enzmictec.2019.109487] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Revised: 11/05/2019] [Accepted: 12/05/2019] [Indexed: 10/25/2022]
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23
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Mishra A, Medhi K, Malaviya P, Thakur IS. Omics approaches for microalgal applications: Prospects and challenges. BIORESOURCE TECHNOLOGY 2019; 291:121890. [PMID: 31378447 DOI: 10.1016/j.biortech.2019.121890] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2019] [Revised: 07/23/2019] [Accepted: 07/24/2019] [Indexed: 06/10/2023]
Abstract
In recent impetus of phycological research, microalgae have emerged as a potential candidate for various arena of application-driven research. Omics-based tactics are used for disentangling the regulation and network integration for biosynthesis/degradation of metabolic precursors, intermediates, end products, and identifying the networks that regulate the metabolic flux. Multi-omics coupled with data analytics have facilitated understanding of biological processes and allow ample access to diverse metabolic pathways utilized for genetic manipulations making microalgal factories more efficient. The present review discusses state-of-art "Algomics" and the prospect of microalgae and their role in symbiotic association by using omics approaches including genomics, transcriptomics, proteomics and metabolomics. Microalgal based uni- and multi-omics approaches are critically analyzed in wastewater treatment, metal toxicity and remediation, biofuel production, and therapeutics to provide an imminent outlook for an array of environmentally sustainable and economically viable microalgal applications.
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Affiliation(s)
- Arti Mishra
- School of Environmental Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Kristina Medhi
- School of Environmental Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Piyush Malaviya
- Department of Environmental Science, University of Jammu, Jammu (J&K), India
| | - Indu Shekhar Thakur
- School of Environmental Sciences, Jawaharlal Nehru University, New Delhi, India.
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24
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Teh KY, Afifudeen CLW, Aziz A, Wong LL, Loh SH, Cha TS. De novo whole genome sequencing data of two mangrove-isolated microalgae from Terengganu coastal waters. Data Brief 2019; 27:104680. [PMID: 31720332 PMCID: PMC6838400 DOI: 10.1016/j.dib.2019.104680] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Revised: 09/23/2019] [Accepted: 10/11/2019] [Indexed: 11/25/2022] Open
Abstract
Interest in harvesting potential benefits from microalgae renders it necessary to have the many ecological niches of a single species to be investigated. This dataset comprises de novo whole genome assembly of two mangrove-isolated microalgae (from division Chlorophyta); Chlorella vulgaris UMT-M1 and Messastrum gracile SE-MC4 from Universiti Malaysia Terengganu, Malaysia. Library runs were carried out with 2 × 150 base paired-ends reads, whereas sequencing was conducted using Illumina Novaseq 2500 platform. Sequencing yielded raw reads amounting to ∼11 Gb in total bases for both species and was further assembled de novo. Genome assembly resulted in a 50.15 Mbp and 60.83 Mbp genome size for UMT-M1 and SE-MC4, respectively. All filtered and assembled genomic data sequences have been submitted to National Centre for Biotechnology Information (NCBI) and can be located at DDBJ/ENA/GenBank under the accession of VJNP00000000 (UMT-M1) and VIYE00000000 (SE-MC4).
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Affiliation(s)
- Kit Yinn Teh
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
| | - C L Wan Afifudeen
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
| | - Ahmad Aziz
- Faculty of Science and Marine Environment, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
| | - Li Lian Wong
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Institute of Tropical Aquaculture, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
| | - Saw Hong Loh
- Faculty of Science and Marine Environment, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
| | - Thye San Cha
- Faculty of Science and Marine Environment, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia.,Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030 Terengganu, Malaysia
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25
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Fajardo C, Amil-Ruiz F, Fuentes-Almagro C, De Donato M, Martinez-Rodriguez G, Escobar-Niño A, Carrasco R, Mancera JM, Fernandez-Acero FJ. An “omic” approach to Pyrocystis lunula: New insights related with this bioluminescent dinoflagellate. J Proteomics 2019; 209:103502. [DOI: 10.1016/j.jprot.2019.103502] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Revised: 08/14/2019] [Accepted: 08/19/2019] [Indexed: 01/10/2023]
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26
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Otaki R, Oishi Y, Abe S, Fujiwara S, Sato N. Regulatory carbon metabolism underlying seawater-based promotion of triacylglycerol accumulation in Chlorella kessleri. BIORESOURCE TECHNOLOGY 2019; 289:121686. [PMID: 31238290 DOI: 10.1016/j.biortech.2019.121686] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2019] [Revised: 06/03/2019] [Accepted: 06/18/2019] [Indexed: 06/09/2023]
Abstract
Chlorella kessleri accumulates triacylglycerol usable for biodiesel-fuel production to >20% dry cell weight in three days when cultured in three-fold diluted seawater, which imposes the combinatory stress of hyperosmosis and nutrients limitation. The quantitative behavior of major C-compounds, and related-gene expression patterns were investigated in Chlorella cells stressed with hyperosmosis, nutrients limitation, or their combination, to elucidate the C-metabolism for economical seawater-based triacylglycerol accumulation. Combinatory-stress cells showed repressed protein synthesis with initially accumulated starch being degraded later, the C-metabolic flow thereby being diverted to fatty acid and subsequent triacylglycerol accumulation. This C-flow diversion was induced by cooperative actions of nutrients-limitation and hyperosmosis. Semi-quantitative PCR analysis implied positive rewiring of the diverted C-flow into triacylglycerol in combinatory-stress cells through upregulation of gene expression concerning fatty acid and triacylglycerol synthesis, and starch synthesis and degradation. The information of regulatory C-metabolism will help reinforce the seawater-based triacylglycerol accumulation ability in algae including Chlorella.
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Affiliation(s)
- Rie Otaki
- School of Life Sciences, Tokyo University of Pharmacy and Life Sciences, Hachioji, Tokyo 192-0392, Japan
| | - Yutaro Oishi
- School of Life Sciences, Tokyo University of Pharmacy and Life Sciences, Hachioji, Tokyo 192-0392, Japan
| | - Seiya Abe
- School of Life Sciences, Tokyo University of Pharmacy and Life Sciences, Hachioji, Tokyo 192-0392, Japan
| | - Shoko Fujiwara
- School of Life Sciences, Tokyo University of Pharmacy and Life Sciences, Hachioji, Tokyo 192-0392, Japan
| | - Norihiro Sato
- School of Life Sciences, Tokyo University of Pharmacy and Life Sciences, Hachioji, Tokyo 192-0392, Japan.
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27
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Li CT, Yelsky J, Chen Y, Zuñiga C, Eng R, Jiang L, Shapiro A, Huang KW, Zengler K, Betenbaugh MJ. Utilizing genome-scale models to optimize nutrient supply for sustained algal growth and lipid productivity. NPJ Syst Biol Appl 2019; 5:33. [PMID: 31583115 PMCID: PMC6760154 DOI: 10.1038/s41540-019-0110-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Accepted: 08/21/2019] [Indexed: 11/09/2022] Open
Abstract
Nutrient availability is critical for growth of algae and other microbes used for generating valuable biochemical products. Determining the optimal levels of nutrient supplies to cultures can eliminate feeding of excess nutrients, lowering production costs and reducing nutrient pollution into the environment. With the advent of omics and bioinformatics methods, it is now possible to construct genome-scale models that accurately describe the metabolism of microorganisms. In this study, a genome-scale model of the green alga Chlorella vulgaris (iCZ946) was applied to predict feeding of multiple nutrients, including nitrate and glucose, under both autotrophic and heterotrophic conditions. The objective function was changed from optimizing growth to instead minimizing nitrate and glucose uptake rates, enabling predictions of feed rates for these nutrients. The metabolic model control (MMC) algorithm was validated for autotrophic growth, saving 18% nitrate while sustaining algal growth. Additionally, we obtained similar growth profiles by simultaneously controlling glucose and nitrate supplies under heterotrophic conditions for both high and low levels of glucose and nitrate. Finally, the nitrate supply was controlled in order to retain protein and chlorophyll synthesis, albeit at a lower rate, under nitrogen-limiting conditions. This model-driven cultivation strategy doubled the total volumetric yield of biomass, increased fatty acid methyl ester (FAME) yield by 61%, and enhanced lutein yield nearly 3 fold compared to nitrogen starvation. This study introduces a control methodology that integrates omics data and genome-scale models in order to optimize nutrient supplies based on the metabolic state of algal cells in different nutrient environments. This approach could transform bioprocessing control into a systems biology-based paradigm suitable for a wide range of species in order to limit nutrient inputs, reduce processing costs, and optimize biomanufacturing for the next generation of desirable biotechnology products.
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Affiliation(s)
- Chien-Ting Li
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Jacob Yelsky
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Yiqun Chen
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Cristal Zuñiga
- 2Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0760 USA
- 3Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA
| | - Richard Eng
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Liqun Jiang
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
- 4School of Environmental Science and Engineering, Shandong University, No.27 Shanda Nan Road, Jinan, 250100 China
| | - Alison Shapiro
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Kai-Wen Huang
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
| | - Karsten Zengler
- 2Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0760 USA
- 3Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA
- 5Center for Microbiome Innovation, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0436 USA
| | - Michael J Betenbaugh
- 1Department of Chemical and Biomolecular Engineering, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 USA
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Salama ES, Govindwar SP, Khandare RV, Roh HS, Jeon BH, Li X. Can Omics Approaches Improve Microalgal Biofuels under Abiotic Stress? TRENDS IN PLANT SCIENCE 2019; 24:611-624. [PMID: 31085124 DOI: 10.1016/j.tplants.2019.04.001] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Revised: 03/27/2019] [Accepted: 04/11/2019] [Indexed: 06/09/2023]
Abstract
Microalgae hold the promise of an inexpensive and sustainable source of biofuels. The existing microalgal cultivation technologies need significant improvement to outcompete other biofuel sources such as terrestrial plants. Application of 'algomics' approaches under different abiotic stress conditions could be an effective strategy for optimization of microalgal growth and production of high-quality biofuels. In this review, we discuss the roles of omics in understanding genome structure and biocomponents metabolism in various microalgal species to optimize sustainable biofuel production. Application of individual and integrated omics revealed that genes and metabolic pathways of microalgae have been altered under multiple stress conditions, resulting in an increase in biocomponents, providing a research platform for expansion of genetic engineering studies in microalgal strains.
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Affiliation(s)
- El-Sayed Salama
- MOE, Key Laboratory of Cell Activities and Stress Adaptations, Lanzhou University, Lanzhou, 730000, Gansu Province, PR China; Department of Occupational and Environmental Health, School of Public Health, Lanzhou University, Lanzhou 730000, Gansu Province, PR China
| | - Sanjay P Govindwar
- Department of Earth Resources and Environmental Engineering, Hanyang University, Seoul, 04763, South Korea
| | - Rahul V Khandare
- Amity Institute of Biotechnology, Amity University, Mumbai, 410206, India
| | - Hyun-Seog Roh
- Department of Environmental Engineering, Yonsei University, Wonju, Gangwon-do 220-710, South Korea
| | - Byong-Hun Jeon
- Department of Earth Resources and Environmental Engineering, Hanyang University, Seoul, 04763, South Korea.
| | - Xiangkai Li
- MOE, Key Laboratory of Cell Activities and Stress Adaptations, Lanzhou University, Lanzhou, 730000, Gansu Province, PR China.
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Prioretti L, Carriere F, Field B, Avilan L, Montané MH, Menand B, Gontero B. Targeting TOR signaling for enhanced lipid productivity in algae. Biochimie 2019; 169:12-17. [PMID: 31265860 DOI: 10.1016/j.biochi.2019.06.016] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2019] [Accepted: 06/26/2019] [Indexed: 01/21/2023]
Abstract
Microalgae can produce large quantities of triacylglycerols (TAGs) and other neutral lipids that are suitable for making biofuels and as feedstocks for green chemistry. However, TAGs accumulate under stress conditions that also stop growth, leading to a trade-off between biomass production and TAG yield. Recently, in the model marine diatom Phaeodactylum tricornutum it was shown that inhibition of the target of rapamycin (TOR) kinase boosts lipid productivity by promoting TAG production without stopping growth. We believe that basic knowledge in this emerging field is required to develop innovative strategies to improve neutral lipid accumulation in oleaginous microalgae. In this minireview, we discuss current research on the TOR signaling pathway with a focus on its control on lipid homeostasis. We first provide an overview of the well characterized roles of TOR in mammalian lipogenesis, adipogenesis and lipolysis. We then present evidence of a role for TOR in controlling TAG accumulation in microalgae, and draw parallels between the situation in animals, plants and microalgae to propose a model of TOR signaling for TAG accumulation in microalgae.
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Affiliation(s)
- Laura Prioretti
- Aix Marseille Univ, CNRS, BIP UMR 7281, 31 Chemin Joseph Aiguier, 13402, Marseille, Cedex 09, France
| | - Frédéric Carriere
- Aix Marseille Univ, CNRS, BIP UMR 7281, 31 Chemin Joseph Aiguier, 13402, Marseille, Cedex 09, France
| | - Ben Field
- Aix Marseille Univ, CEA, CNRS, UMR 7265 BIAM, 163 Avenue de Luminy, 13288, Marseille, France
| | - Luisana Avilan
- Aix Marseille Univ, CNRS, BIP UMR 7281, 31 Chemin Joseph Aiguier, 13402, Marseille, Cedex 09, France
| | - Marie-Hélène Montané
- Aix Marseille Univ, CEA, CNRS, UMR 7265 BIAM, 163 Avenue de Luminy, 13288, Marseille, France
| | - Benoît Menand
- Aix Marseille Univ, CEA, CNRS, UMR 7265 BIAM, 163 Avenue de Luminy, 13288, Marseille, France.
| | - Brigitte Gontero
- Aix Marseille Univ, CNRS, BIP UMR 7281, 31 Chemin Joseph Aiguier, 13402, Marseille, Cedex 09, France.
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Zocher K, Lackmann JW, Volzke J, Steil L, Lalk M, Weltmann KD, Wende K, Kolb JF. Profiling microalgal protein extraction by microwave burst heating in comparison to spark plasma exposures. ALGAL RES 2019. [DOI: 10.1016/j.algal.2019.101416] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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31
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Castro JC, Maddox JD, Estela SL, Rodríguez HN, Casuso MZ, Paredes JD, Cobos M. Caracterización <i>in silico</i> y análisis de la expresión de la subunidad alfa de la acetil-coenzima a carboxilasa heteromérica de dos microalgas. ACTA BIOLÓGICA COLOMBIANA 2019. [DOI: 10.15446/abc.v24n2.74727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
Las microalgas son microorganismos fotosintéticos con gran potencial para abastecer las demandas energéticas mundiales. Sin embargo, los limitados conocimientos que se tienen de estos organismos, en particular a nivel molecular de los procesos metabólicos, han limitado su uso con estos propósitos. En esta investigación se ha realizado el análisis in silico de la subunidad alfa de la acetil-Coenzima A carboxilasa heteromérica (αACCasa), una enzima clave en la biosíntesis de lípidos de las microalgas Chlorella sp. y Scenedesmus sp. Asimismo, se ha medido la expresión de este gen en ambas especies cultivadas en medios deficientes de nitrógeno. Los resultados indican que la αACCasa muestra conservación estructural y funcional en ambas especies de microalgas y su mayor similitud genética con otras especies de microalgas. Asimismo, se ha mostrado que el nivel de expresión del gen se incrementa significativamente cuando las microalgas son cultivadas en ausencia de nitrógeno, lo cual se relaciona a su vez con una mayor acumulación de lípidos microalgales. En conclusión, el análisis in silico de la αACCasa de Chlorella sp. y Scenedesmus sp. presentan características estructurales, funcionales y evolutivas muy similares con otras especies de microalgas y plantas. Asimismo, el estudio revela que en ambas especies el gen se sobreexpresa cuando las microalgas son sometidas a estrés por deficiencia de nitrógeno, el cual se relaciona significativamente con la acumulación de lípidos totales en estas células.
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Perera IA, Abinandan S, Subashchandrabose SR, Venkateswarlu K, Naidu R, Megharaj M. Advances in the technologies for studying consortia of bacteria and cyanobacteria/microalgae in wastewaters. Crit Rev Biotechnol 2019; 39:709-731. [PMID: 30971144 DOI: 10.1080/07388551.2019.1597828] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The excessive generation and discharge of wastewaters have been serious concerns worldwide in the recent past. From an environmental friendly perspective, bacteria, cyanobacteria and microalgae, and the consortia have been largely considered for biological treatment of wastewaters. For efficient use of bacteria‒cyanobacteria/microalgae consortia in wastewater treatment, detailed knowledge on their structure, behavior and interaction is essential. In this direction, specific analytical tools and techniques play a significant role in studying these consortia. This review presents a critical perspective on physical, biochemical and molecular techniques such as microscopy, flow cytometry with cell sorting, nanoSIMS and omics approaches used for systematic investigations of the structure and function, particularly nutrient removal potential of bacteria‒cyanobacteria/microalgae consortia. In particular, the use of specific molecular techniques of genomics, transcriptomics, proteomics metabolomics and genetic engineering to develop more stable consortia of bacteria and cyanobacteria/microalgae with their improved biotechnological capabilities in wastewater treatment has been highlighted.
