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Chen J, Rashid A, Wang S, Liu X, Gao G. Metabolisms and multiple functions of laminaran in marine algae under global change: A critical review. Carbohydr Polym 2024; 327:121652. [PMID: 38171655 DOI: 10.1016/j.carbpol.2023.121652] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 11/12/2023] [Accepted: 11/28/2023] [Indexed: 01/05/2024]
Abstract
Laminaran is a major storage of carbohydrate in marine algae. Its high content and potential functions draw increasing attention. However, our understanding of its metabolisms and functions is still fragmented. After reviewing, marine algae exhibit a spectacular capacity of laminaran accumulation especially in the diatom Odontella aurita (65 % DW). Marine particulate organic carbon (POC) also has high contents of laminaran (42 ± 21 % DW). Laminaran shows a diel variation trend in marine algae, the content of which increases in the day but decreases at night. Laminaran also significantly accumulates in the stationary phase of algal growth. Furthermore, the metabolic pathway of laminaran and the remolding carbon mechanism in response to marine nitrogen limitation are proposed and comprehensively discussed. Laminaran production in marine phytoplankton is predicted to increase in future warmer and CO2-enriched oceans. Laminaran has diverse biological functions, including antioxidant, antimicrobial, anti-cancer, immunomodulatory, wound healing, and prebiotics. In addition, laminaran is also a major carbon storage compound in marine algae, suggesting its significant ecological function in marine carbon cycle. This study provides new insight into algal laminaran functions and its response mechanisms to environmental and climate changes.
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Affiliation(s)
- Jichen Chen
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen 361005, China; Guangdong Provincial Key Laboratory of Marine Biotechnology and Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, College of Sciences, Shantou University, Shantou 515063, China
| | - Azhar Rashid
- Department of Environmental Sciences, The University of Haripur, Haripur 22620, Pakistan
| | - Shuqi Wang
- Guangdong Provincial Key Laboratory of Marine Biotechnology and Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, College of Sciences, Shantou University, Shantou 515063, China
| | - Xiaojuan Liu
- Guangdong Provincial Key Laboratory of Marine Biotechnology and Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, College of Sciences, Shantou University, Shantou 515063, China.
| | - Guang Gao
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen 361005, China.
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2
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Santin A, Russo MT, de Los Ríos LM, Chiurazzi M, d'Alcalà MR, Lacombe B, Ferrante MI, Rogato A. The tonoplast localized protein PtNPF1 participates in the regulation of nitrogen response in diatoms. THE NEW PHYTOLOGIST 2024; 241:1592-1604. [PMID: 38084038 DOI: 10.1111/nph.19461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Accepted: 11/21/2023] [Indexed: 01/26/2024]
Abstract
Diatoms are a highly successful group of phytoplankton, well adapted also to oligotrophic environments and capable of handling nutrient fluctuations in the ocean, particularly nitrate. The presence of a large vacuole is an important trait contributing to their adaptive features. It confers diatoms the ability to accumulate and store nutrients, such as nitrate, when they are abundant outside and then to reallocate them into the cytosol to meet deficiencies, in a process called luxury uptake. The molecular mechanisms that regulate these nitrate fluxes are still not known in diatoms. In this work, we provide new insights into the function of Phaeodactylum tricornutum NPF1, a putative low-affinity nitrate transporter. To accomplish this, we generated overexpressing strains and CRISPR/Cas9 loss-of-function mutants. Microscopy observations confirmed predictions that PtNPF1 is localized on the vacuole membrane. Furthermore, functional characterizations performed on knock-out mutants revealed a transient growth delay phenotype linked to altered nitrate uptake. Together, these results allowed us to hypothesize that PtNPF1 is presumably involved in modulating intracellular nitrogen fluxes, managing intracellular nutrient availability. This ability might allow diatoms to fine-tune the assimilation, storage and reallocation of nitrate, conferring them a strong advantage in oligotrophic environments.
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Affiliation(s)
- Anna Santin
- Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy
| | | | - Laura Morales de Los Ríos
- Institute for Plant Science of Montpellier (IPSiM), University of Montpellier, CNRS, INRAE, Montpellier SupAgro, Place Pierre Viala 2, Montpellier, 34060, France
| | - Maurizio Chiurazzi
- Institute of Biosciences and BioResources, CNR, Via P. Castellino 111, Naples, 80131, Italy
| | | | - Benoît Lacombe
- Institute for Plant Science of Montpellier (IPSiM), University of Montpellier, CNRS, INRAE, Montpellier SupAgro, Place Pierre Viala 2, Montpellier, 34060, France
| | - Maria Immacolata Ferrante
- Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy
- National Institute of Oceanography and Applied Geophysics, Trieste, 34010, Italy
| | - Alessandra Rogato
- Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, 80121, Italy
- Institute of Biosciences and BioResources, CNR, Via P. Castellino 111, Naples, 80131, Italy
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Liu X, Chen J, Du H, Liu Z, Du H, Rashid A, Wang Y, Ma W, Wang S. Resolving the dynamics of chrysolaminarin regulation in a marine diatom: A physiological and transcriptomic study. Int J Biol Macromol 2023; 252:126361. [PMID: 37591430 DOI: 10.1016/j.ijbiomac.2023.126361] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Revised: 08/01/2023] [Accepted: 08/14/2023] [Indexed: 08/19/2023]
Abstract
Diatom containing different active biological macromolecules are thought to be an excellent microbial cell factory. Phaeodactylum tricornutum, a model diatom, is a superb chassis organism accumulating chrysolaminarin with important bioactivities. However, the characteristic of chrysolaminarin accumulation and molecular mechanism of the fluctuated chrysolaminarin in diatom are still unknown. In this study, physiological data and transcriptomic analysis were carried out to clarify the mechanism involved in chrysolaminarin fluctuation. The results showed that chrysolaminarin content fluctuated, from 7.41 % dry weight (DW) to 40.01 % DW during one light/dark cycle, increase by day and decrease by night. The similar fluctuated characteristic was also observed in neutral lipid content. Genes related to the biosynthesis of chrysolaminarin and neutral lipid were up-regulated at the beginning of light-phase, explaining the accumulation of these biological macromolecules. Furthermore, genes involved in carbohydrate degradation, cell cycle, DNA replication and mitochondria-localized β-oxidation were up-regulated at the end of light phase and at the beginning of dark phase hinting an energy transition of carbohydrate to cell division during the dark period. Totally, our findings provide important information for the regulatory mechanism in the diurnal fluctuation of chrysolaminarin. It would also be of great help for the mass production of economical chrysolaminarin in marine diatom.
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Affiliation(s)
- Xiaojuan Liu
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Jichen Chen
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Hong Du
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China.
| | - Zidong Liu
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Hua Du
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Azhar Rashid
- Department of Environmental Sciences, The University of Haripur, Haripur 22620, Pakistan
| | - Yuwen Wang
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Wanying Ma
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
| | - Shuqi Wang
- Guangdong Provincial Key Laboratory of Marine Biotechnology, Guangdong Provincial Key Laboratory of Marine Disaster Prediction and Prevention, STU-UNIVPM Joint Algal Research Center, College of Sciences, Shantou University, Shantou 515063, Guangdong, China
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Gao B, Xu M, Shan D, Zhang C, Yang Y, Dong Z, Zhang H, Han B, Huang L, Zhang C. The genomes of Vischeria oleaginous microalgae shed light on the molecular basis of hyper-accumulation of lipids. BMC Biol 2023; 21:133. [PMID: 37280620 DOI: 10.1186/s12915-023-01618-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2022] [Accepted: 05/09/2023] [Indexed: 06/08/2023] Open
Abstract
BACKGROUND With the urgent need to reduce carbon emissions, and the dwindling reserves of easily exploitable fossil fuel, microalgae-based biofuels that can be used for transport systems and CO2 abatement have attracted great attention worldwide in recent years. One useful characteristic of microalgae is their ability to accumulate high levels of lipid content, in particular under conditions of nitrogen deprivation, with numerous species identified so far. However, a trade-off between levels of lipid accumulation and biomass productivity hinders the commercial applicability of lipids from microalgae. Here, we sequenced the genomes of Vischeria sp. CAUP H4302 and Vischeria stellata SAG 33.83, which can accumulate high content of lipids rich in nutraceutical fatty acids and with excellent biomass yield in nitrogen-limiting culture. RESULTS A whole-genome duplication (WGD) event was revealed in V. sp. CAUP H4302, which is a rare event in unicellular microalgae. Comparative genomic analyses showed that a battery of genes encoding pivotal enzymes involved in fatty acids and triacylglycerol biosynthesis, storage polysaccharide hydrolysis, and nitrogen and amino acid-related metabolisms are expanded in the genus Vischeria or only in V. sp. CAUP H4302. The most highlighted is the expansion of cyanate lyase genes in the genus Vischeria, which may enhance their detoxification ability against the toxic cyanate by decomposing cyanate to NH3 and CO2, especially under nitrogen-limiting conditions, resulting in better growth performance and sustained accumulation of biomass under the aforementioned stress conditions. CONCLUSIONS This study presents a WGD event in microalgae, providing new insights into the genetic and regulatory mechanism underpinning hyper-accumulation of lipids and offering potentially valuable targets for future improvements in oleaginous microalgae by metabolic engineering.
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Affiliation(s)
- Baoyan Gao
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China
| | - Meng Xu
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China
| | - Dai Shan
- BGI Genomics, BGI-Shenzhen, Shenzhen, China
| | - Chi Zhang
- BGI Genomics, BGI-Shenzhen, Shenzhen, China
| | - Yulan Yang
- BGI Genomics, BGI-Shenzhen, Shenzhen, China
| | | | - Hu Zhang
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China
| | - Boping Han
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China.
| | - Luodong Huang
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China.
| | - Chengwu Zhang
- Department of Ecology & Research Center for Hydrobiology, Jinan University, Guangzhou, 510632, China.
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Huang W, Krishnan A, Plett A, Meagher M, Linka N, Wang Y, Ren B, Findinier J, Redekop P, Fakhimi N, Kim RG, Karns DA, Boyle N, Posewitz MC, Grossman AR. Chlamydomonas mutants lacking chloroplast TRIOSE PHOSPHATE TRANSPORTER3 are metabolically compromised and light-sensitive. THE PLANT CELL 2023:koad095. [PMID: 36970811 DOI: 10.1093/plcell/koad095] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Revised: 03/08/2023] [Accepted: 03/23/2023] [Indexed: 06/18/2023]
Abstract
Modulation of photoassimilate export from the chloroplast is essential for controlling the distribution of fixed carbon in the cell and maintaining optimum photosynthetic rates. In this study we identified chloroplast TRIOSE PHOSPHATE/PHOSPHATE TRANSLOCATOR2 (CreTPT2) and CreTPT3 in the green alga Chlamydomonas (Chlamydomonas reinhardtii), which exhibit similar substrate specificities but whose encoding genes are differentially expressed over the diurnal cycle. We focused mostly on CreTPT3 because of its high level of expression and the severe phenotype exhibited by tpt3 relative to tpt2 mutants. Null mutants for CreTPT3 had a pleiotropic phenotype that affected growth, photosynthetic activities, metabolite profiles, carbon partitioning, and organelle-specific accumulation of H2O2. These analyses demonstrated that CreTPT3 is a dominant conduit on the chloroplast envelope for the transport of photoassimilates. In addition, CreTPT3 can serve as a safety valve that moves excess reductant out of the chloroplast and appears to be essential for preventing cells from experiencing oxidative stress and accumulating reactive oxygen species, even under low/moderate light intensities. Finally, our studies indicate subfunctionalization of the CreTPT transporters and suggest that there are differences in managing the export of photoassimilates from the chloroplasts of Chlamydomonas and vascular plants.
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Affiliation(s)
- Weichao Huang
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Anagha Krishnan
- Department of Chemistry, Colorado School of Mines, Golden, CO 80401, USA
| | - Anastasija Plett
- Institute of Plant Biochemistry, Heinrich-Heine University Düsseldorf, 40225 Düsseldorf, Germany
| | - Michelle Meagher
- Department of Chemical and Biological Engineering, Colorado School of Mines, Golden, CO 80401, USA
| | - Nicole Linka
- Institute of Plant Biochemistry, Heinrich-Heine University Düsseldorf, 40225 Düsseldorf, Germany
| | - Yongsheng Wang
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
- School of Life Sciences, Tsinghua University, 100084 Beijing, China
| | - Bijie Ren
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Justin Findinier
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Petra Redekop
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Neda Fakhimi
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Rick G Kim
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Devin A Karns
- Department of Chemistry, Colorado School of Mines, Golden, CO 80401, USA
| | - Nanette Boyle
- Department of Chemical and Biological Engineering, Colorado School of Mines, Golden, CO 80401, USA
| | - Matthew C Posewitz
- Department of Chemistry, Colorado School of Mines, Golden, CO 80401, USA
| | - Arthur R Grossman
- Department of Plant Biology, Carnegie Institution for Science, Stanford, CA 94305, USA
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Pérez-Morales A, Martínez-López A, Olivos-Ortíz A, Álvarez-González CA. The N:Chl-a ratio defines the optimal physiological state in marine microalgae. ALGAL RES 2023. [DOI: 10.1016/j.algal.2023.103077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/31/2023]
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7
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Silencing 1,3-β-glucan synthase gene promotes total lipid production and changes fatty acids composition by affecting carbon flow distribution in Phaeodactylum tricornutum. ALGAL RES 2022. [DOI: 10.1016/j.algal.2022.102827] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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8
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Yu G, Nakajima K, Gruber A, Rio Bartulos C, Schober AF, Lepetit B, Yohannes E, Matsuda Y, Kroth PG. Mitochondrial phosphoenolpyruvate carboxylase contributes to carbon fixation in the diatom Phaeodactylum tricornutum at low inorganic carbon concentrations. THE NEW PHYTOLOGIST 2022; 235:1379-1393. [PMID: 35596716 DOI: 10.1111/nph.18268] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Accepted: 04/21/2022] [Indexed: 06/15/2023]
Abstract
Photosynthetic carbon fixation is often limited by CO2 availability, which led to the evolution of CO2 concentrating mechanisms (CCMs). Some diatoms possess CCMs that employ biochemical fixation of bicarbonate, similar to C4 plants, but whether biochemical CCMs are commonly found in diatoms is a subject of debate. In the diatom Phaeodactylum tricornutum, phosphoenolpyruvate carboxylase (PEPC) is present in two isoforms, PEPC1 in the plastids and PEPC2 in the mitochondria. We used real-time quantitative polymerase chain reaction, Western blots, and enzymatic assays to examine PEPC expression and PEPC activity, under low and high concentrations of dissolved inorganic carbon (DIC). We generated and analyzed individual knockout cell lines of PEPC1 and PEPC2, as well as a PEPC1/2 double-knockout strain. While we could not detect an altered phenotype in the PEPC1 knockout strains at ambient, low or high DIC concentrations, PEPC2 and the double-knockout strains grown under ambient air or lower DIC availability conditions showed reduced growth and photosynthetic affinity for DIC while behaving similarly to wild-type (WT) cells at high DIC concentrations. These mutants furthermore exhibited significantly lower 13 C/12 C ratios compared to the WT. Our data imply that in P. tricornutum at least parts of the CCM rely on biochemical bicarbonate fixation catalyzed by the mitochondrial PEPC2.
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Affiliation(s)
- Guilan Yu
- Fachbereich Biologie, Universität Konstanz, 78457, Konstanz, Germany
| | - Kensuke Nakajima
- Department of Bioscience, School of Biological and Environmental Sciences, 1 Gakuen Uegahara, Sanda, Hyogo, 669-1330, Japan
| | - Ansgar Gruber
- Fachbereich Biologie, Universität Konstanz, 78457, Konstanz, Germany
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, 370 05, České Budějovice, Czech Republic
| | | | | | - Bernard Lepetit
- Fachbereich Biologie, Universität Konstanz, 78457, Konstanz, Germany
| | | | - Yusuke Matsuda
- Department of Bioscience, School of Biological and Environmental Sciences, 1 Gakuen Uegahara, Sanda, Hyogo, 669-1330, Japan
| | - Peter G Kroth
- Fachbereich Biologie, Universität Konstanz, 78457, Konstanz, Germany
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Yang YF, Li DW, Balamurugan S, Wang X, Yang WD, Li HY. Chrysolaminarin biosynthesis in the diatom is enhanced by overexpression of 1,6-β-transglycosylase. ALGAL RES 2022. [DOI: 10.1016/j.algal.2022.102817] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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10
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Wang Y, Liu T, Ma C, Li G, Wang X, Wang J, Chang J, Guan C, Yao H, Dong X. Carbohydrate regulation response to cold during rhizome bud dormancy release in Polygonatum kingianum. BMC PLANT BIOLOGY 2022; 22:163. [PMID: 35365083 PMCID: PMC8973533 DOI: 10.1186/s12870-022-03558-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/20/2021] [Accepted: 03/21/2022] [Indexed: 06/14/2023]
Abstract
BACKGROUND The rhizome of Polygonatum kingianum Coll. et Hemsl (P. kingianum) is a crucial traditional Chinese medicine, but severe bud dormancy occurs during early rhizome development. Low temperature is a positive factor affecting dormancy release, whereas the variation in carbohydrates during dormancy release has not been investigated systematically. Therefore, the sugar content, related metabolic pathways and gene co-expression were analysed to elucidate the regulatory mechanism of carbohydrates during dormancy release in the P. kingianum rhizome bud. RESULTS During dormancy transition, starch and sucrose (Suc) exhibited opposing trends in the P. kingianum rhizome bud, representing a critical indicator of dormancy release. Galactose (Gal) and raffinose (Raf) were increased in content and synthesis. Glucose (Glc), cellulose (Cel), mannose (Man), arabinose (Ara), rhamnose (Rha) and stachyose (Sta) showed various changes, indicating their different roles in breaking rhizome bud dormancy in P. kingianum. At the beginning of dormancy release, Glc metabolism may be dominated by anaerobic oxidation (glycolysis followed by ethanol fermentation). After entering the S3 stage, the tricarboxylic acid cycle (TCA) and pentose phosphate pathway (PPP) were may be more active possibly. In the gene co-expression network comprising carbohydrates and hormones, HYD1 was identified as a hub gene, and numerous interactions centred on STS/SUS were also observed, suggesting the essential role of brassinosteroids (BRs), Raf and Suc in the regulatory network. CONCLUSION We revealed cold-responsive genes related to carbohydrate metabolism, suggesting regulatory mechanisms of sugar during dormancy release in the P. kingianum rhizome bud. Additionally, gene co-expression analysis revealed possible interactions between sugar and hormone signalling, providing new insight into the dormancy release mechanism in P. kingianum rhizome buds.
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Affiliation(s)
- Yue Wang
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
- Key Laboratory of East China Urban Agriculture, Ministry of Agriculture and Rural Affairs, Jinan, Shandong, China
| | - Tao Liu
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
- Key Laboratory of East China Urban Agriculture, Ministry of Agriculture and Rural Affairs, Jinan, Shandong, China
| | - Changjian Ma
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
| | - Guoqing Li
- Tai'an Academy of Agricultural Science, Taian, Shandong, China
| | - Xinhong Wang
- Shan Dong Agriculture and Engineering University, Jinan, Shandong, China
| | - Jianghui Wang
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
- Key Laboratory of East China Urban Agriculture, Ministry of Agriculture and Rural Affairs, Jinan, Shandong, China
| | - Jin Chang
- Tai'an Academy of Forestry Sciences, Taian, Shandong, China
| | - Cong Guan
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China
- Key Laboratory of East China Urban Agriculture, Ministry of Agriculture and Rural Affairs, Jinan, Shandong, China
| | - Huimin Yao
- Shandong Academy of Agricultural Sciences, Jinan, Shandong, China.
| | - Xuehui Dong
- China Agricultural University, Beijing, China.
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11
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Wang Z, Sun X, Ru S, Wang J, Xiong J, Yang L, Hao L, Zhang J, Zhang X. Effects of co-exposure of the triazine herbicides atrazine, prometryn and terbutryn on Phaeodactylum tricornutum photosynthesis and nutritional value. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 807:150609. [PMID: 34619212 DOI: 10.1016/j.scitotenv.2021.150609] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 09/04/2021] [Accepted: 09/22/2021] [Indexed: 06/13/2023]
Abstract
Triazine herbicides are widely used in agricultural production, and large amounts of herbicide residue enter the ocean through surface runoff. In this study, the toxicities of the triazine herbicides atrazine, prometryn and terbutryn (separately and mixed) to Phaeodactylum tricornutum were investigated. The EC50 values of atrazine, prometryn and terbutryn were 28.38 μg L-1, 8.86 μg L-1, and 1.38 μg L-1, respectively. The EC50 of an equitoxic mixture of the three herbicides was 0.78 TU, indicating that they had synergistic effects. The equitoxic mixture accumulated in P. tricornutum, which damaged chloroplast and mitochondria structures and significantly decrease the biomass, levels of key cellular components (such as chlorophyll a (chl a), carbon (C) and nitrogen (N) content, fatty acid content) and the effective photochemical quantum yield of photosystem II (PSII, ∆Fv/Fm). The mixture also downregulated key genes in the light response (PsbD, PetF), dark response (PGK, PRK), tricarboxylic acid (TCA) cycle (CS, ID, OGD, and MS) and fatty acid synthesis (FABB, SCD, and PTD9). P. tricornutum partially alleviates the effects of the mixture on photosynthesis and fatty acid synthesis by upregulating PetD, PsaB, RbcL and FabI expression. The triazine herbicide mixture reduced the biomass and nutritional value of marine phytoplankton by inhibiting photosynthesis and energy metabolism.
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Affiliation(s)
- Zengyuan Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Xiaojie Sun
- Key Laboratory of Testing and Evaluation for Aquatic Product Safety and Quality, Ministry of Agriculture and Rural Affairs; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, PR China.
| | - Shaoguo Ru
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Jun Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Jiuqiang Xiong
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Liqiang Yang
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Liping Hao
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Jie Zhang
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
| | - Xiaona Zhang
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China.
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12
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Kassaw TK, Paton AJ, Peers G. Episome-Based Gene Expression Modulation Platform in the Model Diatom Phaeodactylum tricornutum. ACS Synth Biol 2022; 11:191-204. [PMID: 35015507 DOI: 10.1021/acssynbio.1c00367] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
Chemically inducible gene expression systems have been an integral part of the advanced synthetic genetic circuit design and are employed for precise dynamic control over genetically engineered traits. However, the current systems for controlling transgene expression in most algae are limited to endogenous promoters that respond to different environmental factors. We developed a highly efficient, tunable, and reversible episome-based transcriptional control system in the model diatom alga, Phaeodactylum tricornutum. We assessed the time- and dose-response dynamics of each expression system using a reporter protein (eYFP) as a readout. Using our circuit configuration, we found two inducible expression systems with a high dynamic range and confirmed the suitability of an episome expression platform for synthetic biological applications in diatoms. These systems are controlled by the presence of β-estradiol and digoxin. Addition of either chemical to transgenic strains activates transcription with a dynamic range of up to ∼180-fold and ∼90-fold, respectively. We demonstrated that our episome-based transcriptional control systems are tunable and reversible in a dose- and time-dependent manner. Using droplet digital polymerase chain reaction (PCR), we also confirmed that inducer-dependent transcriptional activation starts within minutes of inducer application without any detectable transcript in the uninduced controls. The system described here expands the molecular and synthetic biology toolkits in algae and will facilitate future gene discovery and metabolic engineering efforts.
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Affiliation(s)
- Tessema K. Kassaw
- Department of Biology, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Andrew J. Paton
- Department of Biology, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Graham Peers
- Department of Biology, Colorado State University, Fort Collins, Colorado 80523, United States
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Chen J, Yang J, Du H, Aslam M, Wang W, Chen W, Li T, Liu Z, Liu X. Laminarin, a Major Polysaccharide in Stramenopiles. Mar Drugs 2021; 19:576. [PMID: 34677475 PMCID: PMC8541152 DOI: 10.3390/md19100576] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2021] [Revised: 10/11/2021] [Accepted: 10/11/2021] [Indexed: 01/09/2023] Open
Abstract
During the processes of primary and secondary endosymbiosis, different microalgae evolved to synthesis different storage polysaccharides. In stramenopiles, the main storage polysaccharides are β-1,3-glucan, or laminarin, in vacuoles. Currently, laminarin is gaining considerable attention due to its application in the food, cosmetic and pharmaceuticals industries, and also its importance in global biogeochemical cycles (especially in the ocean carbon cycle). In this review, the structures, composition, contents, and bioactivity of laminarin were summarized in different algae. It was shown that the general features of laminarin are species-dependence. Furthermore, the proposed biosynthesis and catabolism pathways of laminarin, functions of key genes, and diel regulation of laminarin were also depicted and comprehensively discussed for the first time. However, the complete pathways, functions of genes, and diel regulatory mechanisms of laminarin require more biomolecular studies. This review provides more useful information and identifies the knowledge gap regarding the future studies of laminarin and its applications.
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Affiliation(s)
- Jichen Chen
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Jianchao Yang
- Yantai Academy of Agricultural Sciences, Yantai 265500, China;
| | - Hong Du
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Muhmmad Aslam
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Wanna Wang
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Weizhou Chen
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Tangcheng Li
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
| | - Zhengyi Liu
- Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, China;
| | - Xiaojuan Liu
- Guangdong Provincial Key Laboratory of Marine Biotechnology, STU-UNIVPM Joint Algal Research Center, Institute of Marine Sciences, Shantou University, Shantou 515063, China; (J.C.); (H.D.); (M.A.); (W.W.); (W.C.); (T.L.)
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 510000, China
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CRISPR/Cas9 disruption of glucan synthase in Nannochloropsis gaditana attenuates accumulation of β-1,3-glucose oligomers. ALGAL RES 2021. [DOI: 10.1016/j.algal.2021.102385] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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15
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Marella TK, Bhattacharjya R, Tiwari A. Impact of organic carbon acquisition on growth and functional biomolecule production in diatoms. Microb Cell Fact 2021; 20:135. [PMID: 34266439 PMCID: PMC8281487 DOI: 10.1186/s12934-021-01627-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 07/03/2021] [Indexed: 02/01/2023] Open
Abstract
Diatoms are unicellular photosynthetic protists which constitute one of the most successful microalgae contributing enormously to global primary productivity and nutrient cycles in marine and freshwater habitats. Though they possess the ability to biosynthesize high value compounds like eicosatetraenoic acid (EPA), fucoxanthin (Fx) and chrysolaminarin (Chrl) the major bottle neck in commercialization is their inability to attain high density growth. However, their unique potential of acquiring diverse carbon sources via varied mechanisms enables them to adapt and grow under phototrophic, mixotrophic as well as heterotrophic modes. Growth on organic carbon substrates promotes higher biomass, lipid, and carbohydrate productivity, which further triggers the yield of various biomolecules. Since, the current mass culture practices primarily employ open pond and tubular photobioreactors for phototrophic growth, they become cost intensive and economically non-viable. Therefore, in this review we attempt to explore and compare the mechanisms involved in organic carbon acquisition in diatoms and its implications on mixotrophic and heterotrophic growth and biomolecule production and validate how these strategies could pave a way for future exploration and establishment of sustainable diatom biorefineries for novel biomolecules.
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Affiliation(s)
- Thomas Kiran Marella
- Algae Biomass and Energy System R&D Center (ABES), University of Tsukuba, Tennodai 1-1-1, Tsukuba, Ibaraki, 305-8572, Japan
| | - Raya Bhattacharjya
- Diatom Research Laboratory, Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, India
| | - Archana Tiwari
- Diatom Research Laboratory, Amity Institute of Biotechnology, Amity University, Noida, Uttar Pradesh, India.
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16
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Lovio-Fragoso JP, de Jesús-Campos D, López-Elías JA, Medina-Juárez LÁ, Fimbres-Olivarría D, Hayano-Kanashiro C. Biochemical and Molecular Aspects of Phosphorus Limitation in Diatoms and Their Relationship with Biomolecule Accumulation. BIOLOGY 2021; 10:biology10070565. [PMID: 34206287 PMCID: PMC8301168 DOI: 10.3390/biology10070565] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Revised: 05/31/2021] [Accepted: 06/09/2021] [Indexed: 11/24/2022]
Abstract
Simple Summary Phosphorus (P) is a key nutrient involved in the transfer of energy and the synthesis of several cellular components. It has been reported that P limitation in diatoms induces the synthesis of biomolecules and the accumulation of storage compounds, such as pigments, carbohydrates and lipids, with diverse biological activities, which can be used in diverse biotechnological applications. However, the molecular and biochemical mechanisms related to how diatoms cope with P deficiency are not clear, and research into this has been limited to a few species. The integration of results obtained from omics sciences could provide a broad understanding of the response of diatoms to P limitation, and the information obtained could help to solve challenges such as biomass production, by-products yield and genetic improvement of strains. Abstract Diatoms are the most abundant group of phytoplankton, and their success lies in their significant adaptation ability to stress conditions, such as nutrient limitation. Phosphorus (P) is a key nutrient involved in the transfer of energy and the synthesis of several cellular components. Molecular and biochemical mechanisms related to how diatoms cope with P deficiency are not clear, and research into this has been limited to a few species. Among the molecular responses that have been reported in diatoms cultured under P deficient conditions is the upregulation of genes encoding enzymes related to the transport, assimilation, remobilization and recycling of this nutrient. Regarding biochemical responses, due to the reduction of the requirements for carbon structures for the synthesis of proteins and phospholipids, more CO2 is fixed than is consumed by the Calvin cycle. To deal with this excess, diatoms redirect the carbon flow toward the synthesis of storage compounds such as triacylglycerides and carbohydrates, which are excreted as extracellular polymeric substances. This review aimed to gather all current knowledge regarding the biochemical and molecular mechanisms of diatoms related to managing P deficiency in order to provide a wider insight into and understanding of their responses, as well as the metabolic pathways affected by the limitation of this nutrient.
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Chabi M, Leleu M, Fermont L, Colpaert M, Colleoni C, Ball SG, Cenci U. Retracing Storage Polysaccharide Evolution in Stramenopila. FRONTIERS IN PLANT SCIENCE 2021; 12:629045. [PMID: 33747010 PMCID: PMC7965971 DOI: 10.3389/fpls.2021.629045] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Accepted: 01/18/2021] [Indexed: 05/10/2023]
Abstract
Eukaryotes most often synthesize storage polysaccharides in the cytosol or vacuoles in the form of either alpha (glycogen/starch)- or beta-glucosidic (chrysolaminarins and paramylon) linked glucan polymers. In both cases, the glucose can be packed either in water-soluble (glycogen and chrysolaminarins) or solid crystalline (starch and paramylon) forms with different impacts, respectively, on the osmotic pressure, the glucose accessibility, and the amounts stored. Glycogen or starch accumulation appears universal in all free-living unikonts (metazoa, fungi, amoebozoa, etc.), as well as Archaeplastida and alveolata, while other lineages offer a more complex picture featuring both alpha- and beta-glucan accumulators. We now infer the distribution of these polymers in stramenopiles through the bioinformatic detection of their suspected metabolic pathways. Detailed phylogenetic analysis of key enzymes of these pathways correlated to the phylogeny of Stramenopila enables us to retrace the evolution of storage polysaccharide metabolism in this diverse group of organisms. The possible ancestral nature of glycogen metabolism in eukaryotes and the underlying source of its replacement by beta-glucans are discussed.
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Affiliation(s)
- Malika Chabi
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
| | - Marie Leleu
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
- InBioS-PhytoSYSTEMS, Eukaryotic Phylogenomics, University of Liège, Liège, Belgium
| | - Léa Fermont
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
| | - Matthieu Colpaert
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
| | - Christophe Colleoni
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
| | - Steven G. Ball
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
| | - Ugo Cenci
- Univ. Lille, CNRS, UMR 8576—UGSF—Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
- *Correspondence: Ugo Cenci,
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18
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Launay H, Huang W, Maberly SC, Gontero B. Regulation of Carbon Metabolism by Environmental Conditions: A Perspective From Diatoms and Other Chromalveolates. FRONTIERS IN PLANT SCIENCE 2020; 11:1033. [PMID: 32765548 PMCID: PMC7378808 DOI: 10.3389/fpls.2020.01033] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 06/23/2020] [Indexed: 05/08/2023]
Abstract
Diatoms belong to a major, diverse and species-rich eukaryotic clade, the Heterokonta, within the polyphyletic chromalveolates. They evolved as a result of secondary endosymbiosis with one or more Plantae ancestors, but their precise evolutionary history is enigmatic. Nevertheless, this has conferred them with unique structural and biochemical properties that have allowed them to flourish in a wide range of different environments and cope with highly variable conditions. We review the effect of pH, light and dark, and CO2 concentration on the regulation of carbon uptake and assimilation. We discuss the regulation of the Calvin-Benson-Bassham cycle, glycolysis, lipid synthesis, and carbohydrate synthesis at the level of gene transcripts (transcriptomics), proteins (proteomics) and enzyme activity. In contrast to Viridiplantae where redox regulation of metabolic enzymes is important, it appears to be less common in diatoms, based on the current evidence, but regulation at the transcriptional level seems to be widespread. The role of post-translational modifications such as phosphorylation, glutathionylation, etc., and of protein-protein interactions, has been overlooked and should be investigated further. Diatoms and other chromalveolates are understudied compared to the Viridiplantae, especially given their ecological importance, but we believe that the ever-growing number of sequenced genomes combined with proteomics, metabolomics, enzyme measurements, and the application of novel techniques will provide a better understanding of how this important group of algae maintain their productivity under changing conditions.
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Affiliation(s)
- Hélène Launay
- BIP, Aix Marseille Univ CNRS, BIP UMR 7281, Marseille, France
| | - Wenmin Huang
- BIP, Aix Marseille Univ CNRS, BIP UMR 7281, Marseille, France
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Center of Plant Ecology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, China
| | - Stephen C. Maberly
- UK Centre for Ecology & Hydrology, Lake Ecosystems Group, Lancaster Environment Centre, Lancaster, United Kingdom
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19
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Heo JB, Lee YS, Chung CH. Toward Sustainable Hydroxymethylfurfural Production Using Seaweeds. Trends Biotechnol 2020; 38:487-496. [DOI: 10.1016/j.tibtech.2020.01.010] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2019] [Revised: 01/28/2020] [Accepted: 01/29/2020] [Indexed: 12/21/2022]
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20
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Škodová-Sveráková I, Prokopchuk G, Peña-Diaz P, Záhonová K, Moos M, Horváth A, Šimek P, Lukeš J. Unique Dynamics of Paramylon Storage in the Marine Euglenozoan Diplonema papillatum. Protist 2020; 171:125717. [PMID: 32087573 DOI: 10.1016/j.protis.2020.125717] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2019] [Revised: 01/07/2020] [Accepted: 02/02/2020] [Indexed: 10/25/2022]
Abstract
Diplonemids belong to the most diverse and abundant marine protists, which places them among the key players of the oceanic ecosystem. Under in vitro conditions, their best-known representative Diplonema papillatum accumulates in its cytoplasm a crystalline polymer. When grown under the nutrient-poor conditions, but not nutrient-rich conditions, D. papillatum synthesizes a β-1,3-glucan polymer, also known as paramylon. This phenomenon is unexpected, as it is in striking contrast to the accumulation of paramylon in euglenids, since these related flagellates synthesize this polymer solely under nutrient-rich conditions. The capacity of D. papillatum to store an energy source in the form of polysaccharides when the environment is poor in nutrients is unexpected and may contribute to the wide distribution of these protists in the ocean.
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Affiliation(s)
- Ingrid Škodová-Sveráková
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic; Faculty of Natural Sciences, Comenius University, Bratislava, Slovakia
| | - Galina Prokopchuk
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic
| | - Priscila Peña-Diaz
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic; Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic
| | - Kristína Záhonová
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic; Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic
| | - Martin Moos
- Institute of Entomology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic
| | - Anton Horváth
- Faculty of Natural Sciences, Comenius University, Bratislava, Slovakia
| | - Petr Šimek
- Institute of Entomology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic
| | - Julius Lukeš
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice (Budweis), Czech Republic; Faculty of Sciences, University of South Bohemia, České Budějovice (Budweis), Czech Republic.
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21
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Falciatore A, Jaubert M, Bouly JP, Bailleul B, Mock T. Diatom Molecular Research Comes of Age: Model Species for Studying Phytoplankton Biology and Diversity. THE PLANT CELL 2020; 32:547-572. [PMID: 31852772 PMCID: PMC7054031 DOI: 10.1105/tpc.19.00158] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2019] [Revised: 10/18/2019] [Accepted: 12/13/2019] [Indexed: 05/08/2023]
Abstract
Diatoms are the world's most diverse group of algae, comprising at least 100,000 species. Contributing ∼20% of annual global carbon fixation, they underpin major aquatic food webs and drive global biogeochemical cycles. Over the past two decades, Thalassiosira pseudonana and Phaeodactylum tricornutum have become the most important model systems for diatom molecular research, ranging from cell biology to ecophysiology, due to their rapid growth rates, small genomes, and the cumulative wealth of associated genetic resources. To explore the evolutionary divergence of diatoms, additional model species are emerging, such as Fragilariopsis cylindrus and Pseudo-nitzschia multistriata Here, we describe how functional genomics and reverse genetics have contributed to our understanding of this important class of microalgae in the context of evolution, cell biology, and metabolic adaptations. Our review will also highlight promising areas of investigation into the diversity of these photosynthetic organisms, including the discovery of new molecular pathways governing the life of secondary plastid-bearing organisms in aquatic environments.
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Affiliation(s)
- Angela Falciatore
- Institut de Biologie Physico-Chimique, Laboratory of Chloroplast Biology and Light Sensing in Microalgae, UMR7141 Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, 75005 Paris, France
- Institut de Biologie Paris-Seine, Laboratory of Computational and Quantitative Biology, UMR7238 Sorbonne Université, 75005 Paris, France
| | - Marianne Jaubert
- Institut de Biologie Physico-Chimique, Laboratory of Chloroplast Biology and Light Sensing in Microalgae, UMR7141 Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, 75005 Paris, France
- Institut de Biologie Paris-Seine, Laboratory of Computational and Quantitative Biology, UMR7238 Sorbonne Université, 75005 Paris, France
| | - Jean-Pierre Bouly
- Institut de Biologie Physico-Chimique, Laboratory of Chloroplast Biology and Light Sensing in Microalgae, UMR7141 Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, 75005 Paris, France
- Institut de Biologie Paris-Seine, Laboratory of Computational and Quantitative Biology, UMR7238 Sorbonne Université, 75005 Paris, France
| | - Benjamin Bailleul
- Institut de Biologie Physico-Chimique, Laboratory of Chloroplast Biology and Light Sensing in Microalgae, UMR7141 Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, 75005 Paris, France
| | - Thomas Mock
- School of Environmental Sciences, University of East Anglia, Norwich Research Park, Norwich NR4 7TJ, United Kingdom
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Substrate specificity of plastid phosphate transporters in a non-photosynthetic diatom and its implication in evolution of red alga-derived complex plastids. Sci Rep 2020; 10:1167. [PMID: 31980711 PMCID: PMC6981301 DOI: 10.1038/s41598-020-58082-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Accepted: 01/07/2020] [Indexed: 02/07/2023] Open
Abstract
The triose phosphate transporter (TPT) is one of the prerequisites to exchange metabolites between the cytosol and plastids. In this study, we demonstrated that the four plastid TPT homologues in the non-photosynthetic diatom Nitzschia sp. NIES-3581 were highly likely integrated into plastid envelope membranes similar to counterparts in the model photosynthetic diatom Phaeodactylum tricornutum, in terms of target membranes and C-terminal orientations. Three of the four Nitzschia TPT homologues are capable of transporting various metabolites into proteo-liposomes including triose phosphates (TPs) and phosphoenolpyruvate (PEP), the transport substrates sufficient to support the metabolic pathways retained in the non-photosynthetic diatom plastid. Phylogenetic analysis of TPTs and closely related transporter proteins indicated that diatoms and other algae with red alga-derived complex plastids possess only TPT homologues but lack homologues of the glucose 6-phosphate transporter (GPT), xylulose 5-phosphate transporter (XPT), and phosphoenolpyruvate transporter (PPT). Comparative sequence analysis suggests that many TPT homologues of red alga-derived complex plastids potentially have the ability to transport mainly TPs and PEP. TPTs transporting both TPs and PEP highly likely mediate a metabolic crosstalk between a red alga-derived complex plastid and the cytosol in photosynthetic and non-photosynthetic species, which explains the lack of PPTs in all the lineages with red alga-derived complex plastids. The PEP-transporting TPTs might have emerged in an early phase of endosymbiosis between a red alga and a eukaryote host, given the broad distribution of that type of transporters in all branches of red alga-derived complex plastid-bearing lineages, and have probably played a key role in the establishment and retention of a controllable, intracellular metabolic connection in those organisms.
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Butler T, Kapoore RV, Vaidyanathan S. Phaeodactylum tricornutum: A Diatom Cell Factory. Trends Biotechnol 2020; 38:606-622. [PMID: 31980300 DOI: 10.1016/j.tibtech.2019.12.023] [Citation(s) in RCA: 88] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2019] [Revised: 12/17/2019] [Accepted: 12/18/2019] [Indexed: 01/12/2023]
Abstract
A switch from a petroleum-based to a biobased economy requires the capacity to produce both high-value low-volume and low-value high-volume products. Recent evidence supports the development of microalgae-based microbial cell factories with the objective of establishing environmentally sustainable manufacturing solutions. Diatoms display rich diversity and potential in this regard. We focus on Phaeodactylum tricornutum, a pennate diatom that is commonly found in marine ecosystems, and discuss recent trends in developing the diatom chassis for the production of a suite of natural and genetically engineered products. Both upstream and downstream developments are reviewed for the commercial development of P. tricornutum as a cell factory for a spectrum of marketable products.
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Affiliation(s)
- Thomas Butler
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, S1 3JD, UK
| | - Rahul Vijay Kapoore
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, S1 3JD, UK; Present address: Department of Biosciences, College of Science, Swansea University, Swansea, SA2 8PP, UK
| | - Seetharaman Vaidyanathan
- Department of Chemical and Biological Engineering, The University of Sheffield, Sheffield, S1 3JD, UK.
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You W, Wei L, Gong Y, Hajjami ME, Xu J, Poetsch A. Integration of proteome and transcriptome refines key molecular processes underlying oil production in Nannochloropsis oceanica. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:109. [PMID: 32565907 PMCID: PMC7302151 DOI: 10.1186/s13068-020-01748-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Accepted: 06/08/2020] [Indexed: 05/03/2023]
Abstract
BACKGROUND Under nitrogen deficiency situation, Nannochloropsis spp. accumulate large amounts of lipids in the form of triacylglycerides (TAG). Mechanisms of this process from the perspective of transcriptome and metabolome have been obtained previously, yet proteome analysis is still sparse which hinders the analysis of dynamic adaption to nitrogen deficiency. Here, proteomes for 3 h, 6 h, 12 h, 24 h, 48 h and 10th day of nitrogen deplete (N-) and replete (N+) conditions were obtained and integrated with previous transcriptome data for N. oceanica. RESULTS Physiological adaptations to N- not apparent from transcriptome data were unveiled: (a) abundance of proteins related to photosynthesis only slightly decreased in the first 48 h, indicating that photosynthesis is still working efficiently, and protein amounts adjust gradually with reduction in chloroplast size. (b) Most proteins related to the TCA cycle were strongly upregulated after 48 h under N-, suggesting that respiration is enhanced after 48 h and that TCA cycle efflux supports the carbon required for lipid synthesis. (c) Proteins related to lipid accumulation via the Kennedy pathway increased their abundance at 48 h, synchronous with the previously reported diversification of fatty acids after 48 h. CONCLUSIONS This study adds a proteome perspective on the major pathways for TAG accumulation in Nannochloropsis spp. Temporal changes of proteome exhibited distinct adaptation phases that are usually delayed relative to transcriptomic responses. Notably, proteome data revealed that photosynthesis and carbon fixation are still ongoing even after 48 h of N-. Moreover, sometimes completely opposite trends in proteome and transcriptome demonstrate the relevance of underexplored post-transcriptional regulation for N- adaptation.
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Affiliation(s)
- Wuxin You
- Single-Cell Center CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- Department of Plant Biochemistry, Ruhr University Bochum, Bochum, Germany
| | - Li Wei
- Single-Cell Center CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Science, Beijing, China
| | - Yanhai Gong
- Single-Cell Center CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Science, Beijing, China
| | - Mohamed El Hajjami
- Department of Plant Biochemistry, Ruhr University Bochum, Bochum, Germany
| | - Jian Xu
- Single-Cell Center CAS Key Laboratory of Biofuels and Shandong Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong China
- University of Chinese Academy of Science, Beijing, China
| | - Ansgar Poetsch
- Department of Plant Biochemistry, Ruhr University Bochum, Bochum, Germany
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237 China
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003 China
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Jensen EL, Yangüez K, Carrière F, Gontero B. Storage Compound Accumulation in Diatoms as Response to Elevated CO 2 Concentration. BIOLOGY 2019; 9:E5. [PMID: 31878202 PMCID: PMC7169399 DOI: 10.3390/biology9010005] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 12/19/2019] [Accepted: 12/21/2019] [Indexed: 11/23/2022]
Abstract
Accumulation of reserve compounds (i.e., lipids and chrysolaminarin) in diatoms depends on the environmental conditions, and is often triggered by stress conditions, such as nutrient limitation. Manipulation of CO2 supply can also be used to improve both lipids and carbohydrates accumulation. Given the high diversity among diatoms, we studied the two marine model diatoms-Thalassiosira pseudonana and Phaeodactylum tricornutum, a freshwater diatom, Asterionella formosa, and Navicula pelliculosa-found in fresh- and sea-water environments. We measured the accumulation of reserve compounds and the activity of enzymes involved in carbon metabolism in these diatoms grown at high and atmospheric CO2. We observed that biomass and lipid accumulation in cells grown at high CO2 differ among the diatoms. Lipid accumulation increased only in P. tricornutum and N. pelliculosa grown in seawater in response to elevated CO2. Moreover, accumulation of lipids was also accompanied by an increased activity of the enzymes tested. However, lipid accumulation and enzyme activity decreased in N. pelliculosa cultured in fresh water. Chrysolaminarin accumulation was also affected by CO2 concentration; however, there was no clear relation with lipids accumulation. Our results are relevant to understand better the ecological role of the environment in the diatom adaptation to CO2 and the mechanisms underpinning the production of storage compounds considering diatom diversity.
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Affiliation(s)
| | | | | | - Brigitte Gontero
- CNRS, BIP, UMR 7281, IMM, FR3479, 31 Chemin J. Aiguier, Aix Marseille Univ., 13 402 Marseille CEDEX 20, France; (E.L.J.); (K.Y.); (F.C.)
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Gruber A, Haferkamp I. Nucleotide Transport and Metabolism in Diatoms. Biomolecules 2019; 9:E761. [PMID: 31766535 PMCID: PMC6995639 DOI: 10.3390/biom9120761] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Revised: 11/11/2019] [Accepted: 11/18/2019] [Indexed: 01/01/2023] Open
Abstract
Plastids, organelles that evolved from cyanobacteria via endosymbiosis in eukaryotes, provide carbohydrates for the formation of biomass and for mitochondrial energy production to the cell. They generate their own energy in the form of the nucleotide adenosine triphosphate (ATP). However, plastids of non-photosynthetic tissues, or during the dark, depend on external supply of ATP. A dedicated antiporter that exchanges ATP against adenosine diphosphate (ADP) plus inorganic phosphate (Pi) takes over this function in most photosynthetic eukaryotes. Additional forms of such nucleotide transporters (NTTs), with deviating activities, are found in intracellular bacteria, and, surprisingly, also in diatoms, a group of algae that acquired their plastids from other eukaryotes via one (or even several) additional endosymbioses compared to algae with primary plastids and higher plants. In this review, we summarize what is known about the nucleotide synthesis and transport pathways in diatom cells, and discuss the evolutionary implications of the presence of the additional NTTs in diatoms, as well as their applications in biotechnology.
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Affiliation(s)
- Ansgar Gruber
- Institute of Parasitology, Biology Centre, Czech Academy of Sciences, Branišovská 1160/31, 370 05 České Budějovice, Czech Republic
| | - Ilka Haferkamp
- Pflanzenphysiologie, Technische Universität Kaiserslautern, 67663 Kaiserslautern, Germany;
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Kuhaudomlarp S, Pergolizzi G, Patron NJ, Henrissat B, Field RA. Unraveling the subtleties of β-(1→3)-glucan phosphorylase specificity in the GH94, GH149, and GH161 glycoside hydrolase families. J Biol Chem 2019; 294:6483-6493. [PMID: 30819804 PMCID: PMC6484121 DOI: 10.1074/jbc.ra119.007712] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Revised: 02/26/2019] [Indexed: 12/31/2022] Open
Abstract
Glycoside phosphorylases (GPs) catalyze the phosphorolysis of glycans into the corresponding sugar 1-phosphates and shortened glycan chains. Given the diversity of natural β-(1→3)-glucans and their wide range of biotechnological applications, the identification of enzymatic tools that can act on β-(1→3)-glucooligosaccharides is an attractive area of research. GP activities acting on β-(1→3)-glucooligosaccharides have been described in bacteria, the photosynthetic excavate Euglena gracilis, and the heterokont Ochromonas spp. Previously, we characterized β-(1→3)-glucan GPs from bacteria and E. gracilis, leading to their classification in glycoside hydrolase family GH149. Here, we characterized GPs from Gram-positive bacteria and heterokont algae acting on β-(1→3)-glucooligosaccharides. We identified a phosphorylase sequence from Ochromonas spp. (OcP1) together with its orthologs from other species, leading us to propose the establishment of a new GH family, designated GH161. To establish the activity of GH161 members, we recombinantly expressed a bacterial GH161 gene sequence (PapP) from the Gram-positive bacterium Paenibacillus polymyxa ATCC 842 in Escherichia coli. We found that PapP acts on β-(1→3)-glucooligosaccharide acceptors with a degree of polymerization (DP) ≥ 2. This activity was distinct from that of characterized GH149 β-(1→3)-glucan phosphorylases, which operate on acceptors with DP ≥ 1. We also found that bacterial GH161 genes co-localize with genes encoding β-glucosidases and ATP-binding cassette transporters, highlighting a probable involvement of GH161 enzymes in carbohydrate degradation. Importantly, in some species, GH161 and GH94 genes were present in tandem, providing evidence that GPs from different CAZy families may work sequentially to degrade oligosaccharides.
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Affiliation(s)
- Sakonwan Kuhaudomlarp
- From the Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom
| | - Giulia Pergolizzi
- From the Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom
| | - Nicola J Patron
- the Earlham Institute, Norwich Research Park, Norwich NR4 7UZ, United Kingdom
| | - Bernard Henrissat
- Architecture et Fonction des Macromolécules Biologiques, Aix-Marseille University, 163 Avenue de Luminy, 13288 Marseille, France.,CNRS, UMR 7257, 163 Avenue de Luminy, 13288 Marseille, France, and.,the Department of Biological Sciences, King Abdulaziz University, Jeddah 23218, Saudi Arabia
| | - Robert A Field
- From the Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom,
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Vogler BW, Brannum J, Chung JW, Seger M, Posewitz MC. Characterization of the Nannochloropsis gaditana storage carbohydrate: A 1,3-beta glucan with limited 1,6-branching. ALGAL RES 2018. [DOI: 10.1016/j.algal.2018.10.011] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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