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Toustou C, Boulogne I, Gonzalez AA, Bardor M. Comparative RNA-Seq of Ten Phaeodactylum tricornutum Accessions: Unravelling Criteria for Robust Strain Selection from a Bioproduction Point of View. Mar Drugs 2024; 22:353. [PMID: 39195469 DOI: 10.3390/md22080353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2024] [Revised: 07/26/2024] [Accepted: 07/29/2024] [Indexed: 08/29/2024] Open
Abstract
The production of biologics in mammalian cells is hindered by some limitations including high production costs, prompting the exploration of other alternative expression systems that are cheaper and sustainable like microalgae. Successful productions of biologics such as monoclonal antibodies have already been demonstrated in the diatom Phaeodactylum tricornutum; however, limited production yields still remain compared to mammalian cells. Therefore, efforts are needed to make this microalga more competitive as a cell biofactory. Among the seventeen reported accessions of P. tricornutum, ten have been mainly studied so far. Among them, some have already been used to produce high-value-added molecules such as biologics. The use of "omics" is increasingly being described as useful for the improvement of both upstream and downstream steps in bioprocesses using mammalian cells. Therefore, in this context, we performed an RNA-Seq analysis of the ten most used P. tricornutum accessions (Pt1 to Pt10) and deciphered the differential gene expression in pathways that could affect bioproduction of biologics in P. tricornutum. Our results highlighted the benefits of certain accessions such as Pt9 or Pt4 for the production of biologics. Indeed, these accessions seem to be more advantageous. Moreover, these results contribute to a better understanding of the molecular and cellular biology of P. tricornutum.
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Affiliation(s)
- Charlotte Toustou
- Laboratoire GlycoMEV UR 4358, Université de Rouen Normandie, SFR Normandie Végétal FED 4277, Innovation Chimie Carnot, 76000 Rouen, France
| | - Isabelle Boulogne
- Laboratoire GlycoMEV UR 4358, Université de Rouen Normandie, SFR Normandie Végétal FED 4277, Innovation Chimie Carnot, 76000 Rouen, France
| | - Anne-Alicia Gonzalez
- MGX-Montpellier GenomiX, Univ. Montpellier, CNRS, INSERM, 34094 Montpellier, France
| | - Muriel Bardor
- Laboratoire GlycoMEV UR 4358, Université de Rouen Normandie, SFR Normandie Végétal FED 4277, Innovation Chimie Carnot, 76000 Rouen, France
- ALGA BIOLOGICS, CURIB, 25 rue Tesnières, 76821 Mont-Saint-Aignan, France
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2
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Kumar M, Tibocha-Bonilla JD, Füssy Z, Lieng C, Schwenck SM, Levesque AV, Al-Bassam MM, Passi A, Neal M, Zuniga C, Kaiyom F, Espinoza JL, Lim H, Polson SW, Allen LZ, Zengler K. Mixotrophic growth of a ubiquitous marine diatom. SCIENCE ADVANCES 2024; 10:eado2623. [PMID: 39018398 PMCID: PMC466952 DOI: 10.1126/sciadv.ado2623] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Accepted: 06/12/2024] [Indexed: 07/19/2024]
Abstract
Diatoms are major players in the global carbon cycle, and their metabolism is affected by ocean conditions. Understanding the impact of changing inorganic nutrients in the oceans on diatoms is crucial, given the changes in global carbon dioxide levels. Here, we present a genome-scale metabolic model (iMK1961) for Cylindrotheca closterium, an in silico resource to understand uncharacterized metabolic functions in this ubiquitous diatom. iMK1961 represents the largest diatom metabolic model to date, comprising 1961 open reading frames and 6718 reactions. With iMK1961, we identified the metabolic response signature to cope with drastic changes in growth conditions. Comparing model predictions with Tara Oceans transcriptomics data unraveled C. closterium's metabolism in situ. Unexpectedly, the diatom only grows photoautotrophically in 21% of the sunlit ocean samples, while the majority of the samples indicate a mixotrophic (71%) or, in some cases, even a heterotrophic (8%) lifestyle in the light. Our findings highlight C. closterium's metabolic flexibility and its potential role in global carbon cycling.
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Affiliation(s)
- Manish Kumar
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Juan D. Tibocha-Bonilla
- Bioinformatics and Systems Biology Graduate Program, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Zoltán Füssy
- Department of Parasitology, Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic
| | - Chloe Lieng
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Sarah M. Schwenck
- Scripps Institution of Oceanography, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Alice V. Levesque
- Scripps Institution of Oceanography, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Mahmoud M. Al-Bassam
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Anurag Passi
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Maxwell Neal
- Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Cristal Zuniga
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Farrah Kaiyom
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Josh L. Espinoza
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Way, La Jolla, CA 92037, USA
| | - Hyungyu Lim
- Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
| | - Shawn W. Polson
- Department of Computer and Information Sciences, University of Delaware, 18 Amstel Ave., Newark, DE 19716, USA
- Center for Bioinformatics and Computational Biology, University of Delaware, 590 Avenue 1743, Newark, DE 19713, USA
| | - Lisa Zeigler Allen
- Scripps Institution of Oceanography, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Way, La Jolla, CA 92037, USA
| | - Karsten Zengler
- Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
- Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
- Center for Microbiome Innovation, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
- Program in Materials Science and Engineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
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3
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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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Wang X, Meng X, Dong Y, Song C, Sui F, Lu X, Mei X, Fan Y, Liu Y. Differential protein analysis of saline-alkali promoting the oil accumulation in Nitzschia palea. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2024; 17:11. [PMID: 38282018 PMCID: PMC10823674 DOI: 10.1186/s13068-023-02451-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2023] [Accepted: 12/16/2023] [Indexed: 01/30/2024]
Abstract
BACKGROUND The increasingly severe salinization of the aquatic environment has led to serious damage to the habitats of aquatic organisms. Benthic diatoms are commonly employed as indicator species for assessing water quality and serve as a reflection of the overall health of the aquatic ecosystem. Nitzschia palea is a common diatom found in freshwater, with high oil content, rapid reproductive rate, and it is a commonly dominant species in various rivers. RESULTS The results showed that after 4 days (d) of saline-alkali stress, the cell density and chlorophyll a content of Nitzschia palea reached their maximum values. Therefore, we selected Nitzschia palea under 4 d stress for Tandem Mass Tag (TMT) quantitative proteomic analysis to explore the molecular adaptation mechanism of freshwater diatoms under saline-alkali stress. Totally, 854 proteins were enriched, of which 439 differentially expressed proteins were identified. Gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and subcellular fractionation analysis revealed that these proteins were mainly enriched in the photosynthesis pathway, citric acid cycle (TCA cycle), fatty acid synthesis, and glutathione cycle. CONCLUSIONS This study aims to reveal the physiological, biochemical and proteomic mechanisms of salt and alkali tolerance and molecular adaptation of Nitzschia palea under different saline-alkali concentrations. This study showed that Nitzschia palea is one candidate of the environmental friendly, renewable bioenergy microalgae. Meantime, Nitzschia palea reveals for the proteome of the freshwater and provides the basis, it became a model algal species for freshwater diatoms.
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Affiliation(s)
- Xintong Wang
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Xianghong Meng
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Yanlong Dong
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Chunhua Song
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Fengyang Sui
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Xinxin Lu
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Xiaoxue Mei
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China
| | - Yawen Fan
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China.
- Key Laboratory of Biodiversity of Aquatic Organisms, Harbin Normal University, Harbin, China.
| | - Yan Liu
- College of Life Sciences and Technology, Harbin Normal University, Harbin, China.
- Key Laboratory of Biodiversity of Aquatic Organisms, Harbin Normal University, Harbin, China.
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5
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Yang YF, Ye GB, Wang HJ, Li HY, Lin CSK, Zheng XF, Pugazhendhi A, Wang X. Utilization of lipidic food waste as low-cost nutrients for enhancing the potentiality of biofuel production from engineered diatom under temperature variations. BIORESOURCE TECHNOLOGY 2023; 387:129611. [PMID: 37541549 DOI: 10.1016/j.biortech.2023.129611] [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: 06/19/2023] [Revised: 07/29/2023] [Accepted: 08/01/2023] [Indexed: 08/06/2023]
Abstract
The scarcity of natural fossil fuels presents a promising opportunity for the development of renewable microalgae-based biofuels. However, the current microalgae cultivation is unable to effectively address the high costs of the production of biofuels. To tackle this challenge, this study focused on recruiting engineered Phaeodactylum tricornutum (FabG-OE) to enhance biomass accumulation and lipid production by employing food waste hydrolysate under temperature variations. The biomass and lipid accumulations of FabG-OE were improved effectively in mixed culture medium and food waste hydrolysate at a volume ratio (v/v) of 80:20 at 30 °C. It was found that oxidative stress might contribute to the overexpression of lipogenic genes, thereby leading to lipogenesis at 30 °C. Upscaling cultivation of FabG-OE at 30 °C using a semi-continuous strategy and batch strategy was conducted to achieve 0.73 and 0.77 g/L/d of biomass containing 0.35 and 0.38 g/L/d of lipid, respectively. In summary, these findings provide valuable insights for advancing microalgae-based biofuel production.
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Affiliation(s)
- Yu-Feng Yang
- Department of Sports Medicine, The First Affiliated Hospital, Jinan University, Guangzhou 510632, China; Key Laboratory of Eutrophication and Red Tide Prevention of Guangdong Higher Education Institute, College of Life Science and Technology, Jinan University, Guangzhou 510632, China
| | - Guang-Bin Ye
- School of Laboratory Medicine, Youjiang Medical University for Nationalities, Baise, Guangxi 533000, China
| | - Hua-Jun Wang
- Department of Sports Medicine, The First Affiliated Hospital, Jinan University, Guangzhou 510632, China
| | - Hong-Ye Li
- Key Laboratory of Eutrophication and Red Tide Prevention of Guangdong Higher Education Institute, College of Life Science and Technology, Jinan University, Guangzhou 510632, China
| | - Carol Sze Ki Lin
- School of Energy and Environment, City University of Hong Kong, Hong Kong, China
| | - Xiao-Fei Zheng
- Department of Sports Medicine, The First Affiliated Hospital, Jinan University, Guangzhou 510632, China.
| | - Arivalagan Pugazhendhi
- Emerging Materials for Energy and Environmental Applications Research Group, School of Engineering and Technology, Van Lang University, Ho Chi Minh City, Viet Nam
| | - Xiang Wang
- Department of Sports Medicine, The First Affiliated Hospital, Jinan University, Guangzhou 510632, China; School of Laboratory Medicine, Youjiang Medical University for Nationalities, Baise, Guangxi 533000, China; Key Laboratory of Eutrophication and Red Tide Prevention of Guangdong Higher Education Institute, College of Life Science and Technology, Jinan University, Guangzhou 510632, China.
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6
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Duan J, Li C, Zheng Y, Huang A, Xie Z. Characterization of exogenous lactate addition on the growth, photosynthetic performance, and biochemical composition of four bait microalgae strains. J Appl Microbiol 2023; 134:lxad259. [PMID: 37960882 DOI: 10.1093/jambio/lxad259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Revised: 10/02/2023] [Accepted: 11/12/2023] [Indexed: 11/15/2023]
Abstract
AIMS To quickly obtain the biomass of bait microalgae with high value-added products, researchers have examined the influence of biochemical and environmental factors on the growth rates and biochemical composition of microalgae. Previous studies have shown that lactate plays an important role in metabolic regulation in Phaeodactylum tricornutum. In this study, we investigated the effect of exogenous lactate on the growth rates, photosynthetic efficiency, and biochemical composition of four commonly used bait microalgae in aquaculture. METHODS AND RESULTS The optical density of the algal cultures at specific time points, YII, Fv/Fm, and the total lipid, protein, soluble sugar, insoluble sugar, chlorophyll a, and carotenoid content of P. tricornutum, Isochrysis galbana (I. galbana), Chaetoceros muelleri, and Cylindrotheca fusiformis were determined. In I. galbana, the growth rate was enhanced with the addition of lactate, even though higher concentrations of lactate were associated with a decrease in YII and Fv/Fm. In general, the total lipid content of these microalgal strains increased gradually in a concentration-dependent manner over the range of lactate concentrations. In addition, higher concentrations of lactate also induced significant changes in the total soluble and insoluble sugar levels in all microalgal strains. However, chlorophyll a and carotenoid contents increased at lower but decreased at higher concentrations of lactate in all microalgal strains. The total protein content was significantly elevated at all concentrations of lactate in P. tricornutum, whereas there were no significant differences in that of C. fusiformis. CONCLUSIONS Lactate effective influences in the growth, metabolism, and synthesis of important biochemical components in the four microalgal strains under investigation.