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Affiliation(s)
- Isiri Adhiwarie Perera
- a Global Centre for Environmental Remediation (GCER), Faculty of Science , The University of Newcastle , Callaghan , New South Wales , Australia
| | - Sudharsanam Abinandan
- a Global Centre for Environmental Remediation (GCER), Faculty of Science , The University of Newcastle , Callaghan , New South Wales , Australia
| | - Suresh R Subashchandrabose
- a Global Centre for Environmental Remediation (GCER), Faculty of Science , The University of Newcastle , Callaghan , New South Wales , Australia.,b Cooperative Research Centre for Contamination Assessment and Remediation of Environment (CRC CARE) , The University of Newcastle , Callaghan , New South Wales , Australia
| | - Kadiyala Venkateswarlu
- c Formerly Department of Microbiology , Sri Krishnadevaraya University , Anantapuramu , Andhra Pradesh , India
| | - Ravi Naidu
- a Global Centre for Environmental Remediation (GCER), Faculty of Science , The University of Newcastle , Callaghan , New South Wales , Australia.,b Cooperative Research Centre for Contamination Assessment and Remediation of Environment (CRC CARE) , The University of Newcastle , Callaghan , New South Wales , Australia
| | - Mallavarapu Megharaj
- a Global Centre for Environmental Remediation (GCER), Faculty of Science , The University of Newcastle , Callaghan , New South Wales , Australia.,b Cooperative Research Centre for Contamination Assessment and Remediation of Environment (CRC CARE) , The University of Newcastle , Callaghan , New South Wales , Australia
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Zeng R, Farooq MU, Wang L, Su Y, Zheng T, Ye X, Jia X, Zhu J. Study on Differential Protein Expression in Natural Selenium-Enriched and Non-Selenium-Enriched Rice Based on iTRAQ Quantitative Proteomics. Biomolecules 2019; 9:biom9040130. [PMID: 30935009 PMCID: PMC6523350 DOI: 10.3390/biom9040130] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2019] [Revised: 03/18/2019] [Accepted: 03/25/2019] [Indexed: 12/14/2022] Open
Abstract
This work was designated to scrutinize the protein differential expression in natural selenium-enriched and non-selenium-enriched rice using the Isobaric-tags for relative and absolute quantification (iTRAQ) proteomics approach. The extracted proteins were subjected to enzyme digestion, desalting, and identified by iTRAQ coupled with liquid chromatography-tandem mass spectrometry (LC-MS/MS) technology. High pH C18 separation analysis was performed, and the data were then analyzed by Protein PilotTM (V4.5) search engine. Protein differential expression was searched out by comparing relatively quantified proteins. The analysis was conducted using gene ontology (GO), cluster of orthologous groups of proteins (COG) and Kyoto encyclopedia of genes and genomes (KEGG) metabolic pathways. A total of 3235 proteins were detected and 3161 proteins were quantified, of which 401 were differential proteins. 208 down-regulated and 193 up-regulated proteins were unveiled. 77 targeted significant differentially expressed proteins were screened out for further analysis, and were classified into 10 categories: oxidoreductases, transferases, isomerases, heat shock proteins, lyases, hydrolases, ligases, synthetases, tubulin, and actin. The results indicated that the anti-stress, anti-oxidation, active oxygen metabolism, carbohydrate and amino acid metabolism of natural selenium-enriched rice was higher than that of non-selenium rice. The activation of the starch synthesis pathway was found to be bounteous in non-selenium-enriched rice. Cysteine synthase (CYS) and methyltransferase (metE) might be the two key proteins that cause amino acid differences. OsAPx02, CatC, riPHGPX, HSP70 and HSP90 might be the key enzymes regulating antioxidant and anti-stress effect differences in two types of rice. This study provides basic information about deviations in protein mechanism and secondary metabolites in selenium-enriched and non-selenium-enriched rice.
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Affiliation(s)
- Rui Zeng
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
- Dujiangyan Agricultural and Rural Bureau, Dujiangyan 611830, Sichuan, China.
| | - Muhammad Umer Farooq
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
| | - Li Wang
- Meishan Vocational & Technical College, Meishan 62000, Sichuan, China.
| | - Yang Su
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
| | - Tengda Zheng
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
| | - Xiaoying Ye
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
| | - Xiaomei Jia
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
| | - Jianqing Zhu
- Demonstration Base for International Science & Technology Cooperation of Sichuan Province, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
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Rincon SM, Urrego NF, Avila KJ, Romero HM, Beyenal H. Photosynthetic activity assessment in mixotrophically cultured Chlorella vulgaris biofilms at various developmental stages. ALGAL RES 2019. [DOI: 10.1016/j.algal.2019.101408] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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α2-HS Glycoprotein in Plasma Extracellular Vesicles Inhibits the Osteogenic Differentiation of Human Mesenchymal Stromal Cells In Vitro. Stem Cells Int 2019; 2019:7246479. [PMID: 30881463 PMCID: PMC6383392 DOI: 10.1155/2019/7246479] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2018] [Revised: 08/16/2018] [Accepted: 10/28/2018] [Indexed: 11/18/2022] Open
Abstract
Extracellular vesicles (Evs) contain diverse functional proteins, mRNAs, miRNAs, and DNA fragments, are secreted by various types of cells, and play important roles in cellular communication. Here, we show for the first time that plasma Evs inhibited the osteogenic differentiation of mesenchymal stromal cells (MSCs) in vitro and the level of inhibition was positively correlated with the plasma Evs concentration. Plasma Evs downregulated the expression of markers such as osteocalcin (OCN), Runt-related transcription factor 2 (Runx2), and Osterix at mRNA levels required for osteogenic differentiation and reduced pSmad1/5/8 levels in MSCs. Furthermore, pSmad1/5/8 levels increased and MSCs underwent normal osteogenic differentiation after Evs-derived α2-HS glycoprotein (AHSG) function was inhibited with an anti-AHSG neutralizing antibody. However, the levels of pERK1/2, active β-catenin, and HES1 were not significantly altered. Therefore, we propose that as essential components of the extracellular microenvironment of MSCs, plasma Evs are taken up by MSCs and subsequently repress osteogenic differentiation through an AHSG-mediated decrease in pSmad1/5/8 levels. Our work identifies plasma Evs as novel regulators of MSC osteogenic differentiation.
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Chen H, Li T, Wang Q. Ten years of algal biofuel and bioproducts: gains and pains. PLANTA 2019; 249:195-219. [PMID: 30603791 DOI: 10.1007/s00425-018-3066-8] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Accepted: 12/10/2018] [Indexed: 05/09/2023]
Abstract
It has been proposed that future efforts should focus on basic studies, biotechnology studies and synthetic biology studies related to algal biofuels and various high-value bioproducts for the economically viable production of algal biof uels. In recognition of diminishing fossil fuel reserves and the worsening environment, microalgal biofuel has been proposed as a renewable energy source with great potential. Algal biofuel thus became one of the hottest topics in renewable energy research in the new century, especially over the past decade. Between 2007 and 2017, research related to microalgal biofuels experienced a dramatic, three-stage development, rising, growing exponentially, and then declining rapidly due to overheating of the subject. However, biofuel-driven algal biotechnology and bioproducts research has been thriving since 2010. To clarify the gains (and pains) of the past decade and detail prospects for the future, this review summarizes the extensive scientific progress and substantial technical advances in algal biofuel over the past decade, covering basic biology, applied research, as well as the production of value-added natural products. Even after 10 years of hard work and billions of dollars in investments, its unacceptably high cost remains the ultimate bottleneck for the industrialization of algal biofuel. To maximize the total research benefits, both economically and socially, it has been proposed that future efforts should focus on basic studies to characterize oilgae, on biotechnology studies into various high-value bioproducts. Moreover, the development of synthetic biology provides new possibilities for the economically viable production of biofuels via the directional manufacture of microalgal bioproducts in algal cell factories.
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Affiliation(s)
- Hui Chen
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, 7 South Donghu Rd., Wuhan, 430072, Hubei Province, China
- Donghu Experimental Station of Lake Ecosystems, State Key Laboratory of Freshwater Ecology and Biotechnology of China, Institute of Hydrobiology, The Chinese Academy of Sciences, Wuhan, Hubei, 430072, China
| | - Tianpei Li
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, 7 South Donghu Rd., Wuhan, 430072, Hubei Province, China
- University of the Chinese Academy of Sciences, Beijing, 100039, China
| | - Qiang Wang
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, 7 South Donghu Rd., Wuhan, 430072, Hubei Province, China.
- University of the Chinese Academy of Sciences, Beijing, 100039, China.
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Dall’Osto L, Cazzaniga S, Guardini Z, Barera S, Benedetti M, Mannino G, Maffei ME, Bassi R. Combined resistance to oxidative stress and reduced antenna size enhance light-to-biomass conversion efficiency in Chlorella vulgaris cultures. BIOTECHNOLOGY FOR BIOFUELS 2019; 12:221. [PMID: 31534480 PMCID: PMC6745798 DOI: 10.1186/s13068-019-1566-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2019] [Accepted: 09/07/2019] [Indexed: 05/20/2023]
Abstract
BACKGROUND Microalgae are efficient producers of lipid-rich biomass, making them a key component in developing a sustainable energy source, and an alternative to fossil fuels. Chlorella species are of special interest because of their fast growth rate in photobioreactors. However, biological constraints still cast a significant gap between the high cost of biofuel and cheap oil, thus hampering perspective of producing CO2-neutral biofuels. A key issue is the inefficient use of light caused by its uneven distribution in the culture that generates photoinhibition of the surface-exposed cells and darkening of the inner layers. Efficient biofuel production, thus, requires domestication, including traits which reduce optical density of cultures and enhance photoprotection. RESULTS We applied two steps of mutagenesis and phenotypic selection to the microalga Chlorella vulgaris. First, a pale-green mutant (PG-14) was selected, with a 50% reduction of both chlorophyll content per cell and LHCII complement per PSII, with respect to WT. PG-14 showed a 30% increased photon conversion into biomass efficiency vs. WT. A second step of mutagenesis of PG-14, followed by selection for higher tolerance to Rose Bengal, led to the isolation of pale-green genotypes, exhibiting higher resistance to singlet oxygen (strains SOR). Growth in photobioreactors under high light conditions showed an enhanced biomass production of SOR strains with respect to PG-14. When compared to WT strain, biomass yield of the pale green + sor genotype was enhanced by 68%. CONCLUSIONS Domestication of microalgae like Chlorella vulgaris, by optimizing both light distribution and ROS resistance, yielded an enhanced carbon assimilation rate in photobioreactor.
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Affiliation(s)
- Luca Dall’Osto
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Stefano Cazzaniga
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Zeno Guardini
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Simone Barera
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Manuel Benedetti
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Giuseppe Mannino
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Unità di Fisiologia Vegetale, Università di Torino, Via Quarello 15/a, 10135 Turin, Italy
| | - Massimo E. Maffei
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Unità di Fisiologia Vegetale, Università di Torino, Via Quarello 15/a, 10135 Turin, Italy
| | - Roberto Bassi
- Dipartimento di Biotecnologie, Università di Verona, Strada Le Grazie 15, 37134 Verona, Italy
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Shaikh KM, Nesamma AA, Abdin MZ, Jutur PP. Molecular profiling of an oleaginous trebouxiophycean alga Parachlorella kessleri subjected to nutrient deprivation for enhanced biofuel production. BIOTECHNOLOGY FOR BIOFUELS 2019; 12:182. [PMID: 31338124 PMCID: PMC6628475 DOI: 10.1186/s13068-019-1521-9] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Accepted: 07/05/2019] [Indexed: 05/05/2023]
Abstract
BACKGROUND Decreasing fossil fuels and its impact on global warming have led to an increasing demand for its replacement by sustainable renewable biofuels. Microalgae may offer a potential feedstock for renewable biofuels capable of converting atmospheric CO2 to substantial biomass and valuable biofuels, which is of great importance for the food and energy industries. Parachlorella kessleri, a marine unicellular green alga belonging to class Trebouxiophyceae, accumulates large amount of lipids under nutrient-deprived conditions. The present study aims to understand the metabolic imprints in order to elucidate the physiological mechanisms of lipid accumulations in this microalga under nutrient deprivation. RESULTS Molecular profiles were obtained using gas chromatography-mass spectrometry (GC-MS) of P. kessleri subjected to nutrient deprivation. Relative quantities of more than 60 metabolites were systematically compared in all the three starvation conditions. Our results demonstrate that in lipid metabolism, the quantities of neutral lipids increased significantly followed by the decrease in other metabolites involved in photosynthesis, and nitrogen assimilation. Nitrogen starvation seems to trigger the triacylglycerol (TAG) accumulation rapidly, while the microalga seems to tolerate phosphorous limitation, hence increasing both biomass and lipid content. The metabolomic and lipidomic profiles have identified a few common metabolites such as citric acid and 2-ketoglutaric acid which play significant role in diverting flux towards acetyl-CoA leading to accumulation of neutral lipids, whereas other molecules such as trehalose involve in cell growth regulation, when subjected to nutrient deprivation. CONCLUSIONS Understanding the entire system through qualitative (untargeted) metabolome approach in P. kessleri has led to identification of relevant metabolites involved in the biosynthesis and degradation of precursor molecules that may have potential for biofuel production, aiming towards the vision of tomorrow's bioenergy needs.
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Affiliation(s)
- Kashif Mohd Shaikh
- Omics of Algae Group, Integrative Biology, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
- Department of Biotechnology, School of Chemical and Life Sciences, Jamia Hamdard University, New Delhi, 110062 India
| | - Asha Arumugam Nesamma
- Omics of Algae Group, Integrative Biology, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Malik Zainul Abdin
- Department of Biotechnology, School of Chemical and Life Sciences, Jamia Hamdard University, New Delhi, 110062 India
| | - Pannaga Pavan Jutur
- Omics of Algae Group, Integrative Biology, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
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Elucidating the unique physiological responses of halotolerant Scenedesmus sp. cultivated in sea water for biofuel production. ALGAL RES 2019. [DOI: 10.1016/j.algal.2018.12.003] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
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40
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Remmers IM, D'Adamo S, Martens DE, de Vos RC, Mumm R, America AH, Cordewener JH, Bakker LV, Peters SA, Wijffels RH, Lamers PP. Orchestration of transcriptome, proteome and metabolome in the diatom Phaeodactylum tricornutum during nitrogen limitation. ALGAL RES 2018. [DOI: 10.1016/j.algal.2018.08.012] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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41
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Ye W, Zhang W, Liu T, Zhu M, Li S, Li H, Huang Z, Gao X. iTRAQ-Based Quantitative Proteomic Analysis of Chemically Induced Aquilaria sinensis Provides Insights into Agarwood Formation Mechanism. Proteomics 2018; 18:e1800023. [PMID: 30035352 DOI: 10.1002/pmic.201800023] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Revised: 06/13/2018] [Indexed: 12/12/2022]
Abstract
Agarwood is a precious traditional Chinese medicine with a variety of pharmacological effects. Although efforts have been made in elucidating the mechanism of agarwood formation, little progress is obtained till now. Therefore, the molecular mechanism of agarwood formation needs to be further explored using different biological approaches. In this study, the quantitative proteomic analysis using iTRAQ technology combined with transcriptomic and metabolomic analyses on chemically induced Aquilaria sinensis is performed to elucidate the agarwood formation mechanism by formic acid stimulus. Data are available via ProteomeXchange with identifier PXD007586; 1884 proteins are detected, 504 differential proteins that show at least twofold differences in their expression levels are selected based on GO annotations, KEGG, STRING analysis, and quantitative RT-PCR analysis. The results indicate that sesquiterpene synthase, germin-like protein, pathogenesis-related protein, 6-phosphogluconate dehydrogenase, lipoyl synthase, and superoxide dismutase play important roles in the agarwood formation, suggesting that the proteins related to the plant defensive response, the removal of peroxide, the disease-resistance, the biosythesis of glycan, fatty acids, and sesquiterpene are crucial for agarwood formation.
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Affiliation(s)
- Wei Ye
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Weimin Zhang
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Taomei Liu
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Muzhi Zhu
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Saini Li
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Haohua Li
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Zilei Huang
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, China
| | - Xiaoxia Gao
- Guangdong Pharmaceutical University, Guangzhou, 510006, China
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42
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Molecular insight into the metabolic activities of a protein-rich micro alga, Arthrospira platensis by de novo transcriptome analysis. Mol Biol Rep 2018; 45:829-838. [PMID: 29978380 DOI: 10.1007/s11033-018-4229-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Accepted: 06/28/2018] [Indexed: 11/27/2022]
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43
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Xing G, Yuan H, Yang J, Li J, Gao Q, Li W, Wang E. Integrated analyses of transcriptome, proteome and fatty acid profilings of the oleaginous microalga Auxenochlorella protothecoides UTEX 2341 reveal differential reprogramming of fatty acid metabolism in response to low and high temperatures. ALGAL RES 2018. [DOI: 10.1016/j.algal.2018.04.028] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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44
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Arora N, Pienkos PT, Pruthi V, Poluri KM, Guarnieri MT. Leveraging algal omics to reveal potential targets for augmenting TAG accumulation. Biotechnol Adv 2018; 36:1274-1292. [PMID: 29678388 DOI: 10.1016/j.biotechadv.2018.04.005] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2017] [Revised: 04/11/2018] [Accepted: 04/15/2018] [Indexed: 02/08/2023]
Abstract
Ongoing global efforts to commercialize microalgal biofuels have expedited the use of multi-omics techniques to gain insights into lipid biosynthetic pathways. Functional genomics analyses have recently been employed to complement existing sequence-level omics studies, shedding light on the dynamics of lipid synthesis and its interplay with other cellular metabolic pathways, thus revealing possible targets for metabolic engineering. Here, we review the current status of algal omics studies to reveal potential targets to augment TAG accumulation in various microalgae. This review specifically aims to examine and catalog systems level data related to stress-induced TAG accumulation in oleaginous microalgae and inform future metabolic engineering strategies to develop strains with enhanced bioproductivity, which could pave a path for sustainable green energy.
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Affiliation(s)
- Neha Arora
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Philip T Pienkos
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO 80401, USA
| | - Vikas Pruthi
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Krishna Mohan Poluri
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Michael T Guarnieri
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO 80401, USA.
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45
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Guarnieri MT, Levering J, Henard CA, Boore JL, Betenbaugh MJ, Zengler K, Knoshaug EP. Genome Sequence of the Oleaginous Green Alga, Chlorella vulgaris UTEX 395. Front Bioeng Biotechnol 2018; 6:37. [PMID: 29675409 PMCID: PMC5895722 DOI: 10.3389/fbioe.2018.00037] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2017] [Accepted: 03/19/2018] [Indexed: 11/13/2022] Open
Affiliation(s)
- Michael T Guarnieri
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
| | - Jennifer Levering
- Division of Host-Microbe Systems and Therapeutics, Department of Pediatrics, University of California, San Diego, La Jolla, CA, United States
| | - Calvin A Henard
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
| | | | - Michael J Betenbaugh
- Department of Chemical and Biomolecular Engineering, Johns Hopkins University, Baltimore, MD, United States
| | - Karsten Zengler
- Division of Host-Microbe Systems and Therapeutics, Department of Pediatrics, University of California, San Diego, La Jolla, CA, United States
| | - Eric P Knoshaug
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
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46
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Guarnieri MT, Gerritsen AT, Henard CA, Knoshaug EP. Phosphoproteome of the Oleaginous Green Alga, Chlorella vulgaris UTEX 395, under Nitrogen-Replete and -Deplete Conditions. Front Bioeng Biotechnol 2018; 6:19. [PMID: 29560349 PMCID: PMC5845665 DOI: 10.3389/fbioe.2018.00019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2017] [Accepted: 02/12/2018] [Indexed: 11/30/2022] Open
Affiliation(s)
- Michael T Guarnieri
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
| | - Alida T Gerritsen
- Computational Science Center, National Renewable Energy Laboratory, Golden, CO, United States
| | - Calvin A Henard
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
| | - Eric P Knoshaug
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO, United States
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47
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Sekoai PT, Daramola MO. Effect of metal ions on dark fermentative biohydrogen production using suspended and immobilized cells of mixed bacteria. CHEM ENG COMMUN 2018. [DOI: 10.1080/00986445.2018.1428958] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Patrick T. Sekoai
- Sustainable Energy and Environment Research Unit, Faculty of Engineering and the Built Environment, School of Chemical and Metallurgical Engineering, University of the Witwatersrand, Johannesburg, South Africa
| | - Michael O. Daramola
- Sustainable Energy and Environment Research Unit, Faculty of Engineering and the Built Environment, School of Chemical and Metallurgical Engineering, University of the Witwatersrand, Johannesburg, South Africa
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48
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Vuppaladadiyam AK, Yao JG, Florin N, George A, Wang X, Labeeuw L, Jiang Y, Davis RW, Abbas A, Ralph P, Fennell PS, Zhao M. Impact of Flue Gas Compounds on Microalgae and Mechanisms for Carbon Assimilation and Utilization. CHEMSUSCHEM 2018; 11:334-355. [PMID: 29165921 DOI: 10.1002/cssc.201701611] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Revised: 10/23/2017] [Indexed: 06/07/2023]
Abstract
To shift the world to a more sustainable future, it is necessary to phase out the use of fossil fuels and focus on the development of low-carbon alternatives. However, this transition has been slow, so there is still a large dependence on fossil-derived power, and therefore, carbon dioxide is released continuously. Owing to the potential for assimilating and utilizing carbon dioxide to generate carbon-neutral products, such as biodiesel, the application of microalgae technology to capture CO2 from flue gases has gained significant attention over the past decade. Microalgae offer a more sustainable source of biomass, which can be converted into energy, over conventional fuel crops because they grow more quickly and do not adversely affect the food supply. This review focuses on the technical feasibility of combined carbon fixation and microalgae cultivation for carbon reuse. A range of different carbon metabolisms and the impact of flue gas compounds on microalgae are appraised. Fixation of flue gas carbon dioxide is dependent on the selected microalgae strain and on flue gas compounds/concentrations. Additionally, current pilot-scale demonstrations of microalgae technology for carbon dioxide capture are assessed and its future prospects are discussed. Practical implementation of this technology at an industrial scale still requires significant research, which necessitates multidisciplinary research and development to demonstrate its viability for carbon dioxide capture from flue gases at the commercial level.
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Affiliation(s)
| | - Joseph G Yao
- Department of Chemical Engineering, Imperial College London, London, SW7 2AZ, UK
| | - Nicholas Florin
- Institute for Sustainable Futures, University of Technology Sydney, Sydney, 2007, NSW, Australia
| | - Anthe George
- Sandia National Laboratories, Livermore, CA, 94551, USA
| | - Xiaoxiong Wang
- School of Environment, Tsinghua University, Beijing, 100084, PR China
| | - Leen Labeeuw
- Climate Change Cluster, University of Technology Sydney, Sydney, 2007, NSW, Australia
| | - Yuelu Jiang
- Institute of Ocean Science and Technology, Graduate School at Shenzhen, Tsinghua University, Shenzhen, PR China
| | - Ryan W Davis
- Sandia National Laboratories, Livermore, CA, 94551, USA
| | - Ali Abbas
- School of Chemical & Biomolecular Engineering, The University of Sydney, Sydney, NSW, 2006, Australia
| | - Peter Ralph
- Climate Change Cluster, University of Technology Sydney, Sydney, 2007, NSW, Australia
| | - Paul S Fennell
- Department of Chemical Engineering, Imperial College London, London, SW7 2AZ, UK
- Current address: Joint Bioenergy Institute, 5885 Hollis St, Emeryville, CA, 94608, USA
| | - Ming Zhao
- School of Environment, Tsinghua University, Beijing, 100084, PR China
- Key Laboratory for Solid Waste Management and Environmental Safety, Ministry of Education, Beijing, 100084, PR China
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49
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Zuñiga C, Levering J, Antoniewicz MR, Guarnieri MT, Betenbaugh MJ, Zengler K. Predicting Dynamic Metabolic Demands in the Photosynthetic Eukaryote Chlorella vulgaris. PLANT PHYSIOLOGY 2018; 176:450-462. [PMID: 28951490 PMCID: PMC5761767 DOI: 10.1104/pp.17.00605] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 09/21/2017] [Indexed: 06/02/2023]
Abstract
Phototrophic organisms exhibit a highly dynamic proteome, adapting their biomass composition in response to diurnal light/dark cycles and nutrient availability. Here, we used experimentally determined biomass compositions over the course of growth to determine and constrain the biomass objective function (BOF) in a genome-scale metabolic model of Chlorella vulgaris UTEX 395 over time. Changes in the BOF, which encompasses all metabolites necessary to produce biomass, influence the state of the metabolic network thus directly affecting predictions. Simulations using dynamic BOFs predicted distinct proteome demands during heterotrophic or photoautotrophic growth. Model-driven analysis of extracellular nitrogen concentrations and predicted nitrogen uptake rates revealed an intracellular nitrogen pool, which contains 38% of the total nitrogen provided in the medium for photoautotrophic and 13% for heterotrophic growth. Agreement between flux and gene expression trends was determined by statistical comparison. Accordance between predicted flux trends and gene expression trends was found for 65% of multisubunit enzymes and 75% of allosteric reactions. Reactions with the highest agreement between simulations and experimental data were associated with energy metabolism, terpenoid biosynthesis, fatty acids, nucleotides, and amino acid metabolism. Furthermore, predicted flux distributions at each time point were compared with gene expression data to gain new insights into intracellular compartmentalization, specifically for transporters. A total of 103 genes related to internal transport reactions were identified and added to the updated model of C. vulgaris, iCZ946, thus increasing our knowledgebase by 10% for this model green alga.
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Affiliation(s)
- Cristal Zuñiga
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0760
| | - Jennifer Levering
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0760
| | - Maciek R Antoniewicz
- Department of Chemical and Biomolecular Engineering, Metabolic Engineering and Systems Biology Laboratory, University of Delaware, 150 Academy Street, Newark, Delaware 19716
| | - Michael T Guarnieri
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, Colorado 80401
| | - Michael J Betenbaugh
- Department of Chemical and Biomolecular Engineering, Johns Hopkins University, Baltimore, Maryland 21218
| | - Karsten Zengler
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0760
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50
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Lim DKY, Schuhmann H, Thomas-Hall SR, Chan KCK, Wass TJ, Aguilera F, Adarme-Vega TC, Dal'Molin CGO, Thorpe GJ, Batley J, Edwards D, Schenk PM. RNA-Seq and metabolic flux analysis of Tetraselmis sp. M8 during nitrogen starvation reveals a two-stage lipid accumulation mechanism. BIORESOURCE TECHNOLOGY 2017; 244:1281-1293. [PMID: 28625352 DOI: 10.1016/j.biortech.2017.06.003] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2017] [Revised: 05/31/2017] [Accepted: 06/01/2017] [Indexed: 05/18/2023]
Abstract
To map out key lipid-related pathways that lead to rapid triacylglyceride accumulation in oleaginous microalgae, RNA-Seq was performed with Tetraselmis sp. M8 at 24h after exhaustion of exogenous nitrogen to reveal molecular changes during early stationary phase. Further gene expression profiling by quantitative real-time PCR at 16-72h revealed a distinct shift in expression of the fatty acid/triacylglyceride biosynthesis and β-oxidation pathways, when cells transitioned from log-phase into early-stationary and stationary phase. Metabolic reconstruction modeling combined with real-time PCR and RNA-Seq gene expression data indicates that the increased lipid accumulation is a result of a decrease in lipid catabolism during the early-stationary phase combined with increased metabolic fluxes in lipid biosynthesis during the stationary phase. During these two stages, Tetraselmis shifts from reduced lipid consumption to active lipid production. This process appears to be independent from DGAT expression, a key gene for lipid accumulation in microalgae.
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Affiliation(s)
- David K Y Lim
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Holger Schuhmann
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Skye R Thomas-Hall
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Kenneth C K Chan
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia; School of Plant Biology, The University of Western Australia, Perth 6009, Australia
| | - Taylor J Wass
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Felipe Aguilera
- School of Biological Sciences, The University of Queensland, Brisbane 4072, Australia
| | - T Catalina Adarme-Vega
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Cristiana G O Dal'Molin
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane 4072, Australia
| | - Glen J Thorpe
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane 4072, Australia
| | - Jacqueline Batley
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia; School of Plant Biology, The University of Western Australia, Perth 6009, Australia
| | - David Edwards
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia; School of Plant Biology, The University of Western Australia, Perth 6009, Australia
| | - Peer M Schenk
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane 4072, Australia.
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