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Kallam K, Moreno-Giménez E, Mateos-Fernández R, Tansley C, Gianoglio S, Orzaez D, Patron N. Tunable control of insect pheromone biosynthesis in Nicotiana benthamiana. PLANT BIOTECHNOLOGY JOURNAL 2023. [PMID: 37032497 DOI: 10.1111/pbi.14048] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 03/14/2023] [Accepted: 03/22/2023] [Indexed: 06/19/2023]
Abstract
Previous work has demonstrated that plants can be used as production platforms for molecules used in health, medicine, and agriculture. Production has been exemplified in both stable transgenic plants and using transient expression strategies. In particular, species of Nicotiana have been engineered to produce a range of useful molecules, including insect sex pheromones, which are valued for species-specific control of agricultural pests. To date, most studies have relied on strong constitutive expression of all pathway genes. However, work in microbes has demonstrated that yields can be improved by controlling and balancing gene expression. Synthetic regulatory elements that provide control over the timing and levels of gene expression are therefore useful for maximizing yields from heterologous biosynthetic pathways. In this study, we demonstrate the use of pathway engineering and synthetic genetic elements for controlling the timing and levels of production of Lepidopteran sex pheromones in Nicotiana benthamiana. We demonstrate that copper can be used as a low-cost molecule for tightly regulated inducible expression. Further, we show how construct architecture influences relative gene expression and, consequently, product yields in multigene constructs. We compare a number of synthetic orthogonal regulatory elements and demonstrate maximal yields from constructs in which expression is mediated by dCas9-based synthetic transcriptional activators. The approaches demonstrated here provide new insights into the heterologous reconstruction of metabolic pathways in plants.
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Affiliation(s)
- Kalyani Kallam
- Engineering Biology, Earlham Institute, Norwich Research Park, Norwich, Norfolk, UK
| | - Elena Moreno-Giménez
- Institute for Plant Molecular and Cell Biology (IBMCP), UPV-CSIC, Valencia, Spain
| | | | - Connor Tansley
- Engineering Biology, Earlham Institute, Norwich Research Park, Norwich, Norfolk, UK
| | - Silvia Gianoglio
- Institute for Plant Molecular and Cell Biology (IBMCP), UPV-CSIC, Valencia, Spain
| | - Diego Orzaez
- Institute for Plant Molecular and Cell Biology (IBMCP), UPV-CSIC, Valencia, Spain
| | - Nicola Patron
- Engineering Biology, Earlham Institute, Norwich Research Park, Norwich, Norfolk, UK
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2
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Toledo E, Félix C, Vicente TFL, Augusto A, Félix R, Toledo B, Silva J, Trindade C, Raimundo D, Lemos MFL. Seaweed Extracts to Control Postharvest Phytopathogenic Fungi in Rocha Pear. J Fungi (Basel) 2023; 9:jof9020269. [PMID: 36836383 PMCID: PMC9967800 DOI: 10.3390/jof9020269] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Revised: 02/13/2023] [Accepted: 02/14/2023] [Indexed: 02/22/2023] Open
Abstract
Fungal infections cause losses amounting to between 20 and 25% of the fruit industry's total outcome, with an escalating impact on agriculture in the last decades. As seaweeds have long demonstrated relevant antimicrobial properties against a wide variety of microorganisms, extracts from Asparagopsis armata, Codium sp., Fucus vesiculosus, and Sargassum muticum were used to find sustainable, ecofriendly, and safe solutions against Rocha pear postharvest fungal infections. Alternaria alternata, Botrytis cinerea, Fusarium oxysporum, and Penicillium expansum mycelial growth and spore germination inhibition activities were tested in vitro with five different extracts of each seaweed (n-hexane, ethyl acetate, aqueous, ethanolic, and hydroethanolic). An in vivo assay was then performed using the aqueous extracts against B. cinerea and F. oxysporum in Rocha pear. The n-hexane, ethyl acetate, and ethanolic extracts from A. armata showed the best in vitro inhibitory activity against B. cinerea, F. oxysporum, and P. expansum, and promising in vivo results against B. cinerea using S. muticum aqueous extract were also found. The present work highlights the contribution of seaweeds to tackle agricultural problems, namely postharvest phytopathogenic fungal diseases, contributing to a greener and more sustainable bioeconomy from the sea to the farm.
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Affiliation(s)
- Eloísa Toledo
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
| | - Carina Félix
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
| | - Tânia F. L. Vicente
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Faculdade de Farmácia, Universidade do Porto, 4050-313 Porto, Portugal
| | - Ana Augusto
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
| | - Rafael Félix
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Faculdade de Farmácia, Universidade do Porto, 4050-313 Porto, Portugal
| | - Bernardo Toledo
- Departamento de Ecología Integrativa, Estación Biológica de Doñana (EBD), Consejo Superior de Investigaciones Científicas (CSIC), 41092 Sevilla, Spain
| | - Joana Silva
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
| | | | | | - Marco F. L. Lemos
- MARE-Marine and Environmental Sciences Centre & ARNET—Aquatic Research Network Associated Laboratory, ESTM, Polytechnic of Leiria, 2520-641 Peniche, Portugal
- Correspondence:
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3
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García I, Chouaia B, Llabrés M, Simeoni M. Exploring the expressiveness of abstract metabolic networks. PLoS One 2023; 18:e0281047. [PMID: 36758030 PMCID: PMC9910719 DOI: 10.1371/journal.pone.0281047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Accepted: 01/16/2023] [Indexed: 02/10/2023] Open
Abstract
Metabolism is characterised by chemical reactions linked to each other, creating a complex network structure. The whole metabolic network is divided into pathways of chemical reactions, such that every pathway is a metabolic function. A simplified representation of metabolism, which we call an abstract metabolic network, is a graph in which metabolic pathways are nodes and there is an edge between two nodes if their corresponding pathways share one or more compounds. The abstract metabolic network of a given organism results in a small network that requires low computational power to be analysed and makes it a suitable model to perform a large-scale comparison of organisms' metabolism. To explore the potentials and limits of such a basic representation, we considered a comprehensive set of KEGG organisms, represented through their abstract metabolic network. We performed pairwise comparisons using graph kernel methods and analyse the results through exploratory data analysis and machine learning techniques. The results show that abstract metabolic networks discriminate macro evolutionary events, indicating that they are expressive enough to capture key steps in metabolism evolution.
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Affiliation(s)
- Irene García
- Mathematics and Computer Science Department, University of the Balearic Islands, Palma, Spain
| | - Bessem Chouaia
- Dipartimento di Scienze Ambientali, Informatica e Statistica, Università Ca’ Foscari Venezia, Venice, Italy
| | - Mercè Llabrés
- Mathematics and Computer Science Department, University of the Balearic Islands, Palma, Spain
| | - Marta Simeoni
- Dipartimento di Scienze Ambientali, Informatica e Statistica, Università Ca’ Foscari Venezia, Venice, Italy
- European Centre for Living Technology (ECLT), Venice, Italy
- * E-mail:
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4
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Mock T. Algal model species for advancing biological sciences. JOURNAL OF PHYCOLOGY 2023; 59:1-3. [PMID: 36779558 DOI: 10.1111/jpy.13312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Affiliation(s)
- Thomas Mock
- School of Environmental Sciences, University of East Anglia, Norwich Research Park, NR4 7TJ, Norwich, UK
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5
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Embracing algal models. Semin Cell Dev Biol 2023; 134:1-3. [PMID: 35779978 DOI: 10.1016/j.semcdb.2022.06.016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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6
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Häfker NS, Andreatta G, Manzotti A, Falciatore A, Raible F, Tessmar-Raible K. Rhythms and Clocks in Marine Organisms. ANNUAL REVIEW OF MARINE SCIENCE 2023; 15:509-538. [PMID: 36028229 DOI: 10.1146/annurev-marine-030422-113038] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The regular movements of waves and tides are obvious representations of the oceans' rhythmicity. But the rhythms of marine life span across ecological niches and timescales, including short (in the range of hours) and long (in the range of days and months) periods. These rhythms regulate the physiology and behavior of individuals, as well as their interactions with each other and with the environment. This review highlights examples of rhythmicity in marine animals and algae that represent important groups of marine life across different habitats. The examples cover ecologically highly relevant species and a growing number of laboratory model systems that are used to disentangle key mechanistic principles. The review introduces fundamental concepts of chronobiology, such as the distinction between rhythmic and endogenous oscillator-driven processes. It also addresses the relevance of studying diverse rhythms and oscillators, as well as their interconnection, for making better predictions of how species will respond to environmental perturbations, including climate change. As the review aims to address scientists from the diverse fields of marine biology, ecology, and molecular chronobiology, all of which have their own scientific terms, we provide definitions of key terms throughout the article.
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Affiliation(s)
- N Sören Häfker
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria; ,
- Research Platform "Rhythms of Life," University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Gabriele Andreatta
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria; ,
- Research Platform "Rhythms of Life," University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Alessandro Manzotti
- Laboratoire de Biologie du Chloroplaste et Perception de la Lumière chez les Microalgues, UMR 7141, CNRS, Sorbonne Université, Institut de Biologie Physico-Chimique, Paris, France;
| | - Angela Falciatore
- Laboratoire de Biologie du Chloroplaste et Perception de la Lumière chez les Microalgues, UMR 7141, CNRS, Sorbonne Université, Institut de Biologie Physico-Chimique, Paris, France;
| | - Florian Raible
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria; ,
- Research Platform "Rhythms of Life," University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Kristin Tessmar-Raible
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria; ,
- Research Platform "Rhythms of Life," University of Vienna, Vienna BioCenter, Vienna, Austria
- Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany
- Institute for Chemistry and Biology of the Marine Environment, Carl von Ossietzky University of Oldenburg, Oldenburg, Germany
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7
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Kim KY, Kim SM, Kim JY, Choi YE. Elucidating the mechanisms underlying the cytotoxic effects of nano-/micro-sized graphene oxide on the microalgae by comparing the physiological and morphological changes in different trophic modes. CHEMOSPHERE 2022; 309:136539. [PMID: 36150492 DOI: 10.1016/j.chemosphere.2022.136539] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Revised: 09/15/2022] [Accepted: 09/16/2022] [Indexed: 06/16/2023]
Abstract
Understanding the cytotoxic mechanisms of environmental contaminants is important to estimate their environmental impacts and prepare guidelines for pollution control. Many studies have assessed the cytotoxic mechanisms of graphene oxide (GO), an emerging aquatic contaminant. However, in many cases, the effect of GO size and putative trophic modes of microalgae on cytotoxicity has been neglected, hindering complete understanding of the cytotoxic mechanisms of GO. In this study, the microalga Euglena gracilis cultivated under light (phototrophic) or dark (heterotrophic) conditions was exposed to two sizes of GO [nano-sized (N) and micro-sized (M)] for assessing the effect of GO on microalgal growth. The cytotoxic effect of GO was higher under phototrophic conditions than under heterotrophic conditions, suggesting that a major cytotoxic mechanism of GO is related to photosynthetic activity inhibition. Moreover, N-GO showed higher toxicity than M-GO. The morphological and physiological changes in N-GO- and M-GO-exposed E. gracilis were assessed to further elucidate the cytotoxic mechanisms. N-GO internalized the cells via endocytic activity/piercing, whereas M-GO partially attached to the cell surface and did not enter the cells. Moreover, N-GO and M-GO negatively affected the cells by inducing oxidative stress; the oxidative stress parameters were higher in N-GO-exposed cells than in M-GO-exposed cells.
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Affiliation(s)
- Ka Young Kim
- Division of Environmental Science & Ecological Engineering, Korea University, Seoul, 02841, South Korea
| | - Shin Myung Kim
- Division of Environmental Science & Ecological Engineering, Korea University, Seoul, 02841, South Korea
| | - Jee Young Kim
- Division of Environmental Science & Ecological Engineering, Korea University, Seoul, 02841, South Korea.
| | - Yoon-E Choi
- Division of Environmental Science & Ecological Engineering, Korea University, Seoul, 02841, South Korea.
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8
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Mallén-Ponce MJ, Pérez-Pérez ME, Crespo JL. Deciphering the function and evolution of the target of rapamycin signaling pathway in microalgae. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:6993-7005. [PMID: 35710309 PMCID: PMC9664231 DOI: 10.1093/jxb/erac264] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Accepted: 06/16/2022] [Indexed: 06/15/2023]
Abstract
Microalgae constitute a highly diverse group of photosynthetic microorganisms that are widely distributed on Earth. The rich diversity of microalgae arose from endosymbiotic events that took place early in the evolution of eukaryotes and gave rise to multiple lineages including green algae, the ancestors of land plants. In addition to their fundamental role as the primary source of marine and freshwater food chains, microalgae are essential producers of oxygen on the planet and a major biotechnological target for sustainable biofuel production and CO2 mitigation. Microalgae integrate light and nutrient signals to regulate cell growth. Recent studies identified the target of rapamycin (TOR) kinase as a central regulator of cell growth and a nutrient sensor in microalgae. TOR promotes protein synthesis and regulates processes that are induced under nutrient stress such as autophagy and the accumulation of triacylglycerol and starch. A detailed analysis of representative genomes from the entire microalgal lineage revealed that the highly conserved central components of the TOR pathway are likely to have been present in the last eukaryotic common ancestor, and the loss of specific TOR signaling elements at an early stage in the evolution of microalgae. Here we examine the evolutionary conservation of TOR signaling components in diverse microalgae and discuss recent progress of this signaling pathway in these organisms.
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Affiliation(s)
- Manuel J Mallén-Ponce
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas-Universidad de Sevilla, Sevilla, Spain
| | - María Esther Pérez-Pérez
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas-Universidad de Sevilla, Sevilla, Spain
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9
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Wang L, Zhang S, Fang J, Jin X, Mamut R, Li P. The Chloroplast Genome of the Lichen Photobiont Trebouxiophyceae sp. DW1 and Its Phylogenetic Implications. Genes (Basel) 2022; 13:genes13101840. [PMID: 36292725 PMCID: PMC9601494 DOI: 10.3390/genes13101840] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Revised: 09/30/2022] [Accepted: 10/10/2022] [Indexed: 11/16/2022] Open
Abstract
Lichens are symbiotic associations of algae and fungi. The genetic mechanism of the symbiosis of lichens and the influence of symbiosis on the size and composition of the genomes of symbiotic algae have always been intriguing scientific questions explored by lichenologists. However, there were limited data on lichen genomes. Therefore, we isolated and purified a lichen symbiotic alga to obtain a single strain (Trebouxiophyceae sp. DW1), and then obtained its chloroplast genome information by next-generation sequencing (NGS). The chloroplast genome is 129,447 bp in length, and the GC content is 35.2%. Repetitive sequences with the length of 30–35 bp account for 1.27% of the total chloroplast genome. The simple sequence repeats are all mononucleotide repeats. Codon usage analysis showed that the genome tended to use codon ending in A/U. By comparing the length of different regions of Trebouxiophyceae genomes, we found that the changes in the length of exons, introns, and intergenic sequences affect the size of genomes. Trebouxiophyceae had an unstable chloroplast genome structure, with IRs repeatedly losing during evolution. Phylogenetic analysis showed that Trebouxiophyceae is paraphyletic, and Trebouxiophyceae sp. DW1 is sister to the clade of Koliella longiseta and Pabia signiensis.
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Affiliation(s)
- Lidan Wang
- College of Life Sciences and Technology, Xinjiang University, Urumchi 830046, China
| | - Shenglu Zhang
- College of Life Sciences, Zhejiang University, Hangzhou 310058, China
| | - Jinjin Fang
- College of Life Sciences and Technology, Xinjiang University, Urumchi 830046, China
| | - Xinjie Jin
- College of Life and Environmental Science, Wenzhou University, Wenzhou 325035, China
| | - Reyim Mamut
- College of Life Sciences and Technology, Xinjiang University, Urumchi 830046, China
- Correspondence: (R.M.); (P.L.)
| | - Pan Li
- College of Life Sciences, Zhejiang University, Hangzhou 310058, China
- Correspondence: (R.M.); (P.L.)
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10
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Foe VE. Does the Pachytene Checkpoint, a Feature of Meiosis, Filter Out Mistakes in Double-Strand DNA Break Repair and as a side-Effect Strongly Promote Adaptive Speciation? Integr Org Biol 2022; 4:obac008. [PMID: 36827645 PMCID: PMC8998493 DOI: 10.1093/iob/obac008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
This essay aims to explain two biological puzzles: why eukaryotic transcription units are composed of short segments of coding DNA interspersed with long stretches of non-coding (intron) DNA, and the near ubiquity of sexual reproduction. As is well known, alternative splicing of its coding sequences enables one transcription unit to produce multiple variants of each encoded protein. Additionally, padding transcription units with non-coding DNA (often many thousands of base pairs long) provides a readily evolvable way to set how soon in a cell cycle the various mRNAs will begin being expressed and the total amount of mRNA that each transcription unit can make during a cell cycle. This regulation complements control via the transcriptional promoter and facilitates the creation of complex eukaryotic cell types, tissues, and organisms. However, it also makes eukaryotes exceedingly vulnerable to double-strand DNA breaks, which end-joining break repair pathways can repair incorrectly. Transcription units cover such a large fraction of the genome that any mis-repair producing a reorganized chromosome has a high probability of destroying a gene. During meiosis, the synaptonemal complex aligns homologous chromosome pairs and the pachytene checkpoint detects, selectively arrests, and in many organisms actively destroys gamete-producing cells with chromosomes that cannot adequately synapse; this creates a filter favoring transmission to the next generation of chromosomes that retain the parental organization, while selectively culling those with interrupted transcription units. This same meiotic checkpoint, reacting to accidental chromosomal reorganizations inflicted by error-prone break repair, can, as a side effect, provide a mechanism for the formation of new species in sympatry. It has been a long-standing puzzle how something as seemingly maladaptive as hybrid sterility between such new species can arise. I suggest that this paradox is resolved by understanding the adaptive importance of the pachytene checkpoint, as outlined above.
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11
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Omran B, Baek KH. Graphene-derived antibacterial nanocomposites for water disinfection: Current and future perspectives. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 298:118836. [PMID: 35032599 DOI: 10.1016/j.envpol.2022.118836] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2021] [Revised: 12/29/2021] [Accepted: 01/08/2022] [Indexed: 05/11/2023]
Abstract
Antimicrobial nanomaterials provide numerous opportunities for the synthesis of next-generation sustainable water disinfectants. Using the keywords graphene and water disinfection and graphene antibacterial activity, a detailed search of the Scopus database yielded 198 and 1433 studies on using graphene for water disinfection applications and graphene antibacterial activity in the last ten years, respectively. Graphene family nanomaterials (GFNs) have emerged as effective antibacterial agents. The current innovations in graphene-, graphene oxide (GO)-, reduced graphene oxide (rGO)-, and graphene quantum dot (GQD)-based nanocomposites for water disinfection, including their functionalization with semiconductor photocatalysts and metal and metal oxide nanoparticles, have been thoroughly discussed in this review. Furthermore, their novel application in the fabrication of 3D porous hydrogels, thin films, and membranes has been emphasized. The physicochemical and structural properties affecting their antibacterial efficiency, such as sheet size, layer number, shape, edges, smoothness/roughness, arrangement mode, aggregation, dispersibility, and surface functionalization have been highlighted. The various mechanisms involved in GFN antibacterial action have been reviewed, including the mechanisms of membrane stress, ROS-dependent and -independent oxidative stress, cell wrapping/trapping, charge transfer, and interaction with cellular components. For safe applications, the potential biosafety and biocompatibility of GFNs in aquatic environments are emphasized. Finally, the current limitations and future perspectives are discussed. This review may provide ideas for developing efficient and practical solutions using graphene-, GO-, rGO-, and GQD-based nanocomposites in water disinfection by rationally employing their unique properties.
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Affiliation(s)
- Basma Omran
- Department of Biotechnology, Yeungnam University, Gyeongbuk, Gyeongsan, 38541, Republic of Korea; Department of Processes Design & Development, Egyptian Petroleum Research Institute (EPRI), Nasr City, Cairo PO, 11727, Egypt
| | - Kwang-Hyun Baek
- Department of Biotechnology, Yeungnam University, Gyeongbuk, Gyeongsan, 38541, Republic of Korea.
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12
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Wang J, Tang X, Mo Z, Mao Y. Metagenome-Assembled Genomes From Pyropia haitanensis Microbiome Provide Insights Into the Potential Metabolic Functions to the Seaweed. Front Microbiol 2022; 13:857901. [PMID: 35401438 PMCID: PMC8984609 DOI: 10.3389/fmicb.2022.857901] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Accepted: 02/28/2022] [Indexed: 12/24/2022] Open
Abstract
Pyropia is an economically important edible red alga worldwide. The aquaculture industry and Pyropia production have grown considerably in recent decades. Microbial communities inhabit the algal surface and produce a variety of compounds that can influence host adaptation. Previous studies on the Pyropia microbiome were focused on the microbial components or the function of specific microbial lineages, which frequently exclude metabolic information and contained only a small fraction of the overall community. Here, we performed a genome-centric analysis to study the metabolic potential of the Pyropia haitanensis phycosphere bacteria. We reconstructed 202 unique metagenome-assembled genomes (MAGs) comprising all major taxa present within the P. haitanensis microbiome. The addition of MAGs to the genome tree containing all publicly available Pyropia-associated microorganisms increased the phylogenetic diversity by 50% within the bacteria. Metabolic reconstruction of the MAGs showed functional redundancy across taxa for pathways including nitrate reduction, taurine metabolism, organophosphorus, and 1-aminocyclopropane-1-carboxylate degradation, auxin, and vitamin B12 synthesis. Some microbial functions, such as auxin and vitamin B12 synthesis, that were previously assigned to a few Pyropia-associated microorganisms were distributed across the diverse epiphytic taxa. Other metabolic pathways, such as ammonia oxidation, denitrification, and sulfide oxidation, were confined to specific keystone taxa.
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Affiliation(s)
- Junhao Wang
- Key Laboratory of Marine Genetics and Breeding (Ministry of Education), College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Xianghai Tang
- Key Laboratory of Marine Genetics and Breeding (Ministry of Education), College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Zhaolan Mo
- Key Laboratory of Marine Genetics and Breeding (Ministry of Education), College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of China, Sanya, China
| | - Yunxiang Mao
- Key Laboratory of Utilization and Conservation of Tropical Marine Bioresource (Ministry of Education), College of Fisheries and Life Sciences, Hainan Tropical Ocean University, Sanya, China
- Yazhou Bay Innovation Research Institute, Hainan Tropical Ocean University, Sanya, China
- Key Laboratory for Conservation and Utilization of Tropical Marine Fishery Resources of Hainan Province, Hainan Tropical Ocean University, Sanya, China
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13
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Babich O, Sukhikh S, Larina V, Kalashnikova O, Kashirskikh E, Prosekov A, Noskova S, Ivanova S, Fendri I, Smaoui S, Abdelkafi S, Michaud P, Dolganyuk V. Algae: Study of Edible and Biologically Active Fractions, Their Properties and Applications. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11060780. [PMID: 35336662 PMCID: PMC8949465 DOI: 10.3390/plants11060780] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Revised: 03/03/2022] [Accepted: 03/10/2022] [Indexed: 06/01/2023]
Abstract
The beneficial properties of algae make them perfect functional ingredients for food products. Algae have a high energy value and are a source of biologically active substances, proteins, fats, carbohydrates, vitamins, and macro- and microelements. They are also rich in polyunsaturated fatty acids, proteins, mycosporine-like amino acids, polysaccharides, polyphenols, carotenoids, sterols, steroids, lectins, halogenated compounds, polyketides, alkaloids, and carrageenans. Different extraction parameters are used depending on the purpose and the substances to be isolated. In this study, the following parameters were used: hydromodule 1:10 and an extraction duration of 1-2 h at the extraction temperature of 25-40 °C. A 30-50% solution of ethanol in water was used as an extractant. Algae extracts can be considered as potential natural sources of biologically active compounds with antimicrobial activity and antiviral properties. The content of crude protein, crude fat, and carbohydrates in U. Prolifera, C. racemosa var. peltata (Chlorophyta), S. oligocystum and S. fusiforme (SF-1) was studied. It was found that C. muelleri (Bacillariophyta), I. galbana (Haptophyta), and T. weissflogii (Bacillariophyta) contain about 1.9 times more omega-3 than omega-6 fatty acids. N. gaditana (Ochrophyta), D. salina (Chlorophyta), P. tricornutum (Bacillaryophyta) and I. galbana (Haptophyta) extracts showed inhibitory activity of varying intensities against E. coli or P. aeruginosa. In addition, algae and algae-derived compounds have been proposed to offer attractive possibilities in the food industry, especially in the meat sector, to evolve functional foods with myriad functionalities. Algae can increase the biological activity of food products, while the further study of the structure of compounds found in algae can broaden their future application possibilities.
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Affiliation(s)
- Olga Babich
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Stanislav Sukhikh
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Viktoria Larina
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Olga Kalashnikova
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Egor Kashirskikh
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Alexander Prosekov
- Laboratory of Biocatalysis, Kemerovo State University, Krasnaya Street 6, 650043 Kemerovo, Russia;
| | - Svetlana Noskova
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
| | - Svetlana Ivanova
- Natural Nutraceutical Biotesting Laboratory, Kemerovo State University, Krasnaya Street 6, 650043 Kemerovo, Russia
- Department of General Mathematics and Informatics, Kemerovo State University, Krasnaya Street 6, 650043 Kemerovo, Russia
| | - Imen Fendri
- Laboratoire de Biotechnologie Végétale Appliquée à l’Amélioration des Cultures, Faculté des Sciences de Sfax, Université de Sfax, Sfax 3038, Tunisia;
| | - Slim Smaoui
- Laboratoire de Microorganismes et de Biomolécules, Centre de Biotechnologie de Sfax, Route Sidi Mansour Km 6 B.P. 117, Sfax 3018, Tunisia;
| | - Slim Abdelkafi
- Laboratoire de Génie Enzymatique et Microbiologie, Equipe de Biotechnologie des Algues, Ecole Nationale d’Ingénieurs de Sfax, Université de Sfax, Sfax 3038, Tunisia;
| | - Philippe Michaud
- Institut Pascal, Université Clermont Auvergne, CNRS, Clermont Auvergne INP, 63000 Clermont-Ferrand, France
| | - Vyacheslav Dolganyuk
- Institute of Living Systems, Immanuel Kant Baltic Federal University, A. Nevskogo Street 14, 236016 Kaliningrad, Russia; (O.B.); (S.S.); (V.L.); (O.K.); (E.K.); (S.N.); (V.D.)
- Department of Bionanotechnology, Kemerovo State University, Krasnaya Street 6, 650043 Kemerovo, Russia
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14
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Organismal and cellular interactions in vertebrate-alga symbioses. Biochem Soc Trans 2022; 50:609-620. [PMID: 35225336 DOI: 10.1042/bst20210153] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Revised: 02/09/2022] [Accepted: 02/10/2022] [Indexed: 12/29/2022]
Abstract
Photosymbioses, intimate interactions between photosynthetic algal symbionts and heterotrophic hosts, are well known in invertebrate and protist systems. Vertebrate animals are an exception where photosynthetic microorganisms are not often considered part of the normal vertebrate microbiome, with a few exceptions in amphibian eggs. Here, we review the breadth of vertebrate diversity and explore where algae have taken hold in vertebrate fur, on vertebrate surfaces, in vertebrate tissues, and within vertebrate cells. We find that algae have myriad partnerships with vertebrate animals, from fishes to mammals, and that those symbioses range from apparent mutualisms to commensalisms to parasitisms. The exception in vertebrates, compared with other groups of eukaryotes, is that intracellular mutualisms and commensalisms with algae or other microbes are notably rare. We currently have no clear cell-in-cell (endosymbiotic) examples of a trophic mutualism in any vertebrate, while there is a broad diversity of such interactions in invertebrate animals and protists. This functional divergence in vertebrate symbioses may be related to vertebrate physiology or a byproduct of our adaptive immune system. Overall, we see that diverse algae are part of the vertebrate microbiome, broadly, with numerous symbiotic interactions occurring across all vertebrate and many algal clades. These interactions are being studied for their ecological, organismal, and cellular implications. This synthesis of vertebrate-algal associations may prove useful for the development of novel therapeutics: pairing algae with medical devices, tissue cultures, and artificial ecto- and endosymbioses.
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15
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Gudiukaite R, Nadda AK, Gricajeva A, Shanmugam S, Nguyen DD, Lam SS. Bioprocesses for the recovery of bioenergy and value-added products from wastewater: A review. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 300:113831. [PMID: 34649321 DOI: 10.1016/j.jenvman.2021.113831] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2021] [Revised: 09/04/2021] [Accepted: 09/22/2021] [Indexed: 06/13/2023]
Abstract
Wastewater and activated sludge present a major challenge worldwide. Wastewater generated from large and small-scale industries, laundries, human residential areas and other sources is emerging as a main problem in sanitation and maintenance of smart/green cities. During the last decade, different technologies and processes have been developed to recycle and purify the wastewater. Currently, identification and fundamental consideration of development of more advanced microbial-based technologies that enable wastewater treatment and simultaneous resource recovery to produce bioenergy, biofuels and other value-added compounds (organic acids, fatty acids, bioplastics, bio-pesticides, bio-surfactants and bio-flocculants etc.) became an emerging topic. In the last several decades, significant development of bioprocesses and techniques for the extraction and recovery of mentioned valuable molecules and compounds from wastewater, waste biomass or sludge has been made. This review presents different microbial-based process routes related to resource recovery and wastewater application for the production of value-added products and bioenergy. Current process limitations and insights for future research to promote more efficient and sustainable routes for this under-utilized and continually growing waste stream are also discussed.
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Affiliation(s)
- Renata Gudiukaite
- Department of Microbiology and Biotechnology, Institute of Biosciences, Life Sciences Center, Vilnius University, Sauletekis Avenue 7, LT-10257, Vilnius, Lithuania.
| | - Ashok Kumar Nadda
- Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, Solan, 173 234, India.
| | - Alisa Gricajeva
- Department of Microbiology and Biotechnology, Institute of Biosciences, Life Sciences Center, Vilnius University, Sauletekis Avenue 7, LT-10257, Vilnius, Lithuania
| | - Sabarathinam Shanmugam
- Key Laboratory of Low-grade Energy Utilization Technologies and Systems, Chongqing University, Ministry of Education, Chongqing, 400044, China
| | - D Duc Nguyen
- Department of Environmental Energy Engineering, Kyonggi University, Gwanggyosan-ro, Yeongtong-gu, Suwon-si, Gyeonggi-do, 442-760, South Korea
| | - Su Shiung Lam
- Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries (AKUATROP), Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia
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16
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Abstract
A number of technological challenges need to be overcome if algae are to be utilized for commercial fuel production. Current economic assessment is largely based on laboratory scale up or commercial systems geared to the production of high value products, since no industrial scale plant exits that are dedicated to algal biofuel. For macroalgae (‘seaweeds’), the most promising processes are anaerobic digestion for biomethane production and fermentation for bioethanol, the latter with levels exceeding those from sugar cane. Currently, both processes could be enhanced by increasing the rate of degradation of the complex polysaccharide cell walls to generate fermentable sugars using specifically tailored hydrolytic enzymes. For microalgal biofuel production, open raceway ponds are more cost-effective than photobioreactors, with CO2 and harvesting/dewatering costs estimated to be ~50% and up to 15% of total costs, respectively. These costs need to be reduced by an order of magnitude if algal biodiesel is to compete with petroleum. Improved economics could be achieved by using a low-cost water supply supplemented with high glucose and nutrients from food grade industrial wastewater and using more efficient flocculation methods and CO2 from power plants. Solar radiation of not <3000 h·yr−1 favours production sites 30° north or south of the equator and should use marginal land with flat topography near oceans. Possible geographical sites are discussed. In terms of biomass conversion, advances in wet technologies such as hydrothermal liquefaction, anaerobic digestion, and transesterification for algal biodiesel are presented and how these can be integrated into a biorefinery are discussed.
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17
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Lu X, Cui Y, Chen Y, Xiao Y, Song X, Gao F, Xiang Y, Hou C, Wang J, Gan Q, Zheng X, Lu Y. Sustainable development of microalgal biotechnology in coastal zone for aquaculture and food. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 780:146369. [PMID: 33773342 DOI: 10.1016/j.scitotenv.2021.146369] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2020] [Revised: 03/05/2021] [Accepted: 03/05/2021] [Indexed: 06/12/2023]
Abstract
Region-specific Research and Development (R&D) of microalga-derived product systems are crucial if "biotech's green gold" is to be explored in a rational and economically viable way. Coastal zones, particularly the locations around the equator, are typically considered to be optimum cultivation sites due to stable annual temperature, light, and ready availability of seawater. However, a 'cradle-to-grave' assessment of the development of microalgal biotechnology in these areas, not only under the laboratory conditions, but also in the fields has not yet been demonstrated. In this study, to evaluate the viability of microalga-derived multi-product technology, we showed the development of microalgal biotechnology in coastal zones for aquaculture and food. By creating and screening a (sub)tropical microalgal collection, a Chlorella strain MEM25 with a robust growth in a wide range of salinities, temperatures, and light intensities was identified. Evaluation of the economic viability and performance of different scale cultivation system designs (500 L and 5000 L closed photobioreactors and 60,000 L open race ponds, ORPs) at coastal zones under geographically specific conditions showed the stable and robust characteristics of MEM25 across different production system designs and various spatial and temporal scales. It produces high amounts of proteins and polyunsaturated fatty acids (PUFAs) in various conditions. Feeding experiments reveal the nutritional merits of MEM25 as food additives where PUFAs and essential amino acids are enriched and the algal diet improves consumers' growth. Economic evaluation highlights an appreciable profitability of MEM25 production as human or animal food using ORP systems. Therefore, despite the pros and cons, sound opportunities exist for the development of market-ready multiple-product systems by employing region-specific R&D strategies for microalgal biotechnology.
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Affiliation(s)
- Xiangning Lu
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China
| | - Yulin Cui
- Key Laboratory of Coastal Biology and Biological Resource Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, Shandong Province, China
| | - Yuting Chen
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China
| | - Yupeng Xiao
- Hainan GreenEnergy Microalgal Biotechnology Co., Ltd, Danzhou 571700, Hainan Province, China
| | - Xiaojin Song
- Shandong Provincial Key Laboratory of Energy Genetics, CAS Key Laboratory of Biofuels, Qingdao Engineering Laboratory of Single Cell Oil, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, Shandong, China
| | - Fengzheng Gao
- Bioprocess Engineering, Wageningen University and Research, 6708PB Wageningen, Netherlands
| | - Yun Xiang
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China
| | - Congcong Hou
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China; State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361005, Fujian Province, China
| | - Jun Wang
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China
| | - Qinhua Gan
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China
| | - Xing Zheng
- Hainan GreenEnergy Microalgal Biotechnology Co., Ltd, Danzhou 571700, Hainan Province, China
| | - Yandu Lu
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan 570228, China.
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18
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Huang S, Zhao J, Li W, Wang P, Xue Z, Zhu G. Biochemical and Phylogenetic Characterization of a Novel NADP +-Specific Isocitrate Dehydrogenase From the Marine Microalga Phaeodactylum tricornutum. Front Mol Biosci 2021; 8:702083. [PMID: 34291089 PMCID: PMC8287583 DOI: 10.3389/fmolb.2021.702083] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 06/24/2021] [Indexed: 11/13/2022] Open
Abstract
Isocitrate dehydrogenase (IDH) family of proteins is classified into three subfamilies, namely, types I, II, and III. Although IDHs are widely distributed in bacteria, archaea, and eukaryotes, all type III IDHs reported to date are found only in prokaryotes. Herein, a novel type III IDH subfamily member from the marine microalga Phaeodactylum tricornutum (PtIDH2) was overexpressed, purified, and characterized in detail for the first time. Relatively few eukaryotic genomes encode this type of IDH and PtIDH2 shares the highest homology with marine bacterial monomeric IDHs, suggesting that PtIDH2 originated through a horizontal gene transfer event between a marine alga and a bacterium. Size-exclusion chromatography revealed that the native PtIDH2 is a homotetramer (∼320 kDa) in solution, comprising four monomeric IDH-like subunits (80 kDa each). Enzymatic characterization showed that PtIDH2 is a bivalent metal ion-dependent enzyme and Mn2+ is the optimal activator. The recombinant PtIDH2 protein exhibited maximal activity at 35°C and pH 8.0 in the presence of Mn2+. Heat-inactivation analysis revealed that PtIDH2 is a cold-adapted enzyme. Kinetic analysis demonstrated that PtIDH2 is a completely NADP+-specific IDH with no detectable NAD+-associated catalytic activity. The three putative key NADP+-binding residues (His604, Arg615, and Arg664) in PtIDH2 were also evaluated by site-directed mutagenesis. The H604L/R615D/R664S triple mutant showed a 3.25-fold preference for NAD+ over NADP+, implying that the coenzyme specificity of PtIDH2 can be converted from NADP+ to NAD+ through rational engineering approaches. Additionally, the roles of the conserved residues Ala718 and Leu742 in the thermostability of PtIDH2 were also explored by site-directed mutagenesis. We found that the L742F mutant displayed higher thermostability than wild-type PtIDH2. This study expands the phylogeny of the IDH family and provides new insights into the evolution of IDHs.
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Affiliation(s)
- Shiping Huang
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, College of Life Sciences, Anhui Normal University, Wuhu, China.,College of Biological and Food Engineering, Anhui Polytechnic University, Wuhu, China
| | - Jiaxin Zhao
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, College of Life Sciences, Anhui Normal University, Wuhu, China
| | - Wenjing Li
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, College of Life Sciences, Anhui Normal University, Wuhu, China
| | - Peng Wang
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, College of Life Sciences, Anhui Normal University, Wuhu, China
| | - Zhenglian Xue
- College of Biological and Food Engineering, Anhui Polytechnic University, Wuhu, China
| | - Guoping Zhu
- Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, Key Laboratory of Biomedicine in Gene Diseases and Health of Anhui Higher Education Institutes, College of Life Sciences, Anhui Normal University, Wuhu, China
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19
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Lu Y, Gu X, Lin H, Melis A. Engineering microalgae: transition from empirical design to programmable cells. Crit Rev Biotechnol 2021; 41:1233-1256. [PMID: 34130561 DOI: 10.1080/07388551.2021.1917507] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Domesticated microalgae hold great promise for the sustainable provision of various bioresources for human domestic and industrial consumption. Efforts to exploit their potential are far from being fully realized due to limitations in the know-how of microalgal engineering. The associated technologies are not as well developed as those for heterotrophic microbes, cyanobacteria, and plants. However, recent studies on microalgal metabolic engineering, genome editing, and synthetic biology have immensely helped to enhance transformation efficiencies and are bringing new insights into this field. Therefore, this article, summarizes recent developments in microalgal biotechnology and examines the prospects for generating specialty and commodity products through the processes of metabolic engineering and synthetic biology. After a brief examination of empirical engineering methods and vector design, this article focuses on quantitative transformation cassette design, elaborates on target editing methods and emerging digital design of algal cellular metabolism to arrive at high yields of valuable products. These advances have enabled a transition of manners in microalgal engineering from single-gene and enzyme-based metabolic engineering to systems-level precision engineering, from cells created with genetically modified (GM) tags to that without GM tags, and ultimately from proof of concept to tangible industrial applications. Finally, future trends are proposed in microalgal engineering, aiming to establish individualized transformation systems in newly identified species for strain-specific specialty and commodity products, while developing sophisticated universal toolkits in model algal species.
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Affiliation(s)
- Yandu Lu
- State Key Laboratory of Marine Resource Utilization in the South China Sea, College of Oceanology, Hainan University, Haikou, China.,Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
| | - Xinping Gu
- State Key Laboratory of Marine Resource Utilization in the South China Sea, College of Oceanology, Hainan University, Haikou, China
| | - Hanzhi Lin
- Institute of Marine & Environmental Technology, Center for Environmental Science, University of Maryland, College Park, MD, USA
| | - Anastasios Melis
- Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
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20
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Hanikenne M, Esteves SM, Fanara S, Rouached H. Coordinated homeostasis of essential mineral nutrients: a focus on iron. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:2136-2153. [PMID: 33175167 DOI: 10.1093/jxb/eraa483] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Accepted: 10/13/2020] [Indexed: 05/22/2023]
Abstract
In plants, iron (Fe) transport and homeostasis are highly regulated processes. Fe deficiency or excess dramatically limits plant and algal productivity. Interestingly, complex and unexpected interconnections between Fe and various macro- and micronutrient homeostatic networks, supposedly maintaining general ionic equilibrium and balanced nutrition, are currently being uncovered. Although these interactions have profound consequences for our understanding of Fe homeostasis and its regulation, their molecular bases and biological significance remain poorly understood. Here, we review recent knowledge gained on how Fe interacts with micronutrient (e.g. zinc, manganese) and macronutrient (e.g. sulfur, phosphate) homeostasis, and on how these interactions affect Fe uptake and trafficking. Finally, we highlight the importance of developing an improved model of how Fe signaling pathways are integrated into functional networks to control plant growth and development in response to fluctuating environments.
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Affiliation(s)
- Marc Hanikenne
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Sara M Esteves
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Steven Fanara
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Hatem Rouached
- BPMP, Univ. Montpellier, CNRS, INRA, Montpellier SupAgro, Montpellier, France
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, MI, USA
- Plant Resilience Institute, Michigan State University, East Lansing, MI, USA
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21
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Lu Y, Gan Q, Iwai M, Alboresi A, Burlacot A, Dautermann O, Takahashi H, Crisanto T, Peltier G, Morosinotto T, Melis A, Niyogi KK. Role of an ancient light-harvesting protein of PSI in light absorption and photoprotection. Nat Commun 2021; 12:679. [PMID: 33514722 PMCID: PMC7846763 DOI: 10.1038/s41467-021-20967-1] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2020] [Accepted: 01/05/2021] [Indexed: 12/18/2022] Open
Abstract
Diverse algae of the red lineage possess chlorophyll a-binding proteins termed LHCR, comprising the PSI light-harvesting system, which represent an ancient antenna form that evolved in red algae and was acquired through secondary endosymbiosis. However, the function and regulation of LHCR complexes remain obscure. Here we describe isolation of a Nannochloropsis oceanica LHCR mutant, named hlr1, which exhibits a greater tolerance to high-light (HL) stress compared to the wild type. We show that increased tolerance to HL of the mutant can be attributed to alterations in PSI, making it less prone to ROS production, thereby limiting oxidative damage and favoring growth in HL. HLR1 deficiency attenuates PSI light-harvesting capacity and growth of the mutant under light-limiting conditions. We conclude that HLR1, a member of a conserved and broadly distributed clade of LHCR proteins, plays a pivotal role in a dynamic balancing act between photoprotection and efficient light harvesting for photosynthesis. LHCR proteins are ancient chlorophyll a-binding antennas that evolved in diverse algae of the red lineage. Here Lu et al. characterize a red lineage LHCR mutant and show reduced oxidative damage in high light but attenuated growth under low light, thus demonstrating how LHCR proteins impact the balance between photoprotection and light harvesting.
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Affiliation(s)
- Yandu Lu
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan, China. .,Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA.
| | - Qinhua Gan
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Oceanology, Hainan University, Haikou, Hainan, China
| | - Masakazu Iwai
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA.,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | | | - Adrien Burlacot
- CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix-Marseille, UMR 7265, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, Saint-Paul-lezDurance, France
| | - Oliver Dautermann
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
| | - Hiroko Takahashi
- Department of Biochemistry and Molecular Biology, Graduate school of Science and Engineering, Saitama University, Saitama, Japan
| | - Thien Crisanto
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
| | - Gilles Peltier
- CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix-Marseille, UMR 7265, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, Saint-Paul-lezDurance, France
| | | | - Anastasios Melis
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
| | - Krishna K Niyogi
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA. .,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
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22
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Abstract
Model organisms are extensively used in research as accessible and convenient systems for studying a particular area or question in biology. Traditionally, only a limited number of organisms have been studied in detail, but modern genomic tools are enabling researchers to extend beyond the set of classical model organisms to include novel species from less-studied phylogenetic groups. This review focuses on model species for an important group of multicellular organisms, the brown algae. The development of genetic and genomic tools for the filamentous brown alga Ectocarpus has led to it emerging as a general model system for this group, but additional models, such as Fucus or Dictyota dichotoma, remain of interest for specific biological questions. In addition, Saccharina japonica has emerged as a model system to directly address applied questions related to algal aquaculture. We discuss the past, present, and future of brown algal model organisms in relation to the opportunities and challenges in brown algal research.
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Affiliation(s)
- Susana M Coelho
- Laboratory of Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR), CNRS, Sorbonne Université, 29680 Roscoff, France;
- Current affiliation: Department of Algal Development and Evolution, Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany;
| | - J Mark Cock
- Laboratory of Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR), CNRS, Sorbonne Université, 29680 Roscoff, France;
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23
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Chen S, Zhang W, Li J, Yuan M, Zhang J, Xu F, Xu H, Zheng X, Wang L. Ecotoxicological effects of sulfonamides and fluoroquinolones and their removal by a green alga (Chlorella vulgaris) and a cyanobacterium (Chrysosporum ovalisporum). ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 263:114554. [PMID: 32305800 DOI: 10.1016/j.envpol.2020.114554] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2020] [Revised: 04/02/2020] [Accepted: 04/05/2020] [Indexed: 06/11/2023]
Abstract
In recent years, antibiotic pollution has become worse, especially in China. In this study, the ecotoxicological effects of four frequently used antibiotics with different lipophilic degrees (log Kow) (sulfadiazine (SD), sulfamethazine (SM2), enrofloxacin (ENR), and norfloxacin (NOR)) at four concentrations of 1, 5, 20, and 50 mg L-1 were examined using batch cultures of green alga Chlorella vulgaris and cyanobacterium Chrysosporum ovalisporum for 16 days based on changes in chlorophyll fluorescence parameters (chl a, Fv/Fm, and ΦPSII) and responses of the antioxidant system. Besides, the antibiotics removal efficiencies of the two microalgae were investigated. Sulfonamides (SD and SM2) had no significant inhibitory effect on the growth of C. ovalisporum, but had an inhibitory effect on C. vulgaris, whereas fluoroquinolones (ENR and NOR) significantly inhibited C. ovalisporum. The activities of superoxide dismutase, catalase, and glutathione reductase suggested that C. vulgaris was more tolerant to these antibiotics than C. ovalisporum. The increased malondialdehyde level in both algae indicated their tolerance against antibiotics. When compared with C. ovalisporum, C. vulgaris presented better capacity to remove antibiotics. In summary, the four antibiotics exerted time- or concentration-dependent ecotoxicological effects on the microalgae examined, whereas the microalgae could remove the antibiotics based on the log Kow of the antibiotics. The findings of this study contribute to effective understanding of the ecotoxicological effects of antibiotics and their removal by microalgae.
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Affiliation(s)
- Shan Chen
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Wei Zhang
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Jiayuan Li
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Mingzhe Yuan
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Jiahui Zhang
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Fan Xu
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China
| | - Houtao Xu
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - Xiaoyan Zheng
- Shanghai Aquatic Environmental Engineering Co., Ltd, Shanghai, 200090, China
| | - Liqing Wang
- Centre for Research on Environmental Ecology and Fish Nutrient of the Ministry of Agriculture, Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China.
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Isoprostanoid Profiling of Marine Microalgae. Biomolecules 2020; 10:biom10071073. [PMID: 32708411 PMCID: PMC7407139 DOI: 10.3390/biom10071073] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Revised: 07/09/2020] [Accepted: 07/14/2020] [Indexed: 12/23/2022] Open
Abstract
Algae result from a complex evolutionary history that shapes their metabolic network. For example, these organisms can synthesize different polyunsaturated fatty acids, such as those found in land plants and oily fish. Due to the presence of numerous double-bonds, such molecules can be oxidized nonenzymatically, and this results in the biosynthesis of high-value bioactive metabolites named isoprostanoids. So far, there have been only a few studies reporting isoprostanoid productions in algae. To fill this gap, the current investigation aimed at profiling isoprostanoids by liquid chromatography -mass spectrometry/mass spectrometry (LC-MS/MS) in four marine microalgae. A good correlation was observed between the most abundant polyunsaturated fatty acids (PUFAs) produced by the investigated microalgal species and their isoprostanoid profiles. No significant variations in the content of oxidized derivatives were observed for Rhodomonas salina and Chaetoceros gracilis under copper stress, whereas increases in the production of C18-, C20- and C22-derived isoprostanoids were monitored in Tisochrysis lutea and Phaeodactylum tricornutum. In the presence of hydrogen peroxide, no significant changes were observed for C. gracilis and for T. lutea, while variations were monitored for the other two algae. This study paves the way to further studying the physiological roles of isoprostanoids in marine microalgae and exploring these organisms as bioresources for isoprostanoid production.
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Lacour T, Babin M, Lavaud J. Diversity in Xanthophyll Cycle Pigments Content and Related Nonphotochemical Quenching (NPQ) Among Microalgae: Implications for Growth Strategy and Ecology. JOURNAL OF PHYCOLOGY 2020; 56:245-263. [PMID: 31674660 DOI: 10.1111/jpy.12944] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2019] [Accepted: 10/04/2019] [Indexed: 05/12/2023]
Abstract
Xanthophyll cycle-related nonphotochemical quenching (NPQ), which is present in most photoautotrophs, allows dissipation of excess light energy. Xanthophyll cycle-related NPQ depends principally on xanthophyll cycle pigments composition and their effective involvement in NPQ. Xanthophyll cycle-related NPQ is tightly controlled by environmental conditions in a species-/strain-specific manner. These features are especially relevant in microalgae living in a complex and highly variable environment. The goal of this study was to perform a comparative assessment of NPQ ecophysiologies across microalgal taxa in order to underline the specific involvement of NPQ in growth adaptations and strategies. We used both published results and data acquired in our laboratory to understand the relationships between growth conditions (irradiance, temperature, and nutrient availability), xanthophyll cycle composition, and xanthophyll cycle pigments quenching efficiency in microalgae from various taxa. We found that in diadinoxanthin-containing species, the xanthophyll cycle pigment pool is controlled by energy pressure in all species. At any given energy pressure, however, the diatoxanthin content is higher in diatoms than in other diadinoxanthin-containing species. XC pigments quenching efficiency is species-specific and decreases with acclimation to higher irradiances. We found a clear link between the natural light environment of species/ecotypes and quenching efficiency amplitude. The presence of diatoxanthin or zeaxanthin at steady state in all species examined at moderate and high irradiances suggests that cells maintain a light-harvesting capacity in excess to cope with potential decrease in light intensity.
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Affiliation(s)
| | - Marcel Babin
- Takuvik Joint International Laboratory UMI3376, CNRS (France) & ULaval (Canada), Département de Biologie, Université Laval, Pavillon Alexandre-Vachon, 1045, Avenue de la Médecine, Québec, QC, G1V 0A6, Canada
| | - Johann Lavaud
- Takuvik Joint International Laboratory UMI3376, CNRS (France) & ULaval (Canada), Département de Biologie, Université Laval, Pavillon Alexandre-Vachon, 1045, Avenue de la Médecine, Québec, QC, G1V 0A6, Canada
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26
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Martínez-Alberola F, Barreno E, Casano LM, Gasulla F, Molins A, Moya P, González-Hourcade M, Del Campo EM. The chloroplast genome of the lichen-symbiont microalga Trebouxia sp. Tr9 (Trebouxiophyceae, Chlorophyta) shows short inverted repeats with a single gene and loss of the rps4 gene, which is encoded by the nucleus. JOURNAL OF PHYCOLOGY 2020; 56:170-184. [PMID: 31578712 DOI: 10.1111/jpy.12928] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Accepted: 09/15/2019] [Indexed: 06/10/2023]
Abstract
The Trebouxiophyceae is the class of Chlorophyta algae from which the highest number of chloroplast genome (cpDNA) sequences has been obtained. Several species in this class participate in symbioses with fungi to form lichens. However, no cpDNA has been obtained from any Trebouxia lichen-symbiont microalgae, which are present in approximately half of all lichens. Here, we report the sequence of the completely assembled cpDNA from Trebouxia sp. TR9 and a comparative study with other Trebouxio-phyceae. The organization of the chloroplast genome of Trebouxia sp. TR9 has certain features that are unusual in the Trebouxiophyceae and other green algae. The most remarkable characteristics are the presence of long intergenic spacers, a quadripartite structure with short inverted repeated sequences (IRs), and the loss of the rps4 gene. The presence of long intergenic spacers accounts for a larger cpDNA size in comparison to other closely related Trebouxiophyceae. The IRs, which were thought to be lost in the Trebouxiales, are distinct from most of cpDNAs since they lack the rRNA operon and uniquely includes the rbcL gene. The functional transfer of the rps4 gene to the nuclear genome has been confirmed by sequencing and examination of the gene architecture, which includes three spliceosomal introns as well as the verification of the presence of the corresponding transcript. This is the first documented transfer of the rps4 gene from the chloroplast to the nucleus among Viridiplantae. Additionally, a fairly well-resolved phylogenetic reconstruction, including Trebouxia sp. TR9 along with other Trebouxiophyceae, was obtained based on a set of conserved chloroplast genes.
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Affiliation(s)
- Fernando Martínez-Alberola
- ICBIBE, Botánica, Facultad de Ciencias Biológicas, Universitat de València, Dr. Moliner 50, Burjassot, Valencia, 46100, Spain
| | - Eva Barreno
- ICBIBE, Botánica, Facultad de Ciencias Biológicas, Universitat de València, Dr. Moliner 50, Burjassot, Valencia, 46100, Spain
| | - Leonardo M Casano
- Department of Life Sciences, University of Alcalá, Alcalá de Henares, Madrid, 28805, Spain
| | - Francisco Gasulla
- Department of Life Sciences, University of Alcalá, Alcalá de Henares, Madrid, 28805, Spain
| | - Arantzazu Molins
- ICBIBE, Botánica, Facultad de Ciencias Biológicas, Universitat de València, Dr. Moliner 50, Burjassot, Valencia, 46100, Spain
| | - Patricia Moya
- ICBIBE, Botánica, Facultad de Ciencias Biológicas, Universitat de València, Dr. Moliner 50, Burjassot, Valencia, 46100, Spain
| | | | - Eva M Del Campo
- Department of Life Sciences, University of Alcalá, Alcalá de Henares, Madrid, 28805, Spain
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Karimi E, Geslain E, KleinJan H, Tanguy G, Legeay E, Corre E, Dittami SM. Genome Sequences of 72 Bacterial Strains Isolated from Ectocarpus subulatus: A Resource for Algal Microbiology. Genome Biol Evol 2020; 12:3647-3655. [PMID: 31841132 PMCID: PMC6948157 DOI: 10.1093/gbe/evz278] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/12/2019] [Indexed: 12/25/2022] Open
Abstract
Brown algae are important primary producers and ecosystem engineers in the ocean, and Ectocarpus has been established as a laboratory model for this lineage. Like most multicellular organisms, Ectocarpus is associated with a community of microorganisms, a partnership frequently referred to as holobiont due to the tight interconnections between the components. Although genomic resources for the algal host are well established, its associated microbiome is poorly characterized from a genomic point of view, limiting the possibilities of using these types of data to study host-microbe interactions. To address this gap in knowledge, we present the annotated draft genome sequences of seventy-two cultivable Ectocarpus-associated bacteria. A screening of gene clusters related to the production of secondary metabolites revealed terpene, bacteriocin, NRPS, PKS-t3, siderophore, PKS-t1, and homoserine lactone clusters to be abundant among the sequenced genomes. These compounds may be used by the bacteria to communicate with the host and other microbes. Moreover, detoxification and provision of vitamin B pathways have been observed in most sequenced genomes, highlighting potential contributions of the bacterial metabolism toward host fitness and survival. The genomes sequenced in this study form a valuable resource for comparative genomic analyses and evolutionary surveys of alga-associated bacteria. They help establish Ectocarpus as a model for brown algal holobionts and will enable the research community to produce testable hypotheses about the molecular interactions within this complex system.
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Affiliation(s)
- Elham Karimi
- Sorbonne Université/CNRS, Station Biologique de Roscoff, UMR 8227, Integrative Biology of Marine Models, Roscoff, France
| | - Enora Geslain
- Sorbonne Université/CNRS, Station Biologique de Roscoff, UMR 8227, Integrative Biology of Marine Models, Roscoff, France
- Sorbonne Université/CNRS, Station Biologique de Roscoff, FR2424, Roscoff, France Roscoff, France
| | - Hetty KleinJan
- Sorbonne Université/CNRS, Station Biologique de Roscoff, UMR 8227, Integrative Biology of Marine Models, Roscoff, France
- CEBEDEAU, Research and Expertise Center for Water, Liège, Belgium
| | - Gwenn Tanguy
- Sorbonne Université/CNRS, Station Biologique de Roscoff, FR2424, Roscoff, France Roscoff, France
| | - Erwan Legeay
- Sorbonne Université/CNRS, Station Biologique de Roscoff, FR2424, Roscoff, France Roscoff, France
| | - Erwan Corre
- Sorbonne Université/CNRS, Station Biologique de Roscoff, FR2424, Roscoff, France Roscoff, France
| | - Simon M Dittami
- Sorbonne Université/CNRS, Station Biologique de Roscoff, UMR 8227, Integrative Biology of Marine Models, Roscoff, France
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Mathieu-Rivet E, Mati-Baouche N, Walet-Balieu ML, Lerouge P, Bardor M. N- and O-Glycosylation Pathways in the Microalgae Polyphyletic Group. FRONTIERS IN PLANT SCIENCE 2020; 11:609993. [PMID: 33391324 PMCID: PMC7773692 DOI: 10.3389/fpls.2020.609993] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2020] [Accepted: 11/23/2020] [Indexed: 05/15/2023]
Abstract
The term microalga refers to various unicellular and photosynthetic organisms representing a polyphyletic group. It gathers numerous species, which can be found in cyanobacteria (i.e., Arthrospira) as well as in distinct eukaryotic groups, such as Chlorophytes (i.e., Chlamydomonas or Chlorella) and Heterokonts (i.e., diatoms). This phylogenetic diversity results in an extraordinary variety of metabolic pathways, offering large possibilities for the production of natural compounds like pigments or lipids that can explain the ever-growing interest of industrials for these organisms since the middle of the last century. More recently, several species have received particular attention as biofactories for the production of recombinant proteins. Indeed, microalgae are easy to grow, safe and cheap making them attractive alternatives as heterologous expression systems. In this last scope of applications, the glycosylation capacity of these organisms must be considered as this post-translational modification of proteins impacts their structural and biological features. Although these mechanisms are well known in various Eukaryotes like mammals, plants or insects, only a few studies have been undertaken for the investigation of the protein glycosylation in microalgae. Recently, significant progresses have been made especially regarding protein N-glycosylation, while O-glycosylation remain poorly known. This review aims at summarizing the recent data in order to assess the state-of-the art knowledge in glycosylation processing in microalgae.
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Affiliation(s)
| | | | | | - Patrice Lerouge
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
| | - Muriel Bardor
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
- Unité de Glycobiologie Structurale et Fonctionnelle (UGSF), UMR 8576, CNRS, Université de Lille, Lille, France
- *Correspondence: Muriel Bardor,
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Park S, Nguyen THT, Jin E. Improving lipid production by strain development in microalgae: Strategies, challenges and perspectives. BIORESOURCE TECHNOLOGY 2019; 292:121953. [PMID: 31405625 DOI: 10.1016/j.biortech.2019.121953] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Revised: 07/31/2019] [Accepted: 08/01/2019] [Indexed: 05/16/2023]
Abstract
Over the past decade, the number of original articles and reviews presenting microalgae as a promising feedstock for biodiesel has increased tremendously. Many improvements of microalgae have been achieved through selection and strain development for industrial applications. However, the large-scale production of lipids for commercialization is not yet realistic because the production is still much more expensive than that of agricultural products. This review summarizes recent research on the induction of lipid biosynthesis in microalgae and the various strategies of genetic and metabolic engineering for enhancing lipid production. Strain engineering targets are proposed based on these strategies. To address current limitations of strain engineering for lipid production, this review provides insights on recent engineering strategies based on molecular tools and methods, and also discusses further perspectives.
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Affiliation(s)
- Seunghye Park
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, Republic of Korea
| | - Thu Ha Thi Nguyen
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, Republic of Korea
| | - EonSeon Jin
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, Republic of Korea.
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30
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Abstract
Algae are photosynthetic eukaryotes whose taxonomic breadth covers a range of life histories, degrees of cellular and developmental complexity, and diverse patterns of sexual reproduction. These patterns include haploid- and diploid-phase sex determination, isogamous mating systems, and dimorphic sexes. Despite the ubiquity of sexual reproduction in algae, their mating-type-determination and sex-determination mechanisms have been investigated in only a limited number of representatives. These include volvocine green algae, where sexual cycles and sex-determining mechanisms have shed light on the transition from mating types to sexes, and brown algae, which are a model for UV sex chromosome evolution in the context of a complex haplodiplontic life cycle. Recent advances in genomics have aided progress in understanding sexual cycles in less-studied taxa including ulvophyte, charophyte, and prasinophyte green algae, as well as in diatoms.
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Affiliation(s)
- James Umen
- Donald Danforth Plant Science Center, St. Louis, Missouri 63132, USA;
| | - Susana Coelho
- Algal Genetics Group, Integrative Biology of Marine Models, Station Biologique de Roscoff, Sorbonne Université, UPMC Université Paris 06, CNRS, CS 90074, F-29688 Roscoff, France;
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31
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Goh FQY, Jeyakani J, Tipthara P, Cazenave-Gassiot A, Ghosh R, Bogard N, Yeo Z, Wong GKS, Melkonian M, Wenk MR, Clarke ND. Gains and losses of metabolic function inferred from a phylotranscriptomic analysis of algae. Sci Rep 2019; 9:10482. [PMID: 31324835 PMCID: PMC6642084 DOI: 10.1038/s41598-019-46869-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Accepted: 07/05/2019] [Indexed: 11/25/2022] Open
Abstract
Hidden Markov models representing 167 protein sequence families were used to infer the presence or absence of homologs within the transcriptomes of 183 algal species/strains. Statistical analyses of the distribution of HMM hits across major clades of algae, or at branch points on the phylogenetic tree of 98 chlorophytes, confirmed and extended known cases of metabolic loss and gain, most notably the loss of the mevalonate pathway for terpenoid synthesis in green algae but not, as we show here, in the streptophyte algae. Evidence for novel events was found as well, most remarkably in the recurrent and coordinated gain or loss of enzymes for the glyoxylate shunt. We find, as well, a curious pattern of retention (or re-gain) of HMG-CoA synthase in chlorophytes that have otherwise lost the mevalonate pathway, suggesting a novel, co-opted function for this enzyme in select lineages. Finally, we find striking, phylogenetically linked distributions of coding sequences for three pathways that synthesize the major membrane lipid phosphatidylcholine, and a complementary phylogenetic distribution pattern for the non-phospholipid DGTS (diacyl-glyceryl-trimethylhomoserine). Mass spectrometric analysis of lipids from 25 species was used to validate the inference of DGTS synthesis from sequence data.
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Affiliation(s)
- Falicia Qi Yun Goh
- Yale-NUS College Singapore, 138527, Singapore, Singapore.,Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Justin Jeyakani
- Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Phornpimon Tipthara
- Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Amaury Cazenave-Gassiot
- Department of Biochemistry, Yong Loo Lin School of Medicine National University of Singapore, Singapore, 117596, Singapore
| | - Rajoshi Ghosh
- Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Nicholas Bogard
- Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Zhenxuan Yeo
- Yale-NUS College Singapore, 138527, Singapore, Singapore.,Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore
| | - Gane Ka-Shu Wong
- Department of Biological Sciences, University of Alberta, Edmonton, T6G 2E9, Canada.,Department of Medicine, University of Alberta, Edmonton, T6G 2E1, Canada.,BGI-Shenzhen, Shenzhen, 518083, China
| | - Michael Melkonian
- Botanical Institute, Cologne Biocenter, University of Cologne, 50674, Cologne, Germany
| | - Markus R Wenk
- Department of Biochemistry, Yong Loo Lin School of Medicine National University of Singapore, Singapore, 117596, Singapore
| | - Neil D Clarke
- Yale-NUS College Singapore, 138527, Singapore, Singapore. .,Computational and Systems Biology, Genome Institute of Singapore, Singapore, 138672, Singapore. .,Department of Biological Sciences, National University of Singapore, Singapore, 117543, Singapore.
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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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bHLH-PAS protein RITMO1 regulates diel biological rhythms in the marine diatom Phaeodactylum tricornutum. Proc Natl Acad Sci U S A 2019; 116:13137-13142. [PMID: 31171659 PMCID: PMC6600994 DOI: 10.1073/pnas.1819660116] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Periodic light-dark cycles govern the timing of basic biological processes in organisms inhabiting land as well as the sea, where life evolved. Although prominent marine phytoplanktonic organisms such as diatoms show robust diel rhythms, the mechanisms regulating these processes are still obscure. By characterizing a Phaeodactylum tricornutum bHLH-PAS nuclear protein, hereby named RITMO1, we shed light on the regulation of the daily life of diatoms. Alteration of RITMO1 expression levels and timing by ectopic overexpression results in lines with deregulated diurnal gene expression profiles compared with the wild-type cells. Reduced gene expression oscillations are also observed in these lines in continuous darkness, showing that the regulation of rhythmicity by RITMO1 is not directly dependent on light inputs. We also describe strong diurnal rhythms of cellular fluorescence in wild-type cells, which persist in continuous light conditions, indicating the existence of an endogenous circadian clock in diatoms. The altered rhythmicity observed in RITMO1 overexpression lines in continuous light supports the involvement of this protein in circadian rhythm regulation. Phylogenetic analysis reveals a wide distribution of RITMO1-like proteins in the genomes of diatoms as well as in other marine algae, which may indicate a common function in these phototrophs. This study adds elements to our understanding of diatom biology and offers perspectives to elucidate timekeeping mechanisms in marine organisms belonging to a major, but under-investigated, branch of the tree of life.
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Prasad B, Lein W, Thiyam G, Lindenberger CP, Buchholz R, Vadakedath N. Stable nuclear transformation of rhodophyte species Porphyridium purpureum: advanced molecular tools and an optimized method. PHOTOSYNTHESIS RESEARCH 2019; 140:173-188. [PMID: 30276605 DOI: 10.1007/s11120-018-0587-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Accepted: 09/20/2018] [Indexed: 06/08/2023]
Abstract
A mutated phytoene desaturase (pds) gene, pds-L504R, conferring resistance to the herbicide norflurazon has been reported as a dominant selectable marker for the genetic engineering of microalgae (Steinbrenner and Sandmann in Appl Environ Microbiol 72:7477-7484, 2006; Prasad et al. in Appl Microbiol Biotechnol 98(20):8629-8639, 2014). However, this mutated genomic clone harbors several introns and the entire expression cassette including its native promoter and terminator has a length > 5.6 kb, making it unsuitable as a standard selection marker. Therefore, we designed a synthetic, short pds gene (syn-pds-int) by removing introns and unwanted internal restriction sites, adding suitable restriction sites for cloning purposes, and introduced the first intron from the Chlamydomonas reinhardtii RbcS2 gene close to the 5'end without changing the amino acid sequence. The syn-pds-int gene (1872 bp) was cloned into pCAMBIA 1380 under the control of a short sequence (615 bp) of the promoter of pds (pCAMBIA 1380-syn-pds-int). This vector and the plasmid pCAMBIA1380-pds-L504R hosting the mutated genomic pds were used for transformation studies. To broaden the existing transformation portfolio, the rhodophyte Porphyridium purpureum was targeted. Agrobacterium-mediated transformation of P. purpureum with both the forms of pds gene, pds-L504R or syn-pds-int, yielded norflurazon-resistant (NR) cells. This is the first report of a successful nuclear transformation of P. purpureum. Transformation efficiency and lethal norflurazon dosage were determined to evaluate the usefulness of syn-pds-int gene and functionality of the short promoter of pds. PCR and Southern blot analysis confirmed transgene integration into the microalga. Both forms of pds gene expressed efficiently as evidenced by the stability, tolerance and the qRT-PCR analysis. The molecular toolkits and transformation method presented here could be used to genetically engineer P. purpureum for fundamental studies as well as for the production of high-value-added compounds.
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Affiliation(s)
- Binod Prasad
- Institute of Bioprocess Engineering, Friedrich-Alexander University Erlangen-Nürnberg, Paul-Gordan-Straße 3, 91052, Erlangen, Germany
| | - Wolfgang Lein
- Institute for Biotechnology, Technical University Berlin, 13353, Berlin, Germany
- Department of Biotechnology, Dongseo University, Busan, South Korea
| | - General Thiyam
- Department of Biotechnology, Dongseo University, Busan, South Korea
| | - Christoph Peter Lindenberger
- Institute of Bioprocess Engineering, Friedrich-Alexander-University of Erlangen Nuremberg Busan Campus, 1276 Jisa-Dong, Gangseo-Gu, Busan, 618-230, South Korea
| | - Rainer Buchholz
- Institute of Bioprocess Engineering, Friedrich-Alexander University Erlangen-Nürnberg, Paul-Gordan-Straße 3, 91052, Erlangen, Germany
| | - Nithya Vadakedath
- Institute of Bioprocess Engineering, Friedrich-Alexander University Erlangen-Nürnberg, Paul-Gordan-Straße 3, 91052, Erlangen, Germany.
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Li-Beisson Y, Thelen JJ, Fedosejevs E, Harwood JL. The lipid biochemistry of eukaryotic algae. Prog Lipid Res 2019; 74:31-68. [PMID: 30703388 DOI: 10.1016/j.plipres.2019.01.003] [Citation(s) in RCA: 162] [Impact Index Per Article: 32.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2018] [Revised: 01/22/2019] [Accepted: 01/23/2019] [Indexed: 02/06/2023]
Abstract
Algal lipid metabolism fascinates both scientists and entrepreneurs due to the large diversity of fatty acyl structures that algae produce. Algae have therefore long been studied as sources of genes for novel fatty acids; and, due to their superior biomass productivity, algae are also considered a potential feedstock for biofuels. However, a major issue in a commercially viable "algal oil-to-biofuel" industry is the high production cost, because most algal species only produce large amounts of oils after being exposed to stress conditions. Recent studies have therefore focused on the identification of factors involved in TAG metabolism, on the subcellular organization of lipid pathways, and on interactions between organelles. This has been accompanied by the development of genetic/genomic and synthetic biological tools not only for the reference green alga Chlamydomonas reinhardtii but also for Nannochloropsis spp. and Phaeodactylum tricornutum. Advances in our understanding of enzymes and regulatory proteins of acyl lipid biosynthesis and turnover are described herein with a focus on carbon and energetic aspects. We also summarize how changes in environmental factors can impact lipid metabolism and describe present and potential industrial uses of algal lipids.
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Affiliation(s)
- Yonghua Li-Beisson
- Aix-Marseille Univ, CEA, CNRS, BIAM, UMR7265, CEA Cadarache, Saint-Paul-lez Durance F-13108, France.
| | - Jay J Thelen
- Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, MO 65211, United States.
| | - Eric Fedosejevs
- Department of Biochemistry, University of Missouri, Christopher S. Bond Life Sciences Center, Columbia, MO 65211, United States.
| | - John L Harwood
- School of Biosciences, Cardiff University, Cardiff CF10 3AX, UK.
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Singh R, Upadhyay AK, Chandra P, Singh DP. Sodium chloride incites reactive oxygen species in green algae Chlorococcum humicola and Chlorella vulgaris: Implication on lipid synthesis, mineral nutrients and antioxidant system. BIORESOURCE TECHNOLOGY 2018; 270:489-497. [PMID: 30245319 DOI: 10.1016/j.biortech.2018.09.065] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2018] [Revised: 09/11/2018] [Accepted: 09/12/2018] [Indexed: 05/21/2023]
Abstract
In the present study, microalgae Chlorococcum humicola and Chlorella vulgaris were grown in different concentrations of NaCl (25-1000 mM) to elucidate its impact on morphology, lipid synthesis, minerals status and antioxidative responses. Scanning Electron microscopy showed distorted cell morphology and increased cell size by 33.52% (C. humicola) and 27.79% (C. vulgaris) at 100 mM NaCl. Energy Dispersive Spectroscopy data revealed reduction in mineral contents (C, S, Fe, Mg, Si, Mn and Zn) by 14-54% in both algae. Further, C. humicola was found to have high lipid content than C. vulgaris under NaCl regime. The activities of superoxide dismutase, catalase and glutathione reductase were increased by 2.5-5 folds in both algae as compared to control. The increased level of ascorbate, cysteine and proline in both algae indicated tolerance against salinity. Thus, C. humicola and C. vulgaris may exhibit dual benefits viz., high lipid production and reclamation of sodic soil.
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Affiliation(s)
- R Singh
- Department of Environmental Science, Babasaheb Bhimrao Ambedkar University, Lucknow 226025, India
| | - A K Upadhyay
- Department of Environmental Science, Babasaheb Bhimrao Ambedkar University, Lucknow 226025, India
| | - P Chandra
- Department of Environmental Microbiology, Babasaheb Bhimrao Ambedkar University, Lucknow 226025, India
| | - D P Singh
- Department of Environmental Science, Babasaheb Bhimrao Ambedkar University, Lucknow 226025, India.
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Trichormus variabilis (Cyanobacteria) Biomass: From the Nutraceutical Products to Novel EPS-Cell/Protein Carrier Systems. Mar Drugs 2018; 16:md16090298. [PMID: 30150548 PMCID: PMC6164293 DOI: 10.3390/md16090298] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2018] [Revised: 08/20/2018] [Accepted: 08/24/2018] [Indexed: 12/27/2022] Open
Abstract
A native strain of the heterocytous cyanobacterium Trichormus variabilis VRUC 168 was mass cultivated in a low-cost photobioreactor for a combined production of Polyunsaturated Fatty Acids (PUFA) and Exopolymeric Substances (EPS) from the same cyanobacterial biomass. A sequential extraction protocol was optimized leading to high yields of Released EPS (REPS) and PUFA, useful for nutraceutical products and biomaterials. REPS were extracted and characterized by chemical staining, Reversed Phase-High-Performance Liquid Chromatography (RP-HPLC), Fourier Transform Infrared Spectroscopy (FT-IR) and other spectroscopic techniques. Due to their gelation property, REPS were used to produce a photo-polymerizable hybrid hydrogel (REPS-Hy) with addition of polyethylene glycol diacrylated (PEGDa). REPS-Hy was stable over time and resistant to dehydration and spontaneous hydrolysis. The rheological and functional properties of REPS-Hy were studied. The enzyme carrier ability of REPS-Hy was assessed using the detoxification enzyme thiosulfate:cyanide sulfur transferase (TST), suggesting the possibility to use REPS-Hy as an enzymatic hydrogel system. Finally, REPS-Hy was used as a scaffold for culturing human mesenchymal stem cells (hMSCs). The cell seeding onto the REPS-Hy and the cell embedding into 3D-REPS-Hy demonstrated a scaffolding property of REPS-Hy with non-cytotoxic effect, suggesting potential applications of cyanobacteria REPS for producing enzyme- and cell-carrier systems.
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Vigor C, Reversat G, Rocher A, Oger C, Galano JM, Vercauteren J, Durand T, Tonon T, Leblanc C, Potin P. Isoprostanoids quantitative profiling of marine red and brown macroalgae. Food Chem 2018; 268:452-462. [PMID: 30064783 DOI: 10.1016/j.foodchem.2018.06.111] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Revised: 06/18/2018] [Accepted: 06/21/2018] [Indexed: 12/26/2022]
Abstract
With the increasing demand for direct human and animal consumption seaweed farming is rapidly expanding worldwide. Macroalgae have colonized aquatic environments in which they are submitted to frequent changes in biotic and abiotic factors that can trigger oxidative stress (OS). Considering that isoprostanoid derivatives may constitute the most relevant OS biomarkers, we were interested to establish their profile in two red and four brown macroalgae. Seven phytoprostanes, three phytofuranes, and four isoprostanes were quantified through a new micro-LC-MS/MS method. The isoprostanoid contents vary greatly among all the samples, the ent-16(RS)-9-epi-ST-Δ14-10-PhytoF and the sum of 5-F2t-IsoP and 5-epi-5F2t-IsoP being the major compounds for most of the macroalgae studied. We further quantified these isoprostanoids in macroalgae submitted to heavy metal (copper) exposure. In most of the cases, their concentrations increased after 24 h of copper stress corroborating the original hypothesis. One exception is the decrease of ent-9-L1-PhytoP content in L. digitata.
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Affiliation(s)
- Claire Vigor
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France.
| | - Guillaume Reversat
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Amandine Rocher
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Camille Oger
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Jean-Marie Galano
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Joseph Vercauteren
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Thierry Durand
- Institut des Biomolécules Max Mousseron IBMM - UMR 5247 - CNRS - UM - ENSCM, Faculté de pharmacie 15, Avenue Charles Flahault, 34060 Montpellier CEDEX 2, France
| | - Thierry Tonon
- Sorbonne Université, CNRS, Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR), 29680 Roscoff, France
| | - Catherine Leblanc
- Sorbonne Université, CNRS, Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR), 29680 Roscoff, France
| | - Philippe Potin
- Sorbonne Université, CNRS, Integrative Biology of Marine Models (LBI2M), Station Biologique de Roscoff (SBR), 29680 Roscoff, France
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Blifernez-Klassen O, Chaudhari S, Klassen V, Wördenweber R, Steffens T, Cholewa D, Niehaus K, Kalinowski J, Kruse O. Metabolic survey of Botryococcus braunii: Impact of the physiological state on product formation. PLoS One 2018; 13:e0198976. [PMID: 29879215 PMCID: PMC5991718 DOI: 10.1371/journal.pone.0198976] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2018] [Accepted: 05/29/2018] [Indexed: 01/24/2023] Open
Abstract
The microalga Botryococcus braunii is widely regarded as a potential renewable and sustainable source for industrial applications because of its capability to produce large amounts of metabolically expensive (exo-) polysaccharides and lipids, notably hydrocarbons. A comprehensive and systematic metabolic characterization of the Botryococcus braunii race A strain CCAP 807/2 was conducted within the present study, including the detailed analysis of growth-associated and physiological parameters. In addition, the intracellular metabolome was profiled for the first time and showed growth- and product-specific fluctuations in response to the different availability of medium resources during the cultivation course. Among the identified metabolites, a constant expression of raffinose was observed for the first time under standard conditions, which has until now only been described for higher plants. Overall, the multilayered analysis during the cultivation of strain CCAP 807/2 allowed the differentiation of four distinct physiological growth phases and revealed differences in the production profiles and content of liquid hydrocarbons and carbohydrates with up to 84% of organic dry weight (oDW). In the process, an enhanced production of carbohydrates with up to 63% of oDW (1.36±0.03 g L-1) could be observed during the late linear growth phase, whereas the highest accumulation of extracellular hydrocarbons with up to 24% of oDW (0.66±0.12 g L-1) occurred mainly during the stationary growth phase. Altogether, the knowledge obtained is potentially useful for the general understanding of the overall physiology of Botryococcus braunii and provide important insights into the growth behavior and product formation of this microalga, and is thus relevant for large scale biofuel production and industrial applications.
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Affiliation(s)
- Olga Blifernez-Klassen
- Bielefeld University, Algae Biotechnology and Bioenergy, Faculty of Biology, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Swapnil Chaudhari
- Bielefeld University, Algae Biotechnology and Bioenergy, Faculty of Biology, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Viktor Klassen
- Bielefeld University, Algae Biotechnology and Bioenergy, Faculty of Biology, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Robin Wördenweber
- Bielefeld University, Algae Biotechnology and Bioenergy, Faculty of Biology, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Tim Steffens
- Bielefeld University, Proteome and Metabolome Research, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Dominik Cholewa
- Bielefeld University, Fermentation Engineering, Faculty of Technology, Universitätsstrasse 25, Bielefeld, Germany
| | - Karsten Niehaus
- Bielefeld University, Proteome and Metabolome Research, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
| | - Jörn Kalinowski
- Bielefeld University, Microbial Genomics and Biotechnology, Center for Biotechnology (CeBiTec), Sequenz 1, Bielefeld, Germany
| | - Olaf Kruse
- Bielefeld University, Algae Biotechnology and Bioenergy, Faculty of Biology, Center for Biotechnology (CeBiTec), Universitätsstrasse 27, Bielefeld, Germany
- * E-mail:
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