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Affiliation(s)
- Jiawen Duan
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou 570228, HainanChina
- Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou 570228, Hainan, China
- School of Life Sciences, Hainan University, Haikou 570228, Hainan, China
| | - Chenhui Li
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou 570228, HainanChina
- Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou 570228, Hainan, China
- College of Marine Sciences, Hainan University, Haikou 570228, Hainan, China
| | - Yimeng Zheng
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou 570228, HainanChina
- Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou 570228, Hainan, China
- College of Marine Sciences, Hainan University, Haikou 570228, Hainan, China
| | - Aiyou Huang
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou 570228, HainanChina
- Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou 570228, Hainan, China
- Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou 570228, Hainan, China
- College of Marine Sciences, Hainan University, Haikou 570228, Hainan, China
| | - Zhenyu Xie
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou 570228, HainanChina
- Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou 570228, Hainan, China
- Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou 570228, Hainan, China
- College of Marine Sciences, Hainan University, Haikou 570228, Hainan, China
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Feng L, Wang Z, Jia D, Zou X, Rao M, Huang Z, Kuang C, Ye J, Chen C, Huang C, Zhang M, Cheng J. Functional metabolism pathways of significantly regulated genes in Nannochloropsis oceanica with various nitrogen/phosphorus nutrients for CO 2 fixation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 883:163318. [PMID: 37030370 DOI: 10.1016/j.scitotenv.2023.163318] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Revised: 03/16/2023] [Accepted: 04/02/2023] [Indexed: 06/03/2023]
Abstract
To determine the optimal CO2 concentration for microalgal biomass cultivated with industrial flue gas and improve carbon fixation capacity and biomass production. Functional metabolism pathways of significantly regulated genes in Nannochloropsis oceanica (N. oceanica) with various nitrogen/phosphorus (N/P) nutrients for CO2 fixation were comprehensively clarified. At 100 % N/P nutrients, the optimum CO2 concentration was 70 % and the maximum biomass production of microalgae was 1.57 g/L. The optimum CO2 concentration was 50 % for N or P deficiency and 30 % for both N and P deficiency. The optimal combination of CO2 concentration and N/P nutrients caused significant up regulation of proteins related to photosynthesis and cellular respiration in the microalgae, enhancing photosynthetic electron transfer efficiency and carbon metabolism. Microalgal cells with P deficiency and optimal CO2 concentration expressed many phosphate transporter proteins to enhance P metabolism and N metabolism to maintain a high carbon fixation capacity. However, inappropriate combination of N/P nutrients and CO2 concentrations caused more errors in DNA replication and protein synthesis, generating more lysosomes and phagosomes. This inhibited carbon fixation and biomass production in the microalgae with increased cell apoptosis.
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Affiliation(s)
- Lingchong Feng
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, Zhejiang, China
| | - Zhenyi Wang
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, Zhejiang, China
| | - Dongwei Jia
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, Zhejiang, China
| | - Xiangbo Zou
- Guangdong Energy Group Science and Technology Research Institute Co. Ltd., Guangzhou 510630, China
| | - Mumin Rao
- Guangdong Energy Group Science and Technology Research Institute Co. Ltd., Guangzhou 510630, China
| | - Zhimin Huang
- Guangdong Yudean Zhanjiang Biomass Power Co., Ltd., Zhanjiang 524300, China
| | - Cao Kuang
- Guangdong Energy Group Science and Technology Research Institute Co. Ltd., Guangzhou 510630, China
| | - Ji Ye
- Guangdong Energy Group Science and Technology Research Institute Co. Ltd., Guangzhou 510630, China
| | - Chuangting Chen
- Guangdong Energy Group Science and Technology Research Institute Co. Ltd., Guangzhou 510630, China
| | - Cong Huang
- Guangdong Yudean Zhanjiang Biomass Power Co., Ltd., Zhanjiang 524300, China
| | - Maoqiang Zhang
- Guangdong Yudean Zhanjiang Biomass Power Co., Ltd., Zhanjiang 524300, China
| | - Jun Cheng
- State Key Laboratory of Clean Energy Utilization, Zhejiang University, Hangzhou 310027, Zhejiang, China; Key Laboratory of Low-grade Energy Utilization Technologies and Systems of Ministry of Education, Chongqing University, Chongqing 400044, China.
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8
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Abdullahi ZH, Marselin FN, Khaironizam NIA, Fauzi NFA, Wan Maznah WO. Growth stage-related biomass, pigments, and biochemical composition of Stichococcus bacillaris, Synechococcus sp., and Trentepohlia aurea isolated from Gua Tempurung, a cave in Malaysia. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 197:107633. [PMID: 36965319 DOI: 10.1016/j.plaphy.2023.03.010] [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: 06/25/2022] [Revised: 02/20/2023] [Accepted: 03/06/2023] [Indexed: 06/18/2023]
Abstract
As part of the lampenflora that inhabit limestone caves, microalgae play an important role in cave ecosystems but are understudied in tropical ecoregions. In the present study, the dominant eukaryotic and prokaryotic microalgae identified in lampenflora samples collected from Gua Tempurung, a cave in Malaysia, and growth stage-related microalgal attributes were determined. Stichococcus bacillaris, Synechococcus sp., and Trentepohlia aurea were selected and cultured in Bold's Basal Medium (S. bacillaris and T. aurea) or BG-11 medium (Synechococcus sp.) under laboratory conditions. The highest specific growth rate (0.72 ± 0.21 day-1) and dry weight (0.11 ± 0.04 mg L-1) were recorded in S. bacillaris in the early stationary phase. Trentepohlia aurea and Synechococcus sp. had the highest ash-free dry weight and total ash percentage (11.18 ± 4.64 mg L-1 and 8.55% ± 6.73%, respectively) in the early stationary phase. Stichococcus bacillaris had the highest moisture content (84.26% ± 0.64%) in the exponential phase. Chlorophylls a and b were highest in the early stationary phase in T. aurea (0.706 ± 0.40 mg L-1 and 1.094 ± 0.589 mg L-1, respectively). Carotenoid levels were highest in Synechococcus sp. in the early stationary stage (0.07 ± 0.02 mg L-1). Lipids were the major biochemical compound identified at the highest levels in Synechococcus sp. (67.87% ± 7.75%) in the early stationary phase, followed by protein recorded at the highest levels in T. aurea (57.99% ± 4.99%) in the early stationary phase. Carbohydrates were the compound identified least often with the highest recorded levels found in T. aurea (9.94% ± 0.49%) in the late stationary phase. Biomass, pigments, and biochemical accumulation varied at different growth stages in the studied microalgae, and this variation was species-specific. The present study provides a benchmark for the growth phases of aerophytic cave microalgae, which will be useful for determining their optimum harvest time and obtaining biochemical compounds of interest.
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Affiliation(s)
| | | | | | | | - W O Wan Maznah
- School of Biological Sciences, Universiti Sains Malaysia, 11800, Penang, Malaysia; Centre for Marine and Coastal Studies (CEMACS), Universiti Sains Malaysia, 11800, Penang, Malaysia; River Engineering and Urban Drainage Centre (REDAC), Universiti Sains Malaysia, Seri Ampangan, 14300, Nibong Tebal, Penang, Malaysia.
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9
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Murison V, Hérault J, Schoefs B, Marchand J, Ulmann L. Bioinformatics-Based Screening Approach for the Identification and Characterization of Lipolytic Enzymes from the Marine Diatom Phaeodactylum tricornutum. Mar Drugs 2023; 21:md21020125. [PMID: 36827166 PMCID: PMC9964374 DOI: 10.3390/md21020125] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Revised: 02/13/2023] [Accepted: 02/14/2023] [Indexed: 02/17/2023] Open
Abstract
Oleaginous diatoms accumulate lipids of biotechnological interest when exposed to nutrient stress conditions such as nitrogen starvation. While accumulation mechanisms are well-known and have been engineered to improve lipid production, degradation mechanisms remain poorly investigated in diatoms. Identifying lipid-degrading enzymes is the initial step to understanding the catabolic processes. In this study, an in silico screening of the genome of Phaeodactylum tricornutum led to the identification of 57 putative triacylglycerol lipases (EC 3.1.1.3) grouped in 4 families. Further analysis revealed the presence of conserved domains and catalytic residues of lipases. Physico-chemical characteristics and subcellular localization predictions highlighted that a majority of these putative proteins are hydrophilic and cytosolic, suggesting they could be recruited to lipid droplets directly from the cytosol. Among the 57 identified putative proteins, three lipases were identified as possibly involved in lipophagy due to a potential vacuolar localization. The expression of the mRNA corresponding to the 57 proteins was then searched in 3 transcriptomic datasets obtained under nitrogen starvation. Nine genes were highly regulated and were considered as encoding enzymes with a probable important function in lipid catabolism. A tertiary structure prediction of these nine candidates yielded eight functional 3D models. Among those, two downregulated enzymes, Phatr3_J54974 and Phatr3_EG00720, were highlighted as good targets for future functional genomics and purification studies to investigate their role in lipid degradation.
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Affiliation(s)
- Victor Murison
- BiOSSE, Biology of Organisms: Stress, Health, Environment, Département Génie Biologique, Institut Universitaire de Technologie, Le Mans Université, F-53020 Laval, France
| | - Josiane Hérault
- BiOSSE, Biology of Organisms: Stress, Health, Environment, Département Génie Biologique, Institut Universitaire de Technologie, Le Mans Université, F-53020 Laval, France
| | - Benoît Schoefs
- BiOSSE, Biology of Organisms: Stress, Health, Environment, UFR Sciences et Techniques, Le Mans Université, F-72085 Le Mans, France
| | - Justine Marchand
- BiOSSE, Biology of Organisms: Stress, Health, Environment, UFR Sciences et Techniques, Le Mans Université, F-72085 Le Mans, France
| | - Lionel Ulmann
- BiOSSE, Biology of Organisms: Stress, Health, Environment, Département Génie Biologique, Institut Universitaire de Technologie, Le Mans Université, F-53020 Laval, France
- Correspondence:
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10
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Li S, Yang J, Mohamed H, Wang X, Pang S, Wu C, López-García S, Song Y. Identification and Functional Characterization of Adenosine Deaminase in Mucor circinelloides: A Novel Potential Regulator of Nitrogen Utilization and Lipid Biosynthesis. J Fungi (Basel) 2022; 8:jof8080774. [PMID: 35893142 PMCID: PMC9332508 DOI: 10.3390/jof8080774] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 07/17/2022] [Accepted: 07/22/2022] [Indexed: 02/05/2023] Open
Abstract
Adenosine deaminase (ADA) is an enzyme distributed in a wide variety of organisms that cleaves adenosine into inosine. Since inosine plays an important role in nitrogen metabolism, ADA may have a critical function in the regulation of fatty acid synthesis. However, the role of ADA in oleaginous fungi has not been reported so far. Therefore, in this study, we identified one ada gene encoding ADA (with ID scaffold0027.9) in the high lipid-producing fungus, Mucor circinelloides WJ11, and investigated its role in cell growth, lipid production, and nitrogen metabolism by overexpressing and knockout of this gene. The results showed that knockout of the ada altered the efficiency of nitrogen consumption, which led to a 20% increment in the lipid content (25% of cell dry weight) of the engineered strain, while overexpression of the ada showed no significant differences compared with the control strain at the final growth stage; however, interestingly, it increased lipid accumulation at the early growth stage. Additionally, transcriptional analysis was conducted by RT-qPCR and our findings indicated that the deletion of ada activated the committed steps of lipid biosynthesis involved in acetyl-CoA carboxylase (acc1 gene), cytosolic malic acid enzyme (cme1 gene), and fatty acid synthases (fas1 gene), while it suppressed the expression of AMP-activated protein kinase (ampk α1 and ampk β genes), which plays a role in lipolysis, whereas the ada-overexpressed strain displayed reverse trends. Conclusively, this work unraveled a novel role of ADA in governing lipid biosynthesis and nitrogen metabolism in the oleaginous fungus, M. circinelloides.
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Affiliation(s)
- Shaoqi Li
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
| | - Junhuan Yang
- Department of Food Sciences, College of Food Science and Engineering, Lingnan Normal University, Zhanjiang 524048, China;
| | - Hassan Mohamed
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Assiut 71524, Egypt
| | - Xiuwen Wang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
| | - Shuxian Pang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
| | - Chen Wu
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
| | - Sergio López-García
- Department of Genetics and Microbiology (Associated Unit to IQFR-CSIC), Faculty of Biology, University of Murcia, 3100 Murcia, Spain;
| | - Yuanda Song
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, China; (S.L.); (H.M.); (X.W.); (S.P.); (C.W.)
- Correspondence: ; Tel.: +86-13964463099
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11
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Kronusová O, Kaštánek P, Koyun G, Kaštánek F, Brányik T. Factors Influencing the Production of Extracellular Polysaccharides by the Green Algae Dictyosphaerium chlorelloides and Their Isolation, Purification, and Composition. Microorganisms 2022; 10:microorganisms10071473. [PMID: 35889192 PMCID: PMC9316870 DOI: 10.3390/microorganisms10071473] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Revised: 07/18/2022] [Accepted: 07/19/2022] [Indexed: 12/10/2022] Open
Abstract
The freshwater green microalgae, Dictyosphaerium chlorelloides (CCALA 330), has the ability to produce extracellular polysaccharides (EPS). Conditions for optimum growth and EPS overproduction were determined in laboratory-scale tubular photobioreactors (PBR) with a working volume of 300 mL. Multiple limitations in nutrient supply were proven to be an effective method for EPS overproduction. Salinity stress was also applied to the culture, but no significant increase in EPS production was observed. The effects of different nitrogen sources were examined and the microalgae exhibited the fastest growth and EPS production in medium containing ammonium nitrate. Under determined optimal conditions, EPS concentration reached 10 g/L (71% of the total biomass) and a total biomass of 14 g/L at the end of 17 days cultivation. Pilot-scale cultivation was also carried out in a column type airlift photobioreactor (PBR) with a working volume of 60 L. A new and efficient methodology was developed for separating cells from the EPS-containing culture broth. Due to the strong attachment between cells and EPS, high-pressure homogenization was carried out before a centrifugation process. The EPS in the supernatant was subsequently purified using ultrafiltration. The green microalgae Dictyosphaerium chlorelloides may therefore be appropriate for the commercial production of EPS.
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Affiliation(s)
- Olga Kronusová
- Department of Biotechnology, University of Chemistry and Technology Prague, Technická 5, 166 28 Prague, Czech Republic; (P.K.); (G.K.); (T.B.)
- EcoFuel Laboratories s.r.o., Ocelářská 9, 190 00 Prague, Czech Republic
- Correspondence: ; Tel.: +420-702850737
| | - Petr Kaštánek
- Department of Biotechnology, University of Chemistry and Technology Prague, Technická 5, 166 28 Prague, Czech Republic; (P.K.); (G.K.); (T.B.)
- EcoFuel Laboratories s.r.o., Ocelářská 9, 190 00 Prague, Czech Republic
| | - Görkem Koyun
- Department of Biotechnology, University of Chemistry and Technology Prague, Technická 5, 166 28 Prague, Czech Republic; (P.K.); (G.K.); (T.B.)
| | - František Kaštánek
- Institute of Chemical Process Fundamentals of the CAS, Rozvojova 2/135, 165 02 Prague, Czech Republic;
| | - Tomáš Brányik
- Department of Biotechnology, University of Chemistry and Technology Prague, Technická 5, 166 28 Prague, Czech Republic; (P.K.); (G.K.); (T.B.)
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12
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Huang A, Li Y, Duan J, Guo S, Cai X, Zhang X, Long H, Ren W, Xie Z. Metabolomic, proteomic and lactylated proteomic analyses indicate lactate plays important roles in maintaining energy and C:N homeostasis in Phaeodactylum tricornutum. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2022; 15:61. [PMID: 35641996 PMCID: PMC9153171 DOI: 10.1186/s13068-022-02152-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Accepted: 05/05/2022] [Indexed: 11/17/2022]
Abstract
Background Phaeodactylum tricornutum accumulates lipids while the growth also increases under high CO2, shedding light on its potential application in the reduction of CO2 emissions and at the same time acquiring biodiesel raw materials. However, the sensing and transducing of high C:N signals and the related response mechanism(s) remained unknown. Results In this study, a multiple omics analysis was performed with P. tricornutum under low nitrogen (LN) and high CO2 (HC) conditions. The results indicated that 2-oxoglutarate was significantly increased under both LN and HC. Meanwhile, proteins involved in carbon concentration mechanism decreased, indicated that 2-oxoglutarate might regulate C:N balance through suppressing carbon fixation. Lactate, which acts in energy metabolism, signal transduction and ‘LactoylLys’ modification on proteins, was the most upregulated metabolite under both LN and HC conditions. Meanwhile, proteins involved in carbon, nitrogen and energy metabolisms were significantly regulated. Western blotting analysis suggested that non-histone L-lactylation modification was enhanced under LN and HC. Moreover, lactylated proteins were enriched in photosynthesis, central carbon metabolism, nitrogen metabolism, fatty acid synthesis and oxidative phosphorylation. Conclusion It is suggested that lactate might play important roles in energy homeostatic maintenance and C:N balance regulation in P. tricornutum through protein lactylation modification. Supplementary Information The online version contains supplementary material available at 10.1186/s13068-022-02152-8.
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Affiliation(s)
- Aiyou Huang
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China.,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Yuanxiang Li
- Department of Pharmacology and Regenerative Medicine, University of Illinois at Chicago, Chicago, IL, USA
| | - Jiawen Duan
- College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Shiyi Guo
- College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Xiaoni Cai
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China.,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Xiang Zhang
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China.,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Hao Long
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China.,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Wei Ren
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China.,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China.,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China
| | - Zhenyu Xie
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, Hainan, 570228, People's Republic of China. .,Laboratory of Development and Utilization of Marine Microbial Resource, Hainan University, Haikou, Hainan, 570228, People's Republic of China. .,Key Laboratory of Tropical Hydrobiology and Biotechnology of Hainan Province, Haikou, Hainan, 570228, People's Republic of China. .,College of Marine Sciences, Hainan University, Haikou, Hainan, 570228, People's Republic of China.
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13
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Chuberre C, Chan P, Walet-Balieu ML, Thiébert F, Burel C, Hardouin J, Gügi B, Bardor M. Comparative Proteomic Analysis of the Diatom Phaeodactylum tricornutum Reveals New Insights Into Intra- and Extra-Cellular Protein Contents of Its Oval, Fusiform, and Triradiate Morphotypes. FRONTIERS IN PLANT SCIENCE 2022; 13:673113. [PMID: 35386671 PMCID: PMC8977783 DOI: 10.3389/fpls.2022.673113] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Accepted: 02/01/2022] [Indexed: 06/14/2023]
Abstract
Phaeodactylum tricornutum is an atypical diatom since it can display three main morphotypes: fusiform, triradiate, and oval. Such pleomorphism is possible thanks to an original metabolism, which is tightly regulated in order to acclimate to environmental conditions. Currently, studies dedicated to the comparison of each morphotype issued from one specific strain are scarce and little information is available regarding the physiological significance of this morphogenesis. In this study, we performed a comparative proteomic analysis of the three morphotypes from P. tricornutum. Cultures highly enriched in one dominant morphotype (fusiform, triradiate, or oval) of P. tricornutum Pt3 strain were used. Pairwise comparisons highlighted biological processes, which are up- and down-regulated in the oval (e.g., purine and cellular amino acid metabolism) and triradiate morphotypes (e.g., oxido-reduction and glycolytic processes) compared to the fusiform one used as a reference. Intersection analysis allowed us to identify the specific features of the oval morphotype. Results from this study confirmed previous transcriptomic RNA sequencing observation showing that the oval cells present a distinct metabolism with specific protein enrichment compared to fusiform and triradiate cells. Finally, the analysis of the secretome of each morphotype was also performed.
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Affiliation(s)
- Coralie Chuberre
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
| | - Philippe Chan
- UNIROUEN, PISSARO Proteomic Facility, Institute for Research and Innovation in Biomedicine, Normandie Université, Mont-Saint-Aignan, France
- Normandie University, UNIROUEN, INSERM US 51, CNRS UAR 2026, HeRacLeS-PISSARO, Rouen, France
- UNIROUEN, Institute for Research and Innovation in Biomedicine, Normandie Université, Rouen, France
| | | | - François Thiébert
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
| | - Carole Burel
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
| | - Julie Hardouin
- UNIROUEN, PISSARO Proteomic Facility, Institute for Research and Innovation in Biomedicine, Normandie Université, Mont-Saint-Aignan, France
- Normandie University, UNIROUEN, INSERM US 51, CNRS UAR 2026, HeRacLeS-PISSARO, Rouen, France
- Polymers, Biopolymers, Surface Laboratory, UMR 6270 CNRS, University of Rouen, Mont-Saint-Aignan, France
| | - Bruno Gügi
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
| | - Muriel Bardor
- UNIROUEN, Laboratoire Glyco-MEV EA4358, Normandie Université, Rouen, France
- Institut Universitaire de France, Paris, France
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14
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Fazili ABA, Shah AM, Zan X, Naz T, Nosheen S, Nazir Y, Ullah S, Zhang H, Song Y. Mucor circinelloides: a model organism for oleaginous fungi and its potential applications in bioactive lipid production. Microb Cell Fact 2022; 21:29. [PMID: 35227264 PMCID: PMC8883733 DOI: 10.1186/s12934-022-01758-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Accepted: 02/10/2022] [Indexed: 11/10/2022] Open
Abstract
Microbial oils have gained massive attention because of their significant role in industrial applications. Currently plants and animals are the chief sources of medically and nutritionally important fatty acids. However, the ever-increasing global demand for polyunsaturated fatty acids (PUFAs) cannot be met by the existing sources. Therefore microbes, especially fungi, represent an important alternative source of microbial oils being investigated. Mucor circinelloides—an oleaginous filamentous fungus, came to the forefront because of its high efficiency in synthesizing and accumulating lipids, like γ-linolenic acid (GLA) in high quantity. Recently, mycelium of M. circinelloides has acquired substantial attraction towards it as it has been suggested as a convenient raw material source for the generation of biodiesel via lipid transformation. Although M. circinelloides accumulates lipids naturally, metabolic engineering is found to be important for substantial increase in their yields. Both modifications of existing pathways and re-formation of biosynthetic pathways in M. circinelloides have shown the potential to improve lipid levels. In this review, recent advances in various important metabolic aspects of M. circinelloides have been discussed. Furthermore, the potential applications of M. circinelloides in the fields of antioxidants, nutraceuticals, bioremediation, ethanol production, and carotenoids like beta carotene and astaxanthin having significant nutritional value are also deliberated.
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15
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Curcuraci E, Manuguerra S, Messina CM, Arena R, Renda G, Ioannou T, Amato V, Hellio C, Barba FJ, Santulli A. Culture Conditions Affect Antioxidant Production, Metabolism and Related Biomarkers of the Microalgae Phaeodactylum tricornutum. Antioxidants (Basel) 2022; 11:antiox11020411. [PMID: 35204292 PMCID: PMC8869413 DOI: 10.3390/antiox11020411] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2022] [Revised: 02/10/2022] [Accepted: 02/11/2022] [Indexed: 12/10/2022] Open
Abstract
Phaeodactylum tricornutum (Bacillariophyta) is a worldwide-distributed diatom with the ability to adapt and survive in different environmental habitats and nutrient-limited conditions. In this research, we investigated the growth performance, the total lipids productivity, the major categories of fatty acids, and the antioxidant content in P. tricornutum subjected for 15 days to nitrogen deprivation (N-) compared to standard culture conditions (N+). Furthermore, genes and pathways related to lipid biosynthesis (i.e., glucose-6-phosphate dehydrogenase, acetyl-coenzyme A carboxylase, citrate synthase, and isocitrate dehydrogenase) and photosynthetic activity (i.e., ribulose-1,5-bisphospate carboxylase/oxygenase and fucoxanthin-chlorophyll a/c binding protein B) were investigated through molecular approaches. P. tricornutum grown under starvation condition (N-) increased lipids production (42.5 ± 0.19 g/100 g) and decreased secondary metabolites productivity (phenolic content: 3.071 ± 0.17 mg GAE g-1; carotenoids: 0.35 ± 0.01 mg g−1) when compared to standard culture conditions (N+). Moreover, N deprivation led to an increase in the expression of genes involved in fatty acid biosynthesis and a decrease in genes related to photosynthesis. These results could be used as indicators of nitrogen limitation for environmental or industrial monitoring of P. tricornutum.
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Affiliation(s)
- Eleonora Curcuraci
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
| | - Simona Manuguerra
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
| | - Concetta Maria Messina
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
- Correspondence: (C.M.M.); (F.J.B.); Tel.: +39-923-560162 (C.M.M.); +34-963-544-972 (F.J.B.)
| | - Rosaria Arena
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
| | - Giuseppe Renda
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
| | - Theodora Ioannou
- Department of Chemistry, Faculty of Science, Aristotle University of Thessaloniki, 541 24 Thessaloniki, Greece;
| | - Vito Amato
- L’Avannotteria Società Agricola a Responsabilità Limitata, Contrada Triglia Scaletta, 91020 Petrosino, Italy;
| | - Claire Hellio
- LEMAR, IRD, CNRS, Ifremer, Université de Brest, F-29280 Plouzane, France;
| | - Francisco J. Barba
- Nutrition and Food Science Area, Preventive Medicine and Public Health, Food Science, Toxicology and Forensic Medicine Department, Faculty of Pharmacy, Universitat de València, Av. Vicent Andrés Estellés, s/n, 46100 Burjassot, València, Spain
- Correspondence: (C.M.M.); (F.J.B.); Tel.: +39-923-560162 (C.M.M.); +34-963-544-972 (F.J.B.)
| | - Andrea Santulli
- Department of Earth and Marine Sciences DiSTeM, University of Palermo, Via Barlotta 4, 91100 Trapani, Italy; (E.C.); (S.M.); (R.A.); (G.R.); (A.S.)
- Istituto di Biologia Marina, Consorzio Universitario della Provincia di Trapani, Via G. Barlotta 4, 91100 Trapani, Italy
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16
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Wang W, Fang H, Aslam M, Du H, Chen J, Luo H, Chen W, Liu X. MYB gene family in the diatom Phaeodactylum tricornutum revealing their potential functions in the adaption to nitrogen deficiency and diurnal cycle. JOURNAL OF PHYCOLOGY 2022; 58:121-132. [PMID: 34634129 DOI: 10.1111/jpy.13217] [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: 04/10/2021] [Revised: 08/19/2021] [Accepted: 09/23/2021] [Indexed: 06/13/2023]
Abstract
The MYB transcription factor (TF) family is one of the largest and most important TF families, regulating the growth and response of microalgae to stress. However, the gene structure and characteristics of Phaeodactylum tricornutum MYB TFs, and their functions under nitrogen deficiency, have not been explored yet. To identify all P. tricornutum MYB (PtMYB) genes, the MYB gene family was analyzed at the genome-wide level in this study. A total ofm26 PtMYB genes were identified from the genome of P. tricornutum. These PtMYB genes were divided into 5 subfamilies: 5R-MYB, 4R-MYB, R2R3-MYB, R1R2R3-MYB, and MYB-related proteins. Phylogenetical motif and gene structure analyses of MYB genes indicated that the number and proportion of MYB TFs were species-specific, and MYB genes exhibited a lot of duplication events from microalgae to higher plants. Furthermore, the differentially expressed patterns of all 26 PtMYB TFs implied that PtMYB genes might have functional specificity under nitrogen deficiency. Homology analysis of MYB genes revealed that PtMYB3, PtMYB15, and PtMYB21 might play important roles in the regulation of the diurnal cycle and response to nitrogen stress in P. tricornutum. PtMYB3, PtMYB15, and PtMYB21 genes might be used as potential candidate genes for further studying the regulatory mechanisms of P. tricornutum under nitrogen deficiency. This work provides an important foundation for the future research of the potential functions of PtMYB genes and its diurnal regulatory mechanisms under nitrogen deficiency.
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Affiliation(s)
- Wanna Wang
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Hao Fang
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Muhammad Aslam
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
- Faculty of Marine Sciences, Water and Marine Sciences, Lasbela University of Agriculture, Uthal, Pakistan
| | - Hong Du
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Jichen Chen
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Haodong Luo
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Weizhou Chen
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Xiaojuan Liu
- Guangdong Provincial Key Laboratory of Marine Biotechnology and STU-UNIVPM Joint Algal Research Center, College of Sciences, Institute of Marine Sciences, Shantou University, Shantou, China
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
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17
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Reza AHMM, Zhu X, Qin J, Tang Y. Microalgae-Derived Health Supplements to Therapeutic Shifts: Redox-Based Study Opportunities with AIE-Based Technologies. Adv Healthc Mater 2021; 10:e2101223. [PMID: 34468087 DOI: 10.1002/adhm.202101223] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Revised: 08/16/2021] [Indexed: 12/14/2022]
Abstract
Reactive oxygen species (ROS) are highly reactive molecules, serve the normal signaling in different cell types. Targeting ROS as the chemical signals, different stress based strategies have been developed to synthesis different anti-inflammatory molecules in microalgae. These molecules could be utilized as health supplements in human. To provoke the ROS-mediated defence systems, their connotation with the associated conditions must be well understood, therefore, proper tools for studying ROS in natural state are essential. The in vivo detection of ROS with phosphorescent probes offers promising opportunities to study these molecules in a non-invasive manner. Most of the common problems in the traditional fluorescent probes are lower photostability, excitation intensity, slow responsiveness, and the microenvironment that challenge their performance. Some ROS-specific aggregationinduced emission luminogens (AIEgens) with pronounced spatial and temporal resolution have recently demonstrated high selectivity, rapid responsiveness, and efficacies to resolve the aggregation-caused quenching issues. The nanocomposites of some AIE-photosensitizers can also improve the ROS-mediated photodynamic therapy. These AIEgens could be used to induce bioactive components in microalgae through altering the ROS signaling, therefore are more auspicious for biomedical research. This study reviews the prospects of AIEgen-based technologies to understand the ROS mediated bio-physiological processes in microalgae for better healthcare benefits.
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Affiliation(s)
- A. H. M. Mohsinul Reza
- College of Science and Engineering Flinders University South Australia 5042 Australia
- Institute for NanoScale Science and Technology Medical Device Research Institute College of Science and Engineering Flinders University South Australia 5042 Australia
| | - Xiaochen Zhu
- College of Science and Engineering Flinders University South Australia 5042 Australia
- Institute for NanoScale Science and Technology Medical Device Research Institute College of Science and Engineering Flinders University South Australia 5042 Australia
| | - Jianguang Qin
- College of Science and Engineering Flinders University South Australia 5042 Australia
| | - Youhong Tang
- College of Science and Engineering Flinders University South Australia 5042 Australia
- Institute for NanoScale Science and Technology Medical Device Research Institute College of Science and Engineering Flinders University South Australia 5042 Australia
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18
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Wan Afifudeen CL, Aziz A, Wong LL, Takahashi K, Toda T, Abd Wahid ME, Cha TS. Transcriptome-wide study in the green microalga Messastrum gracile SE-MC4 identifies prominent roles of photosynthetic integral membrane protein genes during exponential growth stage. PHYTOCHEMISTRY 2021; 192:112936. [PMID: 34509143 DOI: 10.1016/j.phytochem.2021.112936] [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: 03/20/2021] [Revised: 08/26/2021] [Accepted: 08/29/2021] [Indexed: 06/13/2023]
Abstract
The non-model microalga Messastrum gracile SE-MC4 is a potential species for biodiesel production. However, low biomass productivity hinders it from passing the life cycle assessment for biodiesel production. Therefore, the current study was aimed at uncovering the differences in the transcriptome profiles of the microalgae at early exponential and early stationary growth phases and dissecting the roles of specific differential expressed genes (DEGs) involved in cell division during M. gracile cultivation. The transcriptome analysis revealed that the photosynthetic integral membrane protein genes such as photosynthetic antenna protein were severely down-regulated during the stationary growth phase. In addition, the signaling pathways involving transcription, glyoxylate metabolism and carbon metabolism were also down-regulated during stationary growth phase. Current findings suggested that the coordination between photosynthetic integral membrane protein genes, signaling through transcription and carbon metabolism classified as prominent strategies during exponential growth stage. These findings can be applied in genetic improvement of M. gracile for biodiesel application.
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Affiliation(s)
- C L Wan Afifudeen
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia; Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Ahmad Aziz
- Faculty of Science and Marine Environment, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia; Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Li Lian Wong
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia; Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Kazutaka Takahashi
- Department of Aquatic Bioscience, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan.
| | - Tatsuki Toda
- Faculty of Science and Engineering, Soka University, 1-236 Tangi-cho, Hachioji, Tokyo, 192-8577, Japan.
| | - Mohd Effendy Abd Wahid
- Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia; Faculty of Fisheries and Food Science, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Thye San Cha
- Faculty of Science and Marine Environment, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia; Satreps-Cosmos Laboratory, Central Laboratory Complex, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia.
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19
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Potential for Biomass Production and Remediation by Cultivation of the Marine Model Diatom Phaeodactylum tricornutum in Oil Field Produced Wastewater Media. WATER 2021. [DOI: 10.3390/w13192700] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
While oilfield produced water (PW) is one of the largest, unclaimed wastewater streams of the oil industry, it could potentially be used as a cultivation medium for microalgae. Microalgae could help with the remediation of this water while also delivering biomass that can be transformed into valuable byproducts such as biofuels. The coupling of these two purposes is expected to cut production costs of biofuels while aiding environmental protection. In this study, we compared the cultivation capacity of the marine model diatom Phaeodactylum tricornutum in media at varying salinities and in media composed of PW from two oilfields in the Central Valley of California that differed drastically in the concentration of inorganic and organic constituents. Specifically, we measured the carrying capacity of these media, the maximum growth rates of P. tricornutum, its cellular lipid accumulation capacity, and its capacity to remediate the most polluted PW source. Our study shows that P. tricornutum can successfully adjust to the tested cultivation media through processes of short-term acclimation and long-term adaptation. Furthermore, the cultivation of P. tricornutum in the most heavily polluted PW source led to significant increases in cell yield and improved photosynthetic capacity during the stationary phase, which could be attributed chiefly to the higher levels of nitrate present in this PW source. Chemical water analyses also demonstrated the capability of P. tricornutum to remediate major nutrient content and potentially harmful elements like fluorine and copper. Because P. tricornutum is amenable to advanced genetic engineering, which could be taken advantage of to improve its cultivation resilience and productivity in an economic setting, we propose this study as a step towards essential follow-up studies that will identify the genetic regulation behind its growth in oilfield PW media and its remediation of the PW constituents.
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20
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Parkes R, Archer L, Gee DM, Smyth TJ, Gillespie E, Touzet N. Differential responses in EPA and fucoxanthin production by the marine diatom Stauroneis sp. under varying cultivation conditions. Biotechnol Prog 2021; 37:e3197. [PMID: 34337902 DOI: 10.1002/btpr.3197] [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] [Received: 03/27/2021] [Revised: 07/06/2021] [Accepted: 07/23/2021] [Indexed: 01/03/2023]
Abstract
There has been an increasing drive toward better valorising raw biological materials in the context of the sustainability of bio-based industries and the circular economy. As such, microalgae hold the ability to biosynthesise valuable metabolites, which are sought after within the bioenergy, pharmaceuticals, cosmetics or nutrition sectors. Owing to their bioactivities, the xanthophyll pigment fucoxanthin and the omega-3 polyunsaturated fatty acid eicosapentaenoic acid (EPA) have fostered increasing interests in terms of sustainably refining them from natural sources, such as microalgae. Together with the suitability of individual species to industrial cultivation, a key challenge resides in optimizing the yields of these compounds within the microalgal biomass they are retrieved from. The marine diatom Stauroneis sp. LACW24 was batch cultivated into its stationary phase of growth prior to being subjected at high cell density (1 × 106 cells mL-1 ) to seven different regimes of light exposure in replenished medium and under nutritional limitation (silica and nitrate) for 12 days. The highest EPA proportions and yields were obtained under blue LED in f/2 medium (16.5% and 4.8 mg g-1 , respectively), double the values obtained under red LED illumination. The fucoxanthin yield was the highest when cells were subjected to blue LEDs (5.9 mg g-1 ), a fourfold increase compared to the nitrogen-limited treatment under white LEDs. These results indicate that a two-stage approach to the batch cultivation of this diatom can be used for enhancing the production of the high-value metabolites fucoxanthin and EPA post-stationary phase.
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Affiliation(s)
- Rachel Parkes
- School of Science, Department of Environmental Science, Centre for Environmental Research, Sustainability and Innovation, Institute of Technology Sligo, Sligo, Ireland
| | - Lorraine Archer
- Algal Innovation Centre, Department of Plant Sciences, University of Cambridge, Cambridge, UK
| | | | - Thomas J Smyth
- School of Science, Department of Health and Nutritional Sciences, Cellular Health and Toxicology Research Group (CHAT), Institute of Technology Sligo, Sligo, Ireland
| | - Eoin Gillespie
- School of Science, Department of Environmental Science, Centre for Environmental Research, Sustainability and Innovation, Institute of Technology Sligo, Sligo, Ireland
| | - Nicolas Touzet
- School of Science, Department of Environmental Science, Centre for Environmental Research, Sustainability and Innovation, Institute of Technology Sligo, Sligo, Ireland
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21
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Soós V, Shetty P, Maróti G, Incze N, Badics E, Bálint P, Ördög V, Balázs E. Biomolecule composition and draft genome of a novel, high-lipid producing Scenedesmaceae microalga. ALGAL RES 2021. [DOI: 10.1016/j.algal.2020.102181] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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22
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Cui Y, Thomas-Hall SR, Chua ET, Schenk PM. Development of High-Level Omega-3 Eicosapentaenoic Acid (EPA) Production from Phaeodactylum tricornutum. JOURNAL OF PHYCOLOGY 2021; 57:258-268. [PMID: 33025589 DOI: 10.1111/jpy.13082] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2020] [Revised: 09/21/2020] [Accepted: 09/22/2020] [Indexed: 06/11/2023]
Abstract
Phaeodactylum tricornutum is a lipid-rich marine diatom that contains a high level of omega-3 polyunsaturated fatty acids, especially eicosapentaenoic acid (EPA). In an effort to reduce costs for large-scale cultivation of this microalga, this study first established a New BBM medium (0.3 x strength BBM with only 3% of the initial phosphate level) to replace the traditional F/2 medium. Phaeodactylum tricornutum could grow in extremely low phosphate concentrations (25 µM), without compromising the EPA content. In the presence of sea salts, silicate addition was not necessary for high rate growth, high EPA content, or lipid accumulation in this species. Using urea as the sole nitrogen source tended to increase EPA contents per dry biomass (by 24.7%) while not affecting growth performance. The use of sea salts, rather than just sodium chloride, led to significantly improved biomass yields (20% increase) and EPA contents of total fatty acid (46-52% increase), most likely because it supplied sufficient essential elements such as magnesium. A salinity level of 35 led to significantly higher biomass yields compared with 20, but salinity had no significant influence on EPA content. EPA became the dominant fatty acid with average levels of 51.8% of total fatty acids during the exponential growth phase at 20 ppt in New BBM medium with sea salts.
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Affiliation(s)
- Yi Cui
- Algae Biotechnology Laboratory, School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Skye R Thomas-Hall
- Algae Biotechnology Laboratory, School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Elvis T Chua
- Algae Biotechnology Laboratory, School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Peer M Schenk
- Algae Biotechnology Laboratory, School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
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23
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Liu B, Sun Y, Hang W, Wang X, Xue J, Ma R, Jia X, Li R. Characterization of a Novel Acyl-ACP Δ 9 Desaturase Gene Responsible for Palmitoleic Acid Accumulation in a Diatom Phaeodactylum tricornutum. Front Microbiol 2020; 11:584589. [PMID: 33391203 PMCID: PMC7772203 DOI: 10.3389/fmicb.2020.584589] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2020] [Accepted: 11/17/2020] [Indexed: 12/23/2022] Open
Abstract
Palmitoleic acid (16:1Δ9) possesses a double bond at the seventh carbon atom from methyl end of the acyl chain and belongs to unusual ω-7 monounsaturated fatty acids with broad applications in food, pharmaceuticals, cosmetics, biofuel, and other industries. This high-value fatty acid accumulates up to >40% of total lipid in the marine diatom Phaeodactylum tricornutum. The present study was conducted to determine the key gene responsible for 16:1Δ9 biosynthesis in this unicellular alga. A new full-length cDNA and genomic DNA encoding acyl-ACP Δ9 desaturase (PtAAD) were isolated from P. tricornutum cells. Expression levels of PtAAD gene under normal and stress culture conditions were both positively correlated with 16:1Δ9 accumulation, implying its potential role for fatty acid determination. Functional complementation assay of a yeast mutant strain BY4839 evidenced that PtAAD could restore the synthesis of unsaturated fatty acid, especially generating high levels of 16:1Δ9. Further transient expression of PtAAD gene in Nicotiana benthamiana leaves was accompanied by the accumulation of 16:1Δ9, which was absent from control groups. Three-dimensional structure modeling studies showed that functional domain of PtAAD contained three variant amino acids (F160, A223, and L156), which may narrow the space shape of substrate-binding cavity to ensure the entry of 16:0-ACP. Consistent with this prediction, the mutated version of PtAAD gene (F160L, A223T, and L156M) in N. benthamiana systems failed to accumulate 16:1Δ9, but increased levels of 18:1Δ9. Taken together, PtAAD exhibits a strong enzymatic activity and substrate preference for 16:0-ACP, acting as the key player for high biosynthesis and accumulation of 16:1Δ9 in this alga. These findings provide new insights for better understanding the palmitoleic acid and oil biosynthetic mechanism in P. tricornutum, indicating that PtAAD gene may have practical applications for enriching palmitoleic acid and oil yield in other commercial oleaginous algae and crops.
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Affiliation(s)
- Baoling Liu
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China.,College of Plant Protection, Shanxi Agricultural University, Jinzhong, China
| | - Yan Sun
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
| | - Wei Hang
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
| | - Xiaodan Wang
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
| | - Jinai Xue
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
| | - Ruiyan Ma
- College of Plant Protection, Shanxi Agricultural University, Jinzhong, China
| | - Xiaoyun Jia
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
| | - Runzhi Li
- College of Agriculture, Shanxi Agricultural University, Jinzhong, China
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24
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Shaikh KM, Kumar P, Nesamma AA, Abdin MZ, Jutur PP. Hybrid genome assembly and functional annotation reveals insights on lipid biosynthesis of oleaginous native isolate Parachlorella kessleri, a potential industrial strain for production of biofuel precursors. ALGAL RES 2020. [DOI: 10.1016/j.algal.2020.102118] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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25
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Leyland B, Zarka A, Didi-Cohen S, Boussiba S, Khozin-Goldberg I. High Resolution Proteome of Lipid Droplets Isolated from the Pennate Diatom Phaeodactylum tricornutum (Bacillariophyceae) Strain pt4 provides mechanistic insights into complex intracellular coordination during nitrogen deprivation. JOURNAL OF PHYCOLOGY 2020; 56:1642-1663. [PMID: 32779202 DOI: 10.1111/jpy.13063] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 05/14/2020] [Accepted: 07/12/2020] [Indexed: 05/08/2023]
Abstract
Lipid droplets (LDs) are an organelle conserved amongst all eukaryotes, consisting of a neutral lipid core surrounded by a polar lipid monolayer. Many species of microalgae accumulate LDs in response to stress conditions, such as nitrogen starvation. Here, we report the isolation and proteomic profiling of LD proteins from the model oleaginous pennate diatom Phaeodactylum tricornutum, strain Pt4 (UTEX 646). We also provide a quantitative description of LD morphological ontogeny, and fatty acid content. Novel cell disruption and LD isolation methods, combined with suspension-trapping and nanoflow liquid chromatography coupled to high resolution mass spectrometry, yielded an unprecedented number of LD proteins. Predictive annotation of the LD proteome suggests a broad assemblage of proteins with diverse functions, including lipid metabolism and vesicle trafficking, as well as ribosomal and proteasomal machinery. These proteins provide mechanistic insights into LD processes, and evidence for interactions between LDs and other organelles. We identify for the first time several key steps in diatom LD-associated triacylglycerol biosynthesis. Bioinformatic analyses of the LD proteome suggests multiple protein targeting mechanisms, including amphipathic helices, post-translational modifications, and translocation machinery. This work corroborates recent findings from other strains of P. tricornutum, other diatoms, and other eukaryotic organisms, suggesting that the fundamental proteins orchestrating LDs are conserved, and represent an ancient component of the eukaryotic endomembrane system. We postulate a comprehensive model of nitrogen starvation-induced diatom LDs on a molecular scale, and provide a wealth of candidates for metabolic engineering, with the potential to eventually customize LD contents.
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Affiliation(s)
- Ben Leyland
- The Microalgal Biotechnology Laboratory, The French Associates Institute for Agriculture and Biotechnology, Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boker Campus, Be'er Sheva, 84990, Israel
| | - Aliza Zarka
- The Microalgal Biotechnology Laboratory, The French Associates Institute for Agriculture and Biotechnology, Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boker Campus, Be'er Sheva, 84990, Israel
| | - Shoshana Didi-Cohen
- The Microalgal Biotechnology Laboratory, The French Associates Institute for Agriculture and Biotechnology, Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boker Campus, Be'er Sheva, 84990, Israel
| | - Sammy Boussiba
- The Microalgal Biotechnology Laboratory, The French Associates Institute for Agriculture and Biotechnology, Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boker Campus, Be'er Sheva, 84990, Israel
| | - Inna Khozin-Goldberg
- The Microalgal Biotechnology Laboratory, The French Associates Institute for Agriculture and Biotechnology, Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boker Campus, Be'er Sheva, 84990, Israel
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26
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Xia Y, Zhang YT, Sun JY, Huang H, Zhao Q, Ren LJ. Strategies for enhancing eicosapentaenoic acid production: From fermentation to metabolic engineering. ALGAL RES 2020. [DOI: 10.1016/j.algal.2020.102038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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27
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Kumar G, Shekh A, Jakhu S, Sharma Y, Kapoor R, Sharma TR. Bioengineering of Microalgae: Recent Advances, Perspectives, and Regulatory Challenges for Industrial Application. Front Bioeng Biotechnol 2020; 8:914. [PMID: 33014997 PMCID: PMC7494788 DOI: 10.3389/fbioe.2020.00914] [Citation(s) in RCA: 84] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Accepted: 07/15/2020] [Indexed: 01/14/2023] Open
Abstract
Microalgae, due to their complex metabolic capacity, are being continuously explored for nutraceuticals, pharmaceuticals, and other industrially important bioactives. However, suboptimal yield and productivity of the bioactive of interest in local and robust wild-type strains are of perennial concerns for their industrial applications. To overcome such limitations, strain improvement through genetic engineering could play a decisive role. Though the advanced tools for genetic engineering have emerged at a greater pace, they still remain underused for microalgae as compared to other microorganisms. Pertaining to this, we reviewed the progress made so far in the development of molecular tools and techniques, and their deployment for microalgae strain improvement through genetic engineering. The recent availability of genome sequences and other omics datasets form diverse microalgae species have remarkable potential to guide strategic momentum in microalgae strain improvement program. This review focuses on the recent and significant improvements in the omics resources, mutant libraries, and high throughput screening methodologies helpful to augment research in the model and non-model microalgae. Authors have also summarized the case studies on genetically engineered microalgae and highlight the opportunities and challenges that are emerging from the current progress in the application of genome-editing to facilitate microalgal strain improvement. Toward the end, the regulatory and biosafety issues in the use of genetically engineered microalgae in commercial applications are described.
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Affiliation(s)
- Gulshan Kumar
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Ajam Shekh
- Plant Cell Biotechnology Department, CSIR-Central Food Technological Research Institute (CFTRI), Mysuru, India
| | - Sunaina Jakhu
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Yogesh Sharma
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Ritu Kapoor
- Agricultural Biotechnology Division, National Agri-Food Biotechnology Institute (NABI), Sahibzada Ajit Singh Nagar, India
| | - Tilak Raj Sharma
- Division of Crop Science, Indian Council of Agricultural Research, New Delhi, India
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Seo S, Kim J, Lee JW, Nam O, Chang KS, Jin E. Enhanced pyruvate metabolism in plastids by overexpression of putative plastidial pyruvate transporter in Phaeodactylum tricornutum. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:120. [PMID: 32670407 PMCID: PMC7350735 DOI: 10.1186/s13068-020-01760-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2020] [Accepted: 07/02/2020] [Indexed: 05/10/2023]
Abstract
BACKGROUND The development of microalgal strains for enhanced biomass and biofuel production has received increased attention. Moreover, strain development via metabolic engineering for commercial production is being considered as the most efficient strategy. Pyruvate is an essential metabolite in the cells and plays an essential role in amino acid biosynthesis and de novo fatty acid biosynthesis in plastids. Although pyruvate can be a valuable target for metabolic engineering, its transporters have rarely been studied in microalgae. In this study, we aimed to identify the plastidial pyruvate transporter of Phaeodactylum tricornutum and utilize it for strain development. RESULTS We identified putative pyruvate transporter localized in the plastid membrane of Phaeodactylum tricornutum. Transformants overexpressing the pyruvate transporter were generated to increase the influx of pyruvate into plastids. Overexpression of a plastidial pyruvate transporter in P. tricornutum resulted in enhanced biomass (13.6% to 21.9%), lipid contents (11% to 30%), and growth (3.3% to 8.0%) compared to those of wild type during one-stage cultivation. CONCLUSION To regulate the pyruvate influx and its metabolism in plastids, we generated transformants overexpressing the putative plastidial pyruvate transporter in P. tricornutum. They showed that its overexpression for compartmentalizing pyruvate in plastids could be an attractive strategy for the effective production of biomass and lipids with better growth, via enhanced pyruvate metabolism in plastids.
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Affiliation(s)
- Seungbeom Seo
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
| | - Joon Kim
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
| | - Jun-Woo Lee
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
| | - Onyou Nam
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
| | - Kwang Suk Chang
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
| | - EonSeon Jin
- Department of Life Science, Research Institute for Natural Sciences, Hanyang University, Seoul, 04763 Republic of Korea
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29
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An M, Yang S, Wu H, Luo G, Li M. Recommended turbulent energy dissipation rate for biomass and lipid production of Scenedesmus obliquus in an aerated photosynthetic culture system. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:26473-26483. [PMID: 32367240 DOI: 10.1007/s11356-020-08700-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Accepted: 03/31/2020] [Indexed: 06/11/2023]
Abstract
Effects of turbulent energy dissipation rate (increased from 1.28 × 10-6 to 1.67 × 10-5 m2 s-3) on Scenedesmus obliquus biomass and lipid accumulation at different aeration rates (0.3, 0.6, 0.9, 1.2, and 1.5 L min-1) were investigated. The turbulent energy dissipation rate was calculated by CFD model simulation. When the turbulent energy dissipation rate increased to 7.30 × 10-6 m2 s-3, the biomass and lipid productivity increased gradually, and finally reached their maximum values of 1.11 × 107 cells mL-1 and 16.0 mg L-1 day-1, respectively. When it exceeded 7.30 × 10-6 m2 s-3, the biomass and lipid productivity showed a decreasing trend. Therefore, the most favorable turbulent energy dissipation rate for S. obliquus growth and lipid accumulation was 7.30 × 10-6 m2 s-3.
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Affiliation(s)
- Mei An
- Gansu Microalgae Technology Innovation Center, Key laboratory of Hexi Corridor Resources Utilization of Gansu, Hexi University, Zhangye, Gansu, 734000, People's Republic of China
- College of Natural Resources and Environment, Northwest Agriculture and Forestry University, Yangling, 712100, People's Republic of China
| | - Songqi Yang
- Gansu Microalgae Technology Innovation Center, Key laboratory of Hexi Corridor Resources Utilization of Gansu, Hexi University, Zhangye, Gansu, 734000, People's Republic of China
| | - Haiming Wu
- College of Natural Resources and Environment, Northwest Agriculture and Forestry University, Yangling, 712100, People's Republic of China
| | - Guanghong Luo
- Gansu Microalgae Technology Innovation Center, Key laboratory of Hexi Corridor Resources Utilization of Gansu, Hexi University, Zhangye, Gansu, 734000, People's Republic of China.
| | - Ming Li
- College of Natural Resources and Environment, Northwest Agriculture and Forestry University, Yangling, 712100, People's Republic of China.
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30
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Zhang S, Han B, Wu F, Huang H. Quantitative proteomic analysis provides insights into the algicidal mechanism of Halobacillus sp. P1 against the marine diatom Skeletonema costatum. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 717:137048. [PMID: 32070889 DOI: 10.1016/j.scitotenv.2020.137048] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Revised: 01/30/2020] [Accepted: 01/30/2020] [Indexed: 06/10/2023]
Abstract
Algicidal behavior is a common interaction between marine microalgae and bacteria, especially in the dissipation phase of algal blooms. The marine bacterium Halobacillus sp. P1 was previously isolated and exhibits high algicidal activity against the diatom Skeletonema costatum. However, little is known about the mechanism underlying this algicidal process. Here, a tandem mass tag (TMT)-based proteomic approach was coupled with physiological analysis to investigate the cellular responses of S. costatum when treated with P1 culture supernatant. Among the 4582 proteins identified, 82 and 437 proteins were differentially expressed after treatment for 12 and 24 h, respectively. The proteomic results were in accordance with the results of verification by parallel reaction monitoring (PRM) assays. Proteins involved in reactive oxygen species scavenging, protein degradation and transport were upregulated, while proteins participating in nitrogen metabolism, protein translation, photosynthetic pigment biosynthesis and cell cycle regulation were significantly downregulated (p-value ≤0.05), corresponding to the increasing malondialdehyde content and the decreasing nitrogen, protein and chlorophyll a contents. A nutrient competitive relationship might exist between the bacterium P1 and S. costatum, and the inhibition of nitrogen metabolism by the P1 culture supernatant might be the key lethal factor that results in the dysfunction of S. costatum metabolism. Our study sheds light on the algicidal mechanism of P1 at the molecular level and provides new insights into algae-bacteria interactions.
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Affiliation(s)
- Shufei Zhang
- Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Beibei Han
- Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Fengxia Wu
- Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Honghui Huang
- Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China.
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Cai H, Liang J, Ning XA, Lai X, Li Y. Algal toxicity induced by effluents from textile-dyeing wastewater treatment plants. J Environ Sci (China) 2020; 91:199-208. [PMID: 32172968 DOI: 10.1016/j.jes.2020.01.004] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 01/13/2020] [Accepted: 01/14/2020] [Indexed: 06/10/2023]
Abstract
This research aimed to evaluate the alga Scenedesmus obliquus toxicity induced by textile-dyeing effluents (TDE). The toxicity indicator of TDE in alga at the physiological (algal growth), biochemical (chlorophyll-a (Chl-a) synthesis and superoxide dismutase (SOD) activity) and structural (cell membrane integrity) level were investigated. Then we further study the relationship among toxicity indicators at physiological and biochemical level, and supplemented by research on algal biomacromolecules. According to the analysis of various endpoints of the alga, the general sensitivity sequence of toxicity endpoints of Scenedesmus obliquus was: SOD activity > Chl-a synthesis > algal growth. The stimulation rate of SOD activity increased from day 3 (57.25%~83.02%) to day 6 (57.25%~103.81%), and then decreased on day 15 (-4.23%~-32.96%), which indicated that the antioxidant balance system of the algal cells was destroyed. The rate of Chl-a synthesis inhibition increased gradually, reaching 19.70%~79.39% on day 15, while the rate of growth inhibition increased from day 3 (-12.90%~10.16%) to day 15 (-21.27%~72.46%). Moreover, the algal growth inhibition rate was positively correlated with the inhibition rate of SOD activity or Chl-a synthesis, with the correlation coefficients were 0.6713 and 0.5217, respectively. Algal cells would be stimulating to produce excessive reactive oxygen species, which would cause peroxidation in the cells, thereby destroying chloroplasts, inhibiting chlorophyll synthesis and reducing photosynthesis. With increasing exposure time, irreversible damage to algae can lead to death. This study is expected to enhance our understanding of the ecological risks through algal tests caused by TDE.
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Affiliation(s)
- Hualing Cai
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China
| | - Jieying Liang
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China; School of Chemical Engineering, The University of New South Wales, Sydney, NSW 2052, Australia
| | - Xun-An Ning
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China; Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, China.
| | - Xiaojun Lai
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China
| | - Yang Li
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China
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Nagappan S, Devendran S, Tsai PC, Jayaraman H, Alagarsamy V, Pugazhendhi A, Ponnusamy VK. Metabolomics integrated with transcriptomics and proteomics: Evaluation of systems reaction to nitrogen deficiency stress in microalgae. Process Biochem 2020. [DOI: 10.1016/j.procbio.2019.11.027] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Wang H, Chen F, Mi T, Liu Q, Yu Z, Zhen Y. Responses of Marine Diatom Skeletonema marinoi to Nutrient Deficiency: Programmed Cell Death. Appl Environ Microbiol 2020; 86:e02460-19. [PMID: 31757826 PMCID: PMC6974647 DOI: 10.1128/aem.02460-19] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2019] [Accepted: 11/15/2019] [Indexed: 11/20/2022] Open
Abstract
Diatoms are important phytoplankton and contribute greatly to the primary productivity of marine ecosystems. Despite the ecological significance of diatoms and the importance of programmed cell death (PCD) in the fluctuation of diatom populations, little is known about the molecular mechanisms of PCD triggered by different nutrient stresses. Here we describe the physiological, morphological, biochemical, and molecular changes in response to low levels of nutrients in the ubiquitous diatom Skeletonema marinoi The levels of gene expression involved in oxidation resistance and PCD strongly increased upon nitrogen (N) or phosphorus (P) starvation. The enzymatic activity of caspase 3-like protein also increased. Differences in mRNA levels and protein activities were observed between the low-N and low-P treatments, suggesting that PCD could have a differential response to different nutrient stresses. When cultures were replete with N or P, the growth inhibition stopped. Meanwhile, the enzymatic activity of caspase 3-like protein and the number of cells with damaged membranes decreased. These results suggest that PCD is an important cell fate decision mechanism in the marine diatom S. marinoi Our results provide important insight into how diatoms adjust phenotypic and genotypic features of their cell-regulated death programs when stressed by nutrient limitations. Overall, this study could allow us to better understand the molecular mechanism behind the formation and termination of diatom blooms in the marine environment.IMPORTANCE Our study showed how the ubiquitous diatom S. marinoi responded to different nutrient limitations with PCD in terms of physiological, morphological, biochemical, and molecular characteristics. Some PCD-related genes (PDCD4, GOX, and HSP90) induced by N deficiency were relatively upregulated compared to those induced by P deficiency. In contrast, the expression of the TSG101 gene in S. marinoi showed a clear and constant increase during P limitation compared to N limitation. These findings suggest that PCD is a complex mechanism involving several different proteins. The systematic mRNA level investigations provide new insight into understanding the oxidative stress- and cell death-related functional genes of diatoms involved in the response to nutrient fluctuations (N or P stress) in the marine environment.
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Affiliation(s)
- Hualong Wang
- College of Marine Life Science, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Institute of Marine and Environmental Technology, University of Maryland Center for Environmental Science, Baltimore, Maryland, USA
| | - Feng Chen
- Institute of Marine and Environmental Technology, University of Maryland Center for Environmental Science, Baltimore, Maryland, USA
| | - Tiezhu Mi
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao, China
- College of Environmental Science and Engineering, Ocean University of China, Qingdao, China
| | - Qian Liu
- College of Marine Life Science, Ocean University of China, Qingdao, China
| | - Zhigang Yu
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Key Laboratory of Marine Chemical Theory and Technology, Ministry of Education, Qingdao, China
| | - Yu Zhen
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao, China
- College of Environmental Science and Engineering, Ocean University of China, Qingdao, China
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Cui Y, Thomas-Hall SR, Schenk PM. Phaeodactylum tricornutum microalgae as a rich source of omega-3 oil: Progress in lipid induction techniques towards industry adoption. Food Chem 2019; 297:124937. [DOI: 10.1016/j.foodchem.2019.06.004] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2018] [Revised: 06/01/2019] [Accepted: 06/02/2019] [Indexed: 10/26/2022]
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Smith SR, Dupont CL, McCarthy JK, Broddrick JT, Oborník M, Horák A, Füssy Z, Cihlář J, Kleessen S, Zheng H, McCrow JP, Hixson KK, Araújo WL, Nunes-Nesi A, Fernie A, Nikoloski Z, Palsson BO, Allen AE. Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom. Nat Commun 2019; 10:4552. [PMID: 31591397 PMCID: PMC6779911 DOI: 10.1038/s41467-019-12407-y] [Citation(s) in RCA: 62] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Accepted: 09/03/2019] [Indexed: 01/15/2023] Open
Abstract
Diatoms outcompete other phytoplankton for nitrate, yet little is known about the mechanisms underpinning this ability. Genomes and genome-enabled studies have shown that diatoms possess unique features of nitrogen metabolism however, the implications for nutrient utilization and growth are poorly understood. Using a combination of transcriptomics, proteomics, metabolomics, fluxomics, and flux balance analysis to examine short-term shifts in nitrogen utilization in the model pennate diatom in Phaeodactylum tricornutum, we obtained a systems-level understanding of assimilation and intracellular distribution of nitrogen. Chloroplasts and mitochondria are energetically integrated at the critical intersection of carbon and nitrogen metabolism in diatoms. Pathways involved in this integration are organelle-localized GS-GOGAT cycles, aspartate and alanine systems for amino moiety exchange, and a split-organelle arginine biosynthesis pathway that clarifies the role of the diatom urea cycle. This unique configuration allows diatoms to efficiently adjust to changing nitrogen status, conferring an ecological advantage over other phytoplankton taxa.
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Affiliation(s)
- Sarah R Smith
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA
| | - Chris L Dupont
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA
| | - James K McCarthy
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA
| | - Jared T Broddrick
- Division of Biological Sciences, University of California, San Diego, La Jolla, CA, 92093, USA
- Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA
| | - Miroslav Oborník
- Institute of Parasitology, Biology Centre Czech Academy of Sciences, Branišovská 31, 370 05, České Budějovice, Czech Republic
- Faculty of Science, University of South Bohemia, Branišovská 31, 370 05, České Budějovice, Czech Republic
| | - Aleš Horák
- Institute of Parasitology, Biology Centre Czech Academy of Sciences, Branišovská 31, 370 05, České Budějovice, Czech Republic
- Faculty of Science, University of South Bohemia, Branišovská 31, 370 05, České Budějovice, Czech Republic
| | - Zoltán Füssy
- Institute of Parasitology, Biology Centre Czech Academy of Sciences, Branišovská 31, 370 05, České Budějovice, Czech Republic
- Faculty of Science, University of South Bohemia, Branišovská 31, 370 05, České Budějovice, Czech Republic
| | - Jaromír Cihlář
- Institute of Parasitology, Biology Centre Czech Academy of Sciences, Branišovská 31, 370 05, České Budějovice, Czech Republic
- Faculty of Science, University of South Bohemia, Branišovská 31, 370 05, České Budějovice, Czech Republic
| | - Sabrina Kleessen
- Targenomix, GmbH, Wissenschaftspark Potsdam-Golm, 14476, Potsdam, Germany
| | - Hong Zheng
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA
| | - John P McCrow
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA
| | - Kim K Hixson
- Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, 99352, USA
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
- Max-Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
| | - Adriano Nunes-Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
| | - Alisdair Fernie
- Max Planck Institut of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
| | - Zoran Nikoloski
- Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476, Potsdam, Germany
| | - Bernhard O Palsson
- Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA
| | - Andrew E Allen
- Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, 92037, USA.
- Scripps Institution of Oceanography, Integrative Oceanography Division, University of California, San Diego, La Jolla, CA, 92093, USA.
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Fajardo C, Amil-Ruiz F, Fuentes-Almagro C, De Donato M, Martinez-Rodriguez G, Escobar-Niño A, Carrasco R, Mancera JM, Fernandez-Acero FJ. An “omic” approach to Pyrocystis lunula: New insights related with this bioluminescent dinoflagellate. J Proteomics 2019; 209:103502. [DOI: 10.1016/j.jprot.2019.103502] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Revised: 08/14/2019] [Accepted: 08/19/2019] [Indexed: 01/10/2023]
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Mandal MK, Saikia P, Chanu NK, Chaurasia N. Modulation of lipid content and lipid profile by supplementation of iron, zinc, and molybdenum in indigenous microalgae. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:20815-20828. [PMID: 31111387 DOI: 10.1007/s11356-019-05065-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2018] [Accepted: 04/02/2019] [Indexed: 05/06/2023]
Abstract
The effects of iron (Fe), zinc (Zn), and molybdenum (Mo) on the biomass yield, lipid content, lipid yield, and fatty acid composition of Chlorella sp. NC-MKM, Graesiella emersonii NC-M1, Scenedesmus acutus NC-M2, and Chlorophyta sp. NC-M5 were studied. Among them, G. emersonii NC-M1 recorded the highest percentage increase in lipid content (140.3%) and neutral lipid (50.9%) under Zn-supplemented condition compared to the control. Also, it showed a 105% and 41.88% increase in lipid yield and neutral lipid under Fe-supplemented condition compared to the control. However, Chlorella sp. NC-MKM recorded an elevation in lipid yield (70.3% rise) and neutral lipid (24.32% rise) compared to the control in Mo-supplemented condition. The enhanced production of reactive oxygen species (ROS) and antioxidant enzyme (SOD and POD) under Fe-, Zn-, and Mo-supplemented condition supports the lipid accumulation. FAME analysis showed that the overall percentage of SFA and MUFA increased after the addition of Fe, Zn, and Mo in a culture medium compared to the control which is vital for a good-quality biodiesel. Further, biodiesel properties derived from FAMEs such as CN, SV, IV, CFPP, OS, υ, ρ, and HHV were found in accordance with biodiesel standard.
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Affiliation(s)
- Madan Kumar Mandal
- Environmental Biotechnology laboratory, Department of Biotechnology and Bioinformatics, North-Eastern Hill University, Shillong, 793022, India
| | - Papori Saikia
- Environmental Biotechnology laboratory, Department of Biotechnology and Bioinformatics, North-Eastern Hill University, Shillong, 793022, India
| | - Ng Kunjarani Chanu
- Environmental Biotechnology laboratory, Department of Biotechnology and Bioinformatics, North-Eastern Hill University, Shillong, 793022, India
| | - Neha Chaurasia
- Environmental Biotechnology laboratory, Department of Biotechnology and Bioinformatics, North-Eastern Hill University, Shillong, 793022, India.
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Khan MAK, Yang J, Hussain SA, Zhang H, Garre V, Song Y. Genetic Modification of Mucor circinelloides to Construct Stearidonic Acid Producing Cell Factory. Int J Mol Sci 2019; 20:ijms20071683. [PMID: 30987311 PMCID: PMC6480972 DOI: 10.3390/ijms20071683] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2019] [Revised: 03/30/2019] [Accepted: 04/01/2019] [Indexed: 12/29/2022] Open
Abstract
Stearidonic acid (SDA; 18:4, n-3) is the delta 15-desaturase product of gamma linolenic acid (GLA; 18:3, n-6) and delta 6-desaturase product of alpha linolenic acid (ALA; 18:3, n-3). Construction of engineered oleaginous microbes have been attracting significant interest in producing SDA because of its nutritional value and pharmaceutical applications. Mucor circinelloides is a GLA producing filamentous fungus, which can be a useful tool to produce SDA. This study has, therefore, overexpressed the delta-15 desaturase (D15D) gene from Mortierella alpina in this fungus to construct a SDA-producing cell factory. To produce SDA in M. circinelloides, the homologous overexpression of D15D gene was analyzed. When the gene was overexpressed in M. circinelloides CBS 277.49, up to 5.0% SDA was accumulated in this strain. According to current knowledge, this is the first study describing the construction of a SDA-producing cell factory by overexpression of D15D gene in oleaginous fungus M. circinelloides. A new scope for further research has been established by this work to improve SDA production in this fungus, specifically in its high lipid-producing strain, WJ11.
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Affiliation(s)
- Md Ahsanul Kabir Khan
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, Shandong, China.
| | - Junhuan Yang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, Shandong, China.
- Departmento de Genética y Microbiología (Unidad Asociada al Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas), Facultad de Biología, Universidad de Murcia, Murcia 30100, Spain.
| | - Syed Ammar Hussain
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, Shandong, China.
| | - Huaiyuan Zhang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, Shandong, China.
| | - Victoriano Garre
- Departmento de Genética y Microbiología (Unidad Asociada al Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas), Facultad de Biología, Universidad de Murcia, Murcia 30100, Spain.
| | - Yuanda Song
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo 255000, Shandong, China.
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Khan MAK, Yang J, Hussain SA, Zhang H, Liang L, Garre V, Song Y. Construction of DGLA producing cell factory by genetic modification of Mucor circinelloides. Microb Cell Fact 2019; 18:64. [PMID: 30943965 PMCID: PMC6448318 DOI: 10.1186/s12934-019-1110-4] [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] [Received: 10/31/2018] [Accepted: 03/20/2019] [Indexed: 12/11/2022] Open
Abstract
Background Dihomo-gamma linolenic acid (DGLA, 20:3, n-6) is the elongated product of Gamma linolenic acid (GLA, 18:3, n-6) catalyzed by the enzyme delta-6 elongase (D6E) or gamma linolenic acid elongase (GLELO). Construction of engineered oleaginous microbes have been attracting significant interest to produce DGLA because of its nutritional value and medicinal applications. Mucor circinelloides is a GLA producing filamentous fungus which can be a useful tool to produce DGLA. We have, therefore, overexpressed the D6E (GLELO) gene in this fungus to construct DGLA producing cell factory. Result To produce DGLA in M. circinelloides, homologous overexpression of D6E (GLELO) gene was analyzed. When the gene was overexpressed in M. circinelloides CBS277.49, up to 5.72% DGLA was produced in this strain. Conclusion To our knowledge, this is the first report describing the overexpression of D6E (GLELO) gene in M. circinelloides to construct DGLA producing cell factory. A new scope for further research has been established by this work for improved production of DGLA in this fungus, specifically in its high lipid-producing strain, WJ11. Electronic supplementary material The online version of this article (10.1186/s12934-019-1110-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Md Ahsanul Kabir Khan
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, People's Republic of China
| | - Junhuan Yang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, People's Republic of China.,Departmento de Genética y Microbiología (Unidad Asociada al Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas), Facultad de Biología, Universidad de Murcia, 30100, Murcia, Spain
| | - Syed Ammar Hussain
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, People's Republic of China
| | - Huaiyuan Zhang
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, People's Republic of China
| | - Li Liang
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, Jiangnan University, Wuxi, 21412, Jiangsu, China
| | - Victoriano Garre
- Departmento de Genética y Microbiología (Unidad Asociada al Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas), Facultad de Biología, Universidad de Murcia, 30100, Murcia, Spain.
| | - Yuanda Song
- Colin Ratledge Center for Microbial Lipids, School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, 255000, Shandong, People's Republic of China.
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Sun XM, Ren LJ, Zhao QY, Ji XJ, Huang H. Enhancement of lipid accumulation in microalgae by metabolic engineering. Biochim Biophys Acta Mol Cell Biol Lipids 2019; 1864:552-566. [DOI: 10.1016/j.bbalip.2018.10.004] [Citation(s) in RCA: 63] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Revised: 07/30/2018] [Accepted: 10/05/2018] [Indexed: 01/08/2023]
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Huang Y, Hong J, Liang C, Li G, Shen L, Zhang H, Hu X, Chen X. Nitrogen limitation affects the sinking property of Microcystis by promoting carbohydrate accumulation. CHEMOSPHERE 2019; 221:665-671. [PMID: 30677727 DOI: 10.1016/j.chemosphere.2019.01.080] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2018] [Revised: 01/09/2019] [Accepted: 01/11/2019] [Indexed: 06/09/2023]
Abstract
Nitrogen limitation has been proven to inhibit Microcystis proliferation, and the significant decline in Microcystis blooms in late summer or autumn has been considered to be related to the nitrogen depletion in water. Sinking loss is another factor that influences the dynamics of cyanobacteria in lakes. However, to date, it is still unclear how the sinking property of Microcystis responds to nitrogen availability. Our results suggest that nitrogen limitation would directly influence sinking property of Microcystis, through a significant increase in the specific density of cells. In the short term, carbohydrate accumulation was mainly responsible for the high specific density, showing a high correlation among the NO3--N concentration, specific density and carbohydrate content. Furthermore, carbohydrates could rapidly accumulate after one light/dark cycle, which was mainly due to the reduction in carbohydrate consumption in the darkness under nitrogen limitation. Under nitrogen-light coupling conditions, the specific density ranged from 1.060 to 1.068, except for the treatment with high-nitrogen plus low-light, which showed the value of 1.032. More importantly, when coupled with low nitrogen, the low light did not decrease the carbohydrate content and the specific density, which implied that the sinking cells could not migrate back to the surface. Accordingly, a hypothesis was proposed that the carbohydrate accumulation induced by low nitrogen availability caused an increase in specific density, which invalidates the buoyancy regulation, and cells sink continually out of the water column. This study explores a new understanding on the disappearance mechanisms of Microcystis blooms in the late summer and fall.
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Affiliation(s)
- Yingying Huang
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China
| | - Jingjie Hong
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China
| | - Chengyu Liang
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China
| | - Gengyang Li
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China
| | - Lin Shen
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China
| | - Haichun Zhang
- Shanghai Environmental Monitoring Center, 55 San Jiang Road, Shanghai, 200235, PR China
| | - Xiongxing Hu
- Shanghai Environmental Monitoring Center, 55 San Jiang Road, Shanghai, 200235, PR China
| | - Xuechu Chen
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, 500 Dong Chuan Road, Shanghai, 200241, PR China; Institute of Eco-Chongming, 3663 N. Zhongshan Road, Shanghai, 200062, PR China.
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Nitrate Reductase Inhibition Induces Lipid Enhancement of Dunaliella Tertiolecta for Biodiesel Production. ScientificWorldJournal 2019; 2018:6834725. [PMID: 30622443 PMCID: PMC6304929 DOI: 10.1155/2018/6834725] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Accepted: 11/05/2018] [Indexed: 11/17/2022] Open
Abstract
Nitrogen stress increases lipids content in microalgae, the main feedstock for algal biodiesel. Sodium tungstate was used in this study to implement nitrogen stress by inhibiting nitrate reductase (NR) in Dunaliella tertiolecta. The reduction of NR activity was accompanied by reduction of chlorophyll and accumulation of lipids. One-stage and two-stage culture strategies were compared. One-stage culture raised total lipids from 18% (control) to 39% (w: w); however, two-stage culture raised lipids to 50% in which neutral lipids were enhanced 2.14 times. To assess the quality of biodiesel produced, fatty acid methyl esters (FAME) composition was studied. It showed a slight variation of unsaturation. In addition, some physical proprieties of biodiesel were estimated and showed that higher heating values were improved by tungstate treatment. In this study, we tried to shed light on some biological impact of NR inhibition in microalgae cells using sodium tungstate which could be exploited in the improvement of biodiesel production.
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Chen XH, Li YY, Zhang H, Liu JL, Xie ZX, Lin L, Wang DZ. Quantitative Proteomics Reveals Common and Specific Responses of a Marine Diatom Thalassiosira pseudonana to Different Macronutrient Deficiencies. Front Microbiol 2018; 9:2761. [PMID: 30487787 PMCID: PMC6246746 DOI: 10.3389/fmicb.2018.02761] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2018] [Accepted: 10/29/2018] [Indexed: 11/13/2022] Open
Abstract
Macronutrients such as nitrogen (N), phosphorus (P), and silicon (Si) are essential for the productivity and distribution of diatoms in the ocean. Responses of diatoms to a particular macronutrient deficiency have been investigated, however, we know little about their common or specific responses to different macronutrients. Here, we investigated the physiology and quantitative proteomics of a diatom Thalassiosira pseudonana grown in nutrient-replete, N-, P-, and Si-deficient conditions. Cell growth was ceased in all macronutrient deficient conditions while cell volume and cellular C content under P- and Si-deficiencies increased. Contents of chlorophyll a, protein and cellular N decreased in both N- and P-deficient cells but chlorophyll a and cellular N increased in the Si-deficient cells. Cellular P content increased under N- and Si-deficiencies. Proteins involved in carbon fixation and photorespiration were down-regulated under all macronutrient deficiencies while neutral lipid synthesis and carbohydrate accumulation were enhanced. Photosynthesis, chlorophyll biosynthesis, and protein biosynthesis were down-regulated in both N- and P-deficient cells, while Si transporters, light-harvesting complex proteins, chloroplastic ATP synthase, plastid transcription and protein synthesis were up-regulated in the Si-deficient cells. Our results provided insights into the common and specific responses of T. pseudonana to different macronutrient deficiencies and identified specific proteins potentially indicating a particular macronutrient deficiency.
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Affiliation(s)
- Xiao-Huang Chen
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Yuan-Yuan Li
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Hao Zhang
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Jiu-Ling Liu
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Zhang-Xian Xie
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Lin Lin
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China
| | - Da-Zhi Wang
- State Key Laboratory of Marine Environmental Science, College of the Environment and Ecology, Xiamen University, Xiamen, China.,Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
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Waqas M, Feng S, Amjad H, Letuma P, Zhan W, Li Z, Fang C, Arafat Y, Khan MU, Tayyab M, Lin W. Protein Phosphatase ( PP2C9) Induces Protein Expression Differentially to Mediate Nitrogen Utilization Efficiency in Rice under Nitrogen-Deficient Condition. Int J Mol Sci 2018; 19:E2827. [PMID: 30235789 PMCID: PMC6163212 DOI: 10.3390/ijms19092827] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Revised: 09/07/2018] [Accepted: 09/10/2018] [Indexed: 02/05/2023] Open
Abstract
Nitrogen (N) is an essential element usually limiting in plant growth and a basic factor for increasing the input cost in agriculture. To ensure the food security and environmental sustainability it is urgently required to manage the N fertilizer. The identification or development of genotypes with high nitrogen utilization efficiency (NUE) which can grow efficiently and sustain yield in low N conditions is a possible solution. In this study, two isogenic rice genotypes i.e., wild-type rice kitaake and its transgenic line PP2C9TL overexpressed protein phosphatase gene (PP2C9) were used for comparative proteomics analysis at control and low level of N to identify specific proteins and encoding genes related to high NUE. 2D gel electrophoresis was used to perform the differential proteome analysis. In the leaf proteome, 30 protein spots were differentially expressed between the two isogenic lines under low N level which were involved in the process of energy, photosynthesis, N metabolism, signaling, and defense mechanisms. In addition, we have found that protein phosphatase enhances nitrate reductase activation by downregulation of SnRK1 and 14-3-3 proteins. Furthermore, we showed that PP2C9TL exhibits higher NUE than WT due to higher activity of nitrate reductase. This study provides new insights on the rice proteome which would be useful in the development of new strategies to increase NUE in cereal crops.
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Affiliation(s)
- Muhammad Waqas
- Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
| | - Shizhong Feng
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Hira Amjad
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Puleng Letuma
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Wenshan Zhan
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Zhong Li
- Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
| | - Changxun Fang
- Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Yasir Arafat
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Muhammad Umar Khan
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
| | - Muhammad Tayyab
- Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
| | - Wenxiong Lin
- Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education/College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
- Key Laboratory of Crop Ecology and Molecular Physiology (Fujian Agriculture and Forestry University), Fujian Province University, Fuzhou 350002, China.
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2D-DIGE comparative proteomic analysis of developing wheat grains under high-nitrogen fertilization revealed key differentially accumulated proteins that promote storage protein and starch biosyntheses. Anal Bioanal Chem 2018; 410:6219-6235. [PMID: 30058028 DOI: 10.1007/s00216-018-1230-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Revised: 04/26/2018] [Accepted: 06/26/2018] [Indexed: 12/30/2022]
Abstract
Nitrogen (N) serves as a macronutrient that is essential to plant growth and development, and significantly influences storage protein and starch biosyntheses and, ultimately, grain yield and quality. In this study, we performed the first comparative proteomic analysis of developing wheat grains under high-N conditions using 2D-DIGE and tandem mass spectrometry. High-N fertilizer application caused significant increases in ear number, ear grain number, and grain yield. 2D-DIGE identified 142 differentially accumulated proteins (DAPs) during grain development in the elite Chinese bread wheat cultivar Zhongmai 175, of which 132 (93%) were identified by MALDI-TOF/TOF-MS, representing 92 unique proteins. These proteins are involved mainly in energy, N and protein metabolism, carbon metabolism, and starch biosynthesis. Subcellular localization prediction and fluorescence confocal microscopic analysis showed that the DAPs identified were localized mainly in the cytosol and chloroplast. Principal component analysis (PCA) revealed a greater proteomic difference among grain developmental periods than between the high-N and control groups. Protein-protein interaction analysis highlighted a complex network centered around enzymes involved in energy, N and protein metabolism, and starch biosynthesis. Six key DAP genes showed expression patterns consistent with their protein accumulation trends during grain development. A putative metabolic pathway was proposed, with synergistic regulatory networks of grain storage protein and starch biosyntheses in response to high-N application.
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Arora N, Pienkos PT, Pruthi V, Poluri KM, Guarnieri MT. Leveraging algal omics to reveal potential targets for augmenting TAG accumulation. Biotechnol Adv 2018; 36:1274-1292. [PMID: 29678388 DOI: 10.1016/j.biotechadv.2018.04.005] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2017] [Revised: 04/11/2018] [Accepted: 04/15/2018] [Indexed: 02/08/2023]
Abstract
Ongoing global efforts to commercialize microalgal biofuels have expedited the use of multi-omics techniques to gain insights into lipid biosynthetic pathways. Functional genomics analyses have recently been employed to complement existing sequence-level omics studies, shedding light on the dynamics of lipid synthesis and its interplay with other cellular metabolic pathways, thus revealing possible targets for metabolic engineering. Here, we review the current status of algal omics studies to reveal potential targets to augment TAG accumulation in various microalgae. This review specifically aims to examine and catalog systems level data related to stress-induced TAG accumulation in oleaginous microalgae and inform future metabolic engineering strategies to develop strains with enhanced bioproductivity, which could pave a path for sustainable green energy.
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Affiliation(s)
- Neha Arora
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Philip T Pienkos
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO 80401, USA
| | - Vikas Pruthi
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Krishna Mohan Poluri
- Department of Biotechnology, Indian Institute of Technology Roorkee, Uttarakhand 247667, India
| | - Michael T Guarnieri
- National Bioenergy Center, National Renewable Energy Laboratory, Golden, CO 80401, USA.
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Brembu T, Mühlroth A, Alipanah L, Bones AM. The effects of phosphorus limitation on carbon metabolism in diatoms. Philos Trans R Soc Lond B Biol Sci 2018; 372:rstb.2016.0406. [PMID: 28717016 PMCID: PMC5516115 DOI: 10.1098/rstb.2016.0406] [Citation(s) in RCA: 59] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/31/2017] [Indexed: 01/26/2023] Open
Abstract
Phosphorus is an essential element for life, serving as an integral component of nucleic acids, lipids and a diverse range of other metabolites. Concentrations of bioavailable phosphorus are low in many aquatic environments. Microalgae, including diatoms, apply physiological and molecular strategies such as phosphorus scavenging or recycling as well as adjusting cell growth in order to adapt to limiting phosphorus concentrations. Such strategies also involve adjustments of the carbon metabolism. Here, we review the effect of phosphorus limitation on carbon metabolism in diatoms. Two transcriptome studies are analysed in detail, supplemented by other transcriptome, proteome and metabolite data, to gain an overview of different pathways and their responses. Phosphorus, nitrogen and silicon limitation responses are compared, and similarities and differences discussed. We use the current knowledge to propose a suggestive model for the carbon flow in phosphorus-replete and phosphorus-limited diatom cells. This article is part of the themed issue ‘The peculiar carbon metabolism in diatoms’.
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Affiliation(s)
- Tore Brembu
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Alice Mühlroth
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Leila Alipanah
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Atle M Bones
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
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Zulu NN, Zienkiewicz K, Vollheyde K, Feussner I. Current trends to comprehend lipid metabolism in diatoms. Prog Lipid Res 2018. [DOI: 10.1016/j.plipres.2018.03.001] [Citation(s) in RCA: 104] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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Proteomic Analysis of the Chlorophyta Dunaliella New Strain AL-1 Revealed Global Changes of Metabolism during High Carotenoid Production. Mar Drugs 2017; 15:md15090293. [PMID: 28930152 PMCID: PMC5618432 DOI: 10.3390/md15090293] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 08/27/2017] [Accepted: 08/31/2017] [Indexed: 01/09/2023] Open
Abstract
The green microalgae Dunaliella genus is known for the production of high added value molecules. In this study, strain AL-1 was isolated from the Sebkha of Sidi El Hani (Sousse, Tunisia). This isolate was identified both morphologically and genetically via 18S rRNA gene sequence as a member of the genus Dunaliella. Strain AL-1 was found to be closely related to Dunaliella salina, Dunaliella quartolecta and Dunaliella polymorpha with more than 97% similarity. Response surface methodology was used to maximize carotenoid production by strain AL-1 by optimizing its growth conditions. The highest carotenoid content was obtained at salinity: 51, light intensity: 189.89 μmol photons·m-2·s-1, and nitrogen: 60 mg·L-1. Proteomic profiling, using two-dimensional gel electrophoresis, was performed from standard and optimized cultures. We detected 127 protein spots which were significantly differentially expressed between standard and optimized cultures. Among them 16 protein spots were identified with mass spectrometry and grouped into different functional categories using KEGG (Kyoto Encyclopedia of Genes and Genomes) such as photosynthetic Calvin cycle, regulation/defense, energy metabolism, glycolysis, and cellular processes. The current study could be of great interest in providing information on the effect of stressful conditions in microalgae carotenoid production.
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50
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Lin Q, Liang JR, Huang QQ, Luo CS, Anderson DM, Bowler C, Chen CP, Li XS, Gao YH. Differential cellular responses associated with oxidative stress and cell fate decision under nitrate and phosphate limitations in Thalassiosira pseudonana: Comparative proteomics. PLoS One 2017; 12:e0184849. [PMID: 28910417 PMCID: PMC5599023 DOI: 10.1371/journal.pone.0184849] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2017] [Accepted: 08/31/2017] [Indexed: 01/09/2023] Open
Abstract
Diatoms are important components of marine ecosystems and contribute greatly to the world's primary production. Despite their important roles in ecosystems, the molecular basis of how diatoms cope with oxidative stress caused by nutrient fluctuations remains largely unknown. Here, an isobaric tags for relative and absolute quantitation (iTRAQ) proteomic method was coupled with a series of physiological and biochemical techniques to explore oxidative stress- and cell fate decision-related cellular and metabolic responses of the diatom Thalassiosira pseudonana to nitrate (N) and inorganic phosphate (P) stresses. A total of 1151 proteins were detected; 122 and 56 were significantly differentially expressed from control under N- and P-limited conditions, respectively. In N-limited cells, responsive proteins were related to reactive oxygen species (ROS) accumulation, oxidative stress responses and cell death, corresponding to a significant decrease in photosynthetic efficiency, marked intracellular ROS accumulation, and caspase-mediated programmed cell death activation. None of these responses were identified in P-limited cells; however, a significant up-regulation of alkaline phosphatase proteins was observed, which could be the major contributor for P-limited cells to cope with ambient P deficiency. These findings demonstrate that fundamentally different metabolic responses and cellular regulations are employed by the diatom in response to different nutrient stresses and to keep the cells viable.
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Affiliation(s)
- Qun Lin
- School of Pharmaceutical Sciences, Xiamen University, Xiamen, China
- School of Life Sciences, Xiamen University, Xiamen, China
| | - Jun-Rong Liang
- School of Life Sciences, Xiamen University, Xiamen, China
- Key Laboratory of the Coastal and Wetland Ecosystems (Xiamen University), Ministry of Education, Xiamen, China
- * E-mail:
| | | | - Chun-Shan Luo
- School of Life Sciences, Xiamen University, Xiamen, China
| | - Donald M. Anderson
- Biology Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, United States of America
| | - Chris Bowler
- Ecology and Evolutionary Biology Section, CNRS UMR8197 INSERM U1024, Institut de Biologie de l’Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, 46 rue d’Ulm, Paris, France
| | - Chang-Ping Chen
- School of Life Sciences, Xiamen University, Xiamen, China
- Key Laboratory of the Coastal and Wetland Ecosystems (Xiamen University), Ministry of Education, Xiamen, China
| | - Xue-Song Li
- School of Life Sciences, Xiamen University, Xiamen, China
| | - Ya-Hui Gao
- School of Life Sciences, Xiamen University, Xiamen, China
- Key Laboratory of the Coastal and Wetland Ecosystems (Xiamen University), Ministry of Education, Xiamen, China
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