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Pan C, Yin J, Ma B, Wen J, Luo P. Whole-genome sequence and characterization of a marine red yeast, Rhodosporidium sphaerocarpum GDMCC 60679, featuring the assimilation of ammonia nitrogen. J Biosci Bioeng 2024; 137:85-93. [PMID: 38155026 DOI: 10.1016/j.jbiosc.2023.12.007] [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: 08/01/2023] [Revised: 12/07/2023] [Accepted: 12/11/2023] [Indexed: 12/30/2023]
Abstract
A marine red yeast, Rhodosporidium sphaerocarpum, is generally used for the production of lipids and carotenoids. In a previous study, we demonstrated that a marine-derived R. sphaerocarpum GDMCC 60679 can efficiently remove ammonia nitrogen and exhibit multiple probiotic functions for shrimp, Litopenaeus vannamei. Here, we performed a genome assembly of the strain GDMCC 60679 using a combination of the data from Illumina PE and PacBio CLR reads. The genome has a size of 18.03 Mb and consists of 32 contigs with an N50 length of 1,074,774 bp and GC content of 63 %. The genome was predicted to contain 6092 protein-coding genes, 5962 of which were functionally annotated. Metabolic pathways responsible for the ammonia assimilation and the synthesis of lipids and carotenoids were particularly examined to explore and characterize genes contributing to these functions. Whole-genome sequence and annotation of the strain lays a foundation to reveal the molecular mechanism of its prominent biological functions and will facilitate us to further expand new applications of yeasts in Rhodosporidium.
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Affiliation(s)
- Chuanhao Pan
- Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
| | - Jiayue Yin
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology (LMB), Guangdong Provincial Key Laboratory of Applied Marine Biology (LAMB), South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Bo Ma
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology (LMB), Guangdong Provincial Key Laboratory of Applied Marine Biology (LAMB), South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jing Wen
- Department of Biology, Lingnan Normal University, Zhanjiang 524048, China
| | - Peng Luo
- Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China; CAS Key Laboratory of Tropical Marine Bio-resources and Ecology (LMB), Guangdong Provincial Key Laboratory of Applied Marine Biology (LAMB), South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China.
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2
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Timotheo CA, Fabricio MF, Ayub MAZ, Valente P. Evaluation of cell disruption methods in the oleaginous yeasts Yarrowia lipolytica QU21 and Meyerozyma guilliermondii BI281A for microbial oil extraction. AN ACAD BRAS CIENC 2023; 95:e20191256. [PMID: 38055604 DOI: 10.1590/0001-3765202320191256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2019] [Accepted: 03/09/2020] [Indexed: 12/08/2023] Open
Abstract
The interest for oleaginous yeasts has grown significantly in the last three decades, mainly due to their potential use as a renewable source of microbial oil or single cell oils (SCOs). However, the methodologies for cell disruption to obtain the microbial oil are considered critical and determinant for a large-scale production. Therefore, this work aimed to evaluate different methods for cell wall disruption for the lipid extraction of Yarrowia lipolytica QU21 and Meyerozyma guilliermondii BI281A. The two strains were separately cultivated in 5 L batch fermenters for 120 hours, at 26 ºC and 400 rpm. Three different lipid extraction processes using Turrax homogenizer, Ultrasonicator and Braun homogenizer combined with bead milling were applied in wet, oven-dried, and freeze-dried biomass of both strains. The treatment with the highest percentage of disrupted cells and highest oil yield was the ultrasonication of oven-dried biomass (37-40% lipid content for both strains). The fact that our results point to one best extraction strategy for two different yeast strains, belonging to different species, is a great news towards the development of a unified technique that could be applied at industrial plants.
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Affiliation(s)
- Carina A Timotheo
- Universidade Federal do Rio Grande do Sul, Instituto de Ciências Básicas da Saúde, Departamento de Microbiologia, Imunologia e Parasitologia, Laboratório de Micologia, Rua Sarmento Leite, 500, 90050-170 Porto Alegre, RS, Brazil
| | - Mariana F Fabricio
- Universidade Federal do Rio Grande do Sul, Instituto de Ciência e Tecnologia, Laboratório de Biotecnologia e Engenharia Bioquímica, Av. Bento Gonçalves, 9500, 91501-970 Porto Alegre, RS, Brazil
| | - Marco Antônio Z Ayub
- Universidade Federal do Rio Grande do Sul, Instituto de Ciência e Tecnologia, Laboratório de Biotecnologia e Engenharia Bioquímica, Av. Bento Gonçalves, 9500, 91501-970 Porto Alegre, RS, Brazil
| | - Patricia Valente
- Universidade Federal do Rio Grande do Sul, Instituto de Ciências Básicas da Saúde, Departamento de Microbiologia, Imunologia e Parasitologia, Laboratório de Micologia, Rua Sarmento Leite, 500, 90050-170 Porto Alegre, RS, Brazil
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Tanimura A, Adachi H, Tanabe K, Ogawa J, Shima J. Hannaella oleicumulans sp. nov. and Hannaella higashiohmiensis sp. nov., two novel oleaginous basidiomycetous yeast species. Int J Syst Evol Microbiol 2023; 73. [PMID: 37728232 DOI: 10.1099/ijsem.0.006027] [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] [Indexed: 09/21/2023] Open
Abstract
Three strains of novel oleaginous yeast species were isolated from soil samples collected in Shiga Prefecture, Japan. The sequences of the internal transcribed spacer (ITS) region and the D1/D2 region of the large subunit (LSU) of the rRNA genes indicated that these novel yeast species are members of the genus Hannaella. The results of molecular phylogenetic analysis indicated that strains 38-3 and 8s1 were closely related to Hannaella oryzae. They differed by 10 nucleotide substitutions and one gap (1.77 %) in the D1/D2 region of the LSU of the rRNA genes and by 17-18 nucleotide substitutions and 10-11 gaps (5.45-5.85 %) in the ITS region. Strain 51-4 differed from the type strain of the most closely related species, Hannaella pagnoccae, by 26 nucleotide substitutions (4.46 %) in the D1/D2 region of the LSU of the rRNA genes and by 20 nucleotide substitutions and six gaps (5.42 %) in the ITS region. The names proposed for these previously undescribed species are Hannaella oleicumulans sp. nov. and Hannaella higashiohmiensis sp. nov.
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Affiliation(s)
- Ayumi Tanimura
- Office of Society Academia Collaboration for Innovation, Kyoto University, Kitashirakawa-Oiwakecho, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Hikaru Adachi
- Department of Food and Agriculture Science, Graduate School of Agriculture, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
| | - Koichi Tanabe
- Department of Food and Agriculture Science, Graduate School of Agriculture, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
- Microbial Resource Center for Fermentation and Brewing, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
| | - Jun Ogawa
- Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kitashirakawa-Oiwake cho, Sakyo-ku, Kyoto 606-8502, Japan
| | - Jun Shima
- Department of Food and Agriculture Science, Graduate School of Agriculture, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
- Microbial Resource Center for Fermentation and Brewing, Ryukoku University, 1-5 Yokotani, Seta Oe-cho, Otsu, Shiga 520-2194, Japan
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4
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Sun H, Gao Z, Zhang L, Wang X, Gao M, Wang Q. A comprehensive review on microbial lipid production from wastes: research updates and tendencies. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:79654-79675. [PMID: 37328718 DOI: 10.1007/s11356-023-28123-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 06/01/2023] [Indexed: 06/18/2023]
Abstract
Microbial lipids have recently attracted attention as an intriguing alternative for the biodiesel and oleochemical industries to achieve sustainable energy generation. However, large-scale lipid production remains limited due to the high processing costs. As multiple variables affect lipid synthesis, an up-to-date overview that will benefit researchers studying microbial lipids is necessary. In this review, the most studied keywords from bibliometric studies are first reviewed. Based on the results, the hot topics in the field were identified to be associated with microbiology studies that aim to enhance lipid synthesis and reduce production costs, focusing on the biological and metabolic engineering involved. The research updates and tendencies of microbial lipids were then analyzed in depth. In particular, feedstock and associated microbes, as well as feedstock and corresponding products, were analyzed in detail. Strategies for lipid biomass enhancement were also discussed, including feedstock adoption, value-added product synthesis, selection of oleaginous microbes, cultivation mode optimization, and metabolic engineering strategies. Finally, the environmental implications of microbial lipid production and possible research directions were presented.
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Affiliation(s)
- Haishu Sun
- School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
- Shunde Innovation School, University of Science and Technology Beijing, Foshan, 528399, China
| | - Zhen Gao
- School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
| | - Lirong Zhang
- Tianjin College, University of Science and Technology, Beijing, Tianjin, 301811, China
| | - Xiaona Wang
- School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China.
- Shunde Innovation School, University of Science and Technology Beijing, Foshan, 528399, China.
| | - Ming Gao
- School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
| | - Qunhui Wang
- School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
- Tianjin College, University of Science and Technology, Beijing, Tianjin, 301811, China
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5
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Oleaginous yeasts: Biodiversity and cultivation. FUNGAL BIOL REV 2023. [DOI: 10.1016/j.fbr.2022.11.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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6
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Groenewald M, Hittinger C, Bensch K, Opulente D, Shen XX, Li Y, Liu C, LaBella A, Zhou X, Limtong S, Jindamorakot S, Gonçalves P, Robert V, Wolfe K, Rosa C, Boekhout T, Čadež N, éter G, Sampaio J, Lachance MA, Yurkov A, Daniel HM, Takashima M, Boundy-Mills K, Libkind D, Aoki K, Sugita T, Rokas A. A genome-informed higher rank classification of the biotechnologically important fungal subphylum Saccharomycotina. Stud Mycol 2023; 105:1-22. [PMID: 38895705 PMCID: PMC11182611 DOI: 10.3114/sim.2023.105.01] [Citation(s) in RCA: 30] [Impact Index Per Article: 30.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 05/12/2023] [Indexed: 06/21/2024] Open
Abstract
The subphylum Saccharomycotina is a lineage in the fungal phylum Ascomycota that exhibits levels of genomic diversity similar to those of plants and animals. The Saccharomycotina consist of more than 1 200 known species currently divided into 16 families, one order, and one class. Species in this subphylum are ecologically and metabolically diverse and include important opportunistic human pathogens, as well as species important in biotechnological applications. Many traits of biotechnological interest are found in closely related species and often restricted to single phylogenetic clades. However, the biotechnological potential of most yeast species remains unexplored. Although the subphylum Saccharomycotina has much higher rates of genome sequence evolution than its sister subphylum, Pezizomycotina, it contains only one class compared to the 16 classes in Pezizomycotina. The third subphylum of Ascomycota, the Taphrinomycotina, consists of six classes and has approximately 10 times fewer species than the Saccharomycotina. These data indicate that the current classification of all these yeasts into a single class and a single order is an underappreciation of their diversity. Our previous genome-scale phylogenetic analyses showed that the Saccharomycotina contains 12 major and robustly supported phylogenetic clades; seven of these are current families (Lipomycetaceae, Trigonopsidaceae, Alloascoideaceae, Pichiaceae, Phaffomycetaceae, Saccharomycodaceae, and Saccharomycetaceae), one comprises two current families (Dipodascaceae and Trichomonascaceae), one represents the genus Sporopachydermia, and three represent lineages that differ in their translation of the CUG codon (CUG-Ala, CUG-Ser1, and CUG-Ser2). Using these analyses in combination with relative evolutionary divergence and genome content analyses, we propose an updated classification for the Saccharomycotina, including seven classes and 12 orders that can be diagnosed by genome content. This updated classification is consistent with the high levels of genomic diversity within this subphylum and is necessary to make the higher rank classification of the Saccharomycotina more comparable to that of other fungi, as well as to communicate efficiently on lineages that are not yet formally named. Taxonomic novelties: New classes: Alloascoideomycetes M. Groenew., Hittinger, Opulente & A. Rokas, Dipodascomycetes M. Groenew., Hittinger, Opulente & A. Rokas, Lipomycetes M. Groenew., Hittinger, Opulente, A. Rokas, Pichiomycetes M. Groenew., Hittinger, Opulente & A. Rokas, Sporopachydermiomycetes M. Groenew., Hittinger, Opulente & A. Rokas, Trigonopsidomycetes M. Groenew., Hittinger, Opulente & A. Rokas. New orders: Alloascoideomycetes: Alloascoideales M. Groenew., Hittinger, Opulente & A. Rokas; Dipodascomycetes: Dipodascales M. Groenew., Hittinger, Opulente & A. Rokas; Lipomycetes: Lipomycetales M. Groenew., Hittinger, Opulente & A. Rokas; Pichiomycetes: Alaninales M. Groenew., Hittinger, Opulente & A. Rokas, Pichiales M. Groenew., Hittinger, Opulente & A. Rokas, Serinales M. Groenew., Hittinger, Opulente & A. Rokas; Saccharomycetes: Phaffomycetales M. Groenew., Hittinger, Opulente & A. Rokas, Saccharomycodales M. Groenew., Hittinger, Opulente & A. Rokas; Sporopachydermiomycetes: Sporopachydermiales M. Groenew., Hittinger, Opulente & A. Rokas; Trigonopsidomycetes: Trigonopsidales M. Groenew., Hittinger, Opulente & A. Rokas. New families: Alaninales: Pachysolenaceae M. Groenew., Hittinger, Opulente & A. Rokas; Pichiales: Pichiaceae M. Groenew., Hittinger, Opulente & A. Rokas; Sporopachydermiales: Sporopachydermiaceae M. Groenew., Hittinger, Opulente & A. Rokas. Citation: Groenewald M, Hittinger CT, Bensch K, Opulente DA, Shen X-X, Li Y, Liu C, LaBella AL, Zhou X, Limtong S, Jindamorakot S, Gonçalves P, Robert V, Wolfe KH, Rosa CA, Boekhout T, Čadež N, Péter G, Sampaio JP, Lachance M-A, Yurkov AM, Daniel H-M, Takashima M, Boundy-Mills K, Libkind D, Aoki K, Sugita T, Rokas A (2023). A genome-informed higher rank classification of the biotechnologically important fungal subphylum Saccharomycotina. Studies in Mycology 105: 1-22. doi: 10.3114/sim.2023.105.01 This study is dedicated to the memory of Cletus P. Kurtzman (1938-2017), a pioneer of yeast taxonomy.
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Affiliation(s)
- M. Groenewald
- Westerdijk Fungal Biodiversity Institute, 3584 Utrecht, The
Netherlands;
| | - C.T. Hittinger
- Laboratory of Genetics, Wisconsin Energy Institute, Center for Genomic
Science Innovation, DOE Great Lakes Bioenergy Research Center, J. F. Crow
Institute for the Study of Evolution, University of Wisconsin-Madison,
Madison, WI 53726, USA;
| | - K. Bensch
- Westerdijk Fungal Biodiversity Institute, 3584 Utrecht, The
Netherlands;
| | - D.A. Opulente
- Laboratory of Genetics, Wisconsin Energy Institute, Center for Genomic
Science Innovation, DOE Great Lakes Bioenergy Research Center, J. F. Crow
Institute for the Study of Evolution, University of Wisconsin-Madison,
Madison, WI 53726, USA;
- Department of Biology, Villanova University, Villanova, PA
19085;
| | - X.-X. Shen
- College of Agriculture and Biotechnology, Zhejiang University, Hangzhou
310058, China;
| | - Y. Li
- Institute of Marine Science and Technology, Shandong University, Qingdao
266237, China;
| | - C. Liu
- College of Agriculture and Biotechnology, Zhejiang University, Hangzhou
310058, China;
| | - A.L. LaBella
- Department of Bioinformatics and Genomics, The University of North
Carolina at Charlotte, Charlotte NC 28223, USA;
| | - X. Zhou
- Guangdong Province Key Laboratory of Microbial Signals and Disease
Control, Integrative Microbiology Research Center, South China Agricultural
University, Guangzhou 510642, China;
| | - S. Limtong
- Department of Microbiology, Faculty of Science, Kasetsart University,
Bangkok 10900, Thailand;
| | - S. Jindamorakot
- Microbial Diversity and Utilization Research Team, National Center for
Genetic Engineering and Biotechnology, National Science and Technology
Development Agency, 113 Thailand Science Park, Khlong Nueng, Khlong Luang,
Pathum Thani 12120, Thailand;
| | - P. Gonçalves
- Associate Laboratory i4HB–Institute for Health and Bioeconomy,
NOVA School of Science and Technology, Universidade NOVA de Lisboa,
Caparica, Portugal;
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life
Sciences, NOVA School of Science and Technology, Universidade NOVA de
Lisboa, Caparica, Portugal;
| | - V. Robert
- Westerdijk Fungal Biodiversity Institute, 3584 Utrecht, The
Netherlands;
| | - K.H. Wolfe
- Conway Institute and School of Medicine, University College Dublin,
Dublin 4, Ireland;
| | - C.A. Rosa
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de
Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil;
| | - T. Boekhout
- College of Sciences, King Saud University, Riyadh, Saudi
Arabia;
| | - N. Čadež
- Food Science and Technology Department, Biotechnical Faculty, University
of Ljubljana, Ljubljana, Slovenia;
| | - G. éter
- National Collection of Agricultural and Industrial Microorganisms,
Institute of Food Science and Technology, Hungarian University of
Agriculture and Life Sciences, H-1118, Budapest, Somlói út
14-16., Hungary;
| | - J.P. Sampaio
- UCIBIO, Departamento de Ciências da Vida, Faculdade de
Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516
Caparica, Portugal;
| | - M.-A. Lachance
- Department of Biology, University of Western Ontario, London, ON N6A
5B7, Canada;
| | - A.M. Yurkov
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell
Cultures, 38124 Braunschweig, Germany;
| | - H.-M. Daniel
- BCCM/MUCL, Earth and Life Institute, Mycology Laboratory,
Université catholique de Louvain, 1348 Louvain-la-Neuve,
Belgium;
| | - M. Takashima
- Laboratory of Yeast Systematics, Tokyo NODAI Research Institute (TNRI),
Tokyo University of Agriculture, Sakuragaoka, Setagaya, Tokyo 156-8502,
Japan;
| | - K. Boundy-Mills
- Food Science and Technology, University of California Davis, Davis, CA,
95616, USA;
| | - D. Libkind
- Centro de Referencia en Levaduras y Tecnología Cervecera,
Instituto Andino Patagónico de Tecnologías Biológicas y
Geoambientales (IPATEC), Universidad Nacional del Comahue, CONICET, CRUB,
Quintral 1250, San Carlos de Bariloche, 8400, Río Negro,
Argentina;
| | - K. Aoki
- Laboratory of Yeast Systematics, Tokyo NODAI Research Institute (TNRI),
Tokyo University of Agriculture, Sakuragaoka, Setagaya, Tokyo 156-8502,
Japan;
| | - T. Sugita
- Laboratory of Microbiology, Meiji Pharmaceutical University, Noshio,
Kiyose, Tokyo 204-8588, Japan;
| | - A. Rokas
- Department of Biological Sciences and Evolutionary Studies Initiative,
Vanderbilt University, Nashville, TN 37235, USA
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Draft Genome Sequence of the Sophorolipid-Producing Yeast Pseudohyphozyma bogoriensis ATCC 18809. Microbiol Resour Announc 2023; 12:e0056622. [PMID: 36448832 PMCID: PMC9872583 DOI: 10.1128/mra.00566-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022] Open
Abstract
Pseudohyphozyma bogoriensis is gaining attention as a microbial source of high-value sophorolipids. We report here on its genomic sequence, which will improve our understanding of its metabolic pathways and allow the development of genome manipulation systems. PacBio sequencing was performed, yielding a 26-Mbp genome with 57% GC content and encoding 7,847 predicted proteins.
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Singh S, Bharadwaj T, Verma D, Dutta K. Valorization of phenol contaminated wastewater for lipid production by Rhodosporidium toruloides 9564 T. CHEMOSPHERE 2022; 308:136269. [PMID: 36057352 DOI: 10.1016/j.chemosphere.2022.136269] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 07/28/2022] [Accepted: 08/27/2022] [Indexed: 06/15/2023]
Abstract
Phenol is one of the most common hazardous organic compound presents in several industrial effluents which directly affects the aquatic environment. The present study envisaged the phenol biodegradation and simultaneous lipid production along with its underlying mechanism by oleaginous yeast Rhodosporidium toruloides 9564T. Experiments were designed using simulated wastewater by varying phenol concentration in the range of 0.25-1.5 g/L and inoculum size of 1, 5, and 10% with and without glucose. The oleaginous yeast was found to completely degrade up to 0.75 g/L phenol with lipid accumulation of 26.3%. Phenol at > 0.5 g/L severely inhibited the growth of R. toruloides 9564T at 1% and 5% inoculum size. Phenol toxicity up to 0.75 g/L can be overcome by increasing inoculum size to 10%. The maximum specific growth rate (μmax) and phenol degradation rate (qmax) were found to be 0.0717 h-1 and 0.01523 h-1, respectively. The enzymatic pathway study suggested that R. toruloides 9564T follows an ortho cleavage pathway for phenol degradation and lipid accumulation. Phytotoxicty and cytotoxicity tests for treated and untreated samples clearly demonstrated a decline in toxicity of the treated wastewater. R. toruloides brought about an important paradigm shift toward a circular economy in which industrial wastewater is considered a valuable resource for bioenergy production.
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Affiliation(s)
- Sangeeta Singh
- Department of Biotechnology and Medical Engineering, National Institute of Technology, Rourkela, Odisha, 769008, India
| | - Tanmay Bharadwaj
- Department of Biotechnology and Medical Engineering, National Institute of Technology, Rourkela, Odisha, 769008, India
| | - Devendra Verma
- Department of Biotechnology and Medical Engineering, National Institute of Technology, Rourkela, Odisha, 769008, India
| | - Kasturi Dutta
- Department of Biotechnology and Medical Engineering, National Institute of Technology, Rourkela, Odisha, 769008, India.
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Angelicola MV, Fernández PM, Aybar MJ, Van Nieuwenhove CP, Figueroa LI, Viñarta SC. Bioconversion of commercial and crude glycerol to single-cell oils by the Antarctic yeast Rhodotorula glutinis R4 as a biodiesel feedstock. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2022. [DOI: 10.1016/j.bcab.2022.102544] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Salvador López JM, Vandeputte M, Van Bogaert INA. Oleaginous yeasts: Time to rethink the definition? Yeast 2022; 39:553-606. [PMID: 36366783 DOI: 10.1002/yea.3827] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Revised: 10/21/2022] [Accepted: 11/08/2022] [Indexed: 11/12/2022] Open
Abstract
Oleaginous yeasts are typically defined as those able to accumulate more than 20% of their cell dry weight as lipids or triacylglycerides. Research on these yeasts has increased lately fuelled by an interest to use biotechnology to produce lipids and oleochemicals that can substitute those coming from fossil fuels or offer sustainable alternatives to traditional extractions (e.g., palm oil). Some oleaginous yeasts are attracting attention both in research and industry, with Yarrowia lipolytica one of the best-known and studied ones. Oleaginous yeasts can be found across several clades and different metabolic adaptations have been found, affecting not only fatty acid and neutral lipid synthesis, but also lipid particle stability and degradation. Recently, many novel oleaginous yeasts are being discovered, including oleaginous strains of the traditionally considered non-oleaginous Saccharomyces cerevisiae. In the face of this boom, a closer analysis of the definition of "oleaginous yeast" reveals that this term has instrumental value for biotechnology, while it does not give information about distinct types of yeasts. Having this perspective in mind, we propose to expand the term "oleaginous yeast" to those able to produce either intracellular or extracellular lipids, not limited to triacylglycerides, in at least one growth condition (including ex novo lipid synthesis). Finally, a critical look at Y. lipolytica as a model for oleaginous yeasts shows that the term "oleaginous" should be reserved only for strains and not species and that in the case of Y. lipolytica, it is necessary to distinguish clearly between the lipophilic and oleaginous phenotype.
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Affiliation(s)
- José Manuel Salvador López
- BioPort Group, Centre for Synthetic Biology (CSB), Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Meriam Vandeputte
- BioPort Group, Centre for Synthetic Biology (CSB), Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Inge N A Van Bogaert
- BioPort Group, Centre for Synthetic Biology (CSB), Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
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Zhao Y, Song B, Li J, Zhang J. Rhodotorula toruloides: an ideal microbial cell factory to produce oleochemicals, carotenoids, and other products. World J Microbiol Biotechnol 2021; 38:13. [PMID: 34873661 DOI: 10.1007/s11274-021-03201-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Accepted: 11/29/2021] [Indexed: 12/20/2022]
Abstract
Requirement of clean energy sources urges us to find substitutes for fossil fuels. Microorganisms provide an option to produce feedstock for biofuel production by utilizing inexpensive, renewable biomass. Rhodotorula toruloides (Rhodosporidium toruloides), a non-conventional oleaginous yeast, can accumulate intracellular lipids (single cell oil, SCO) more than 70% of its cell dry weight. At present, the SCO-based biodiesel is not a price-competitive fuel to the petroleum diesel. Many efforts are made to cut the cost of SCO by strengthening the performance of genetically modified R. toruloides strains and by valorization of low-cost biomass, including crude glycerol, lignocellulosic hydrolysates, food and agro waste, wastewater, and volatile fatty acids. Besides, optimization of fermentation and SCO recovery processes are carefully studied as well. Recently, new R. toruloides strains are developed via metabolic engineering and synthetic biology methods to produce value-added chemicals, such as sesquiterpenes, fatty acid esters, fatty alcohols, carotenoids, and building block chemicals. This review summarizes recent advances in the main aspects of R. toruloides studies, namely, construction of strains with new traits, valorization of low-cost biomass, process detection and optimization, and product recovery. In general, R. toruloides is a promising microbial cell factory for production of biochemicals.
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Affiliation(s)
- Yu Zhao
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
| | - Baocai Song
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
| | - Jing Li
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China. .,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.
| | - Jianfa Zhang
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
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Abeln F, Chuck CJ. The history, state of the art and future prospects for oleaginous yeast research. Microb Cell Fact 2021; 20:221. [PMID: 34876155 PMCID: PMC8650507 DOI: 10.1186/s12934-021-01712-1] [Citation(s) in RCA: 45] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Accepted: 11/23/2021] [Indexed: 12/25/2022] Open
Abstract
Lipid-based biofuels, such as biodiesel and hydroprocessed esters, are a central part of the global initiative to reduce the environmental impact of the transport sector. The vast majority of production is currently from first-generation feedstocks, such as rapeseed oil, and waste cooking oils. However, the increased exploitation of soybean oil and palm oil has led to vast deforestation, smog emissions and heavily impacted on biodiversity in tropical regions. One promising alternative, potentially capable of meeting future demand sustainably, are oleaginous yeasts. Despite being known about for 143 years, there has been an increasing effort in the last decade to develop a viable industrial system, with currently around 100 research papers published annually. In the academic literature, approximately 160 native yeasts have been reported to produce over 20% of their dry weight in a glyceride-rich oil. The most intensively studied oleaginous yeast have been Cutaneotrichosporon oleaginosus (20% of publications), Rhodotorula toruloides (19%) and Yarrowia lipolytica (19%). Oleaginous yeasts have been primarily grown on single saccharides (60%), hydrolysates (26%) or glycerol (19%), and mainly on the mL scale (66%). Process development and genetic modification (7%) have been applied to alter yeast performance and the lipids, towards the production of biofuels (77%), food/supplements (24%), oleochemicals (19%) or animal feed (3%). Despite over a century of research and the recent application of advanced genetic engineering techniques, the industrial production of an economically viable commodity oil substitute remains elusive. This is mainly due to the estimated high production cost, however, over the course of the twenty-first century where climate change will drastically change global food supply networks and direct governmental action will likely be levied at more destructive crops, yeast lipids offer a flexible platform for localised, sustainable lipid production. Based on data from the large majority of oleaginous yeast academic publications, this review is a guide through the history of oleaginous yeast research, an assessment of the best growth and lipid production achieved to date, the various strategies employed towards industrial production and importantly, a critical discussion about what needs to be built on this huge body of work to make producing a yeast-derived, more sustainable, glyceride oil a commercial reality.
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Affiliation(s)
- Felix Abeln
- Department of Chemical Engineering, University of Bath, Bath, BA2 7AY, UK.
- Centre for Sustainable and Circular Technologies, University of Bath, Bath, BA2 7AY, UK.
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Al-Tohamy R, Sun J, Khalil MA, Kornaros M, Ali SS. Wood-feeding termite gut symbionts as an obscure yet promising source of novel manganese peroxidase-producing oleaginous yeasts intended for azo dye decolorization and biodiesel production. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:229. [PMID: 34863263 PMCID: PMC8645103 DOI: 10.1186/s13068-021-02080-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 11/18/2021] [Indexed: 05/06/2023]
Abstract
BACKGROUND The ability of oxidative enzyme-producing micro-organisms to efficiently valorize organic pollutants is critical in this context. Yeasts are promising enzyme producers with potential applications in waste management, while lipid accumulation offers significant bioenergy production opportunities. The aim of this study was to explore manganese peroxidase-producing oleaginous yeasts inhabiting the guts of wood-feeding termites for azo dye decolorization, tolerating lignocellulose degradation inhibitors, and biodiesel production. RESULTS Out of 38 yeast isolates screened from wood-feeding termite gut symbionts, nine isolates exhibited high levels of extracellular manganese peroxidase (MnP) activity ranged between 23 and 27 U/mL after 5 days of incubation in an optimal substrate. Of these MnP-producing yeasts, four strains had lipid accumulation greater than 20% (oleaginous nature), with Meyerozyma caribbica SSA1654 having the highest lipid content (47.25%, w/w). In terms of tolerance to lignocellulose degradation inhibitors, the four MnP-producing oleaginous yeast strains could grow in the presence of furfural, 5-hydroxymethyl furfural, acetic acid, vanillin, and formic acid in the tested range. M. caribbica SSA1654 showed the highest tolerance to furfural (1.0 g/L), 5-hydroxymethyl furfural (2.5 g/L) and vanillin (2.0 g/L). Furthermore, M. caribbica SSA1654 could grow in the presence of 2.5 g/L acetic acid but grew moderately. Furfural and formic acid had a significant inhibitory effect on lipid accumulation by M. caribbica SSA1654, compared to the other lignocellulose degradation inhibitors tested. On the other hand, a new MnP-producing oleaginous yeast consortium designated as NYC-1 was constructed. This consortium demonstrated effective decolorization of all individual azo dyes tested within 24 h, up to a dye concentration of 250 mg/L. The NYC-1 consortium's decolorization performance against Acid Orange 7 (AO7) was investigated under the influence of several parameters, such as temperature, pH, salt concentration, and co-substrates (e.g., carbon, nitrogen, or agricultural wastes). The main physicochemical properties of biodiesel produced by AO7-degraded NYC-1 consortium were estimated and the results were compared to those obtained from international standards. CONCLUSION The findings of this study open up a new avenue for using peroxidase-producing oleaginous yeasts inhabiting wood-feeding termite gut symbionts, which hold great promise for the remediation of recalcitrant azo dye wastewater and lignocellulosic biomass for biofuel production.
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Affiliation(s)
- Rania Al-Tohamy
- School of the Environment and Safety Engineering, Biofuels Institute, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, China
| | - Jianzhong Sun
- School of the Environment and Safety Engineering, Biofuels Institute, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, China.
| | - Maha A Khalil
- Department of Biology, College of Science, Taif University, P.O. Box 11099, Taif, 21944, Saudi Arabia
| | - Michael Kornaros
- Laboratory of Biochemical Engineering & Environmental Technology (LBEET), Department of Chemical Engineering, University of Patras, University Campus, 1 Karatheodori Str, 26504, Patras, Greece
- INVALOR: Research Infrastructure for Waste Valorization and Sustainable Management, University Campus, 26504, Patras, Greece
| | - Sameh Samir Ali
- School of the Environment and Safety Engineering, Biofuels Institute, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, China.
- Botany Department, Faculty of Science, Tanta University, Tanta, 31527, Egypt.
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[Capacity of the oleaginous yeast Clavispora lusitaniae Hi2 to transform agroindustrial residues into lipids]. Rev Iberoam Micol 2021; 39:6-15. [PMID: 34857452 DOI: 10.1016/j.riam.2021.07.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2020] [Revised: 04/29/2021] [Accepted: 07/15/2021] [Indexed: 01/01/2023] Open
Abstract
BACKGROUND Single-cell oils obtained from oleaginous microorganisms by using lignocellulosic waste hydrolysates are an alternative for producing biodiesel. AIMS To isolate a yeast strain able to produce lipids from centrifuged nejayote (CN), hydrolyzed nejayote solids (HNS) and hydrolyzed sugarcane bagasse (HSB). METHODS In order to identify the yeasts recovered, 26S ribosomal DNA was sequenced. The metabolic profile was assessed by using API20C AUX strips. The nutritional characterization of CN, HNS and HSB was performed by quantifying reducing sugars, total carbohydrates, starch, protein and total nitrogen. The biomass and lipid production ability were evaluated by performing growth kinetics of Clavispora lusitaniae Hi2 in combined culture media. RESULTS Six oleaginous yeast strains were isolated and identified, selecting C. lusitaniae Hi2 to study its lipids production by using nejayote. The C. lusitaniae Hi2 strain can use glucose, xylose, arabinose, galactose and cellobiose as carbon sources. Cultures of C. lusitaniae Hi2 presented the best biomass (5.6±0.28 g/L) and lipid production (0.99±0.09 g/L) at 20 h of incubation with the CN:HNS media in the 25:75 and 50:50 ratios, respectively. CONCLUSIONS The use of CN, HNS and HSB for the growth of C. lusitaniae Hi2 is an option to take advantage of these agro-industrial residues and generate compounds of biotechnological interest.
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Chintagunta AD, Zuccaro G, Kumar M, Kumar SPJ, Garlapati VK, Postemsky PD, Kumar NSS, Chandel AK, Simal-Gandara J. Biodiesel Production From Lignocellulosic Biomass Using Oleaginous Microbes: Prospects for Integrated Biofuel Production. Front Microbiol 2021; 12:658284. [PMID: 34475852 PMCID: PMC8406692 DOI: 10.3389/fmicb.2021.658284] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 06/30/2021] [Indexed: 11/13/2022] Open
Abstract
Biodiesel is an eco-friendly, renewable, and potential liquid biofuel mitigating greenhouse gas emissions. Biodiesel has been produced initially from vegetable oils, non-edible oils, and waste oils. However, these feedstocks have several disadvantages such as requirement of land and labor and remain expensive. Similarly, in reference to waste oils, the feedstock content is succinct in supply and unable to meet the demand. Recent studies demonstrated utilization of lignocellulosic substrates for biodiesel production using oleaginous microorganisms. These microbes accumulate higher lipid content under stress conditions, whose lipid composition is similar to vegetable oils. In this paper, feedstocks used for biodiesel production such as vegetable oils, non-edible oils, oleaginous microalgae, fungi, yeast, and bacteria have been illustrated. Thereafter, steps enumerated in biodiesel production from lignocellulosic substrates through pretreatment, saccharification and oleaginous microbe-mediated fermentation, lipid extraction, transesterification, and purification of biodiesel are discussed. Besides, the importance of metabolic engineering in ensuring biofuels and biorefinery and a brief note on integration of liquid biofuels have been included that have significant importance in terms of circular economy aspects.
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Affiliation(s)
- Anjani Devi Chintagunta
- Department of Biotechnology, Vignan’s Foundation for Science, Technology and Research, Guntur, India
| | - Gaetano Zuccaro
- Department of Chemical, Materials and Production Engineering, Università degli Studi di Napoli Federico II, Naples, Italy
- LBE, INRAE, Université de Montpellier, Narbonne, France
| | - Mahesh Kumar
- College of Agriculture, Central Agricultural University, Imphal, India
| | - S. P. Jeevan Kumar
- ICAR-Indian Institute of Seed Science, Mau, India
- ICAR-Directorate of Floricultural Research, Pune, India
| | - Vijay Kumar Garlapati
- Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, India
| | - Pablo D. Postemsky
- Laboratory of Biotechnology of Edible and Medicinal Mushrooms, Centro de Recursos Naturales Renovables de la Zona Semiárida (CERZOS-UNS/CONICET), Buenos Aires, Argentina
| | - N. S. Sampath Kumar
- Department of Biotechnology, Vignan’s Foundation for Science, Technology and Research, Guntur, India
| | - Anuj K. Chandel
- Department of Biotechnology, Engineering School of Lorena (EEL), University of São Paulo (USP), Lorena, Brazil
| | - Jesus Simal-Gandara
- Nutrition and Bromatology Group, Department of Analytical and Food Chemistry, Faculty of Food Science and Technology, University of Vigo, Ourense, Spain
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Brandenburg J, Blomqvist J, Shapaval V, Kohler A, Sampels S, Sandgren M, Passoth V. Oleaginous yeasts respond differently to carbon sources present in lignocellulose hydrolysate. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:124. [PMID: 34051838 PMCID: PMC8164748 DOI: 10.1186/s13068-021-01974-2] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Accepted: 05/17/2021] [Indexed: 05/17/2023]
Abstract
BACKGROUND Microbial oils, generated from lignocellulosic material, have great potential as renewable and sustainable alternatives to fossil-based fuels and chemicals. By unravelling the diversity of lipid accumulation physiology in different oleaginous yeasts grown on the various carbon sources present in lignocellulose hydrolysate (LH), new targets for optimisation of lipid accumulation can be identified. Monitoring lipid formation over time is essential for understanding lipid accumulation physiology. This study investigated lipid accumulation in a variety of oleaginous ascomycetous and basidiomycetous strains grown in glucose and xylose and followed lipid formation kinetics of selected strains in wheat straw hydrolysate (WSH). RESULTS Twenty-nine oleaginous yeast strains were tested for their ability to utilise glucose and xylose, the main sugars present in WSH. Evaluation of sugar consumption and lipid accumulation revealed marked differences in xylose utilisation capacity between the yeast strains, even between those belonging to the same species. Five different promising strains, belonging to the species Lipomyces starkeyi, Rhodotorula glutinis, Rhodotorula babjevae and Rhodotorula toruloides, were grown on undiluted wheat straw hydrolysate and lipid accumulation was followed over time, using Fourier transform-infrared (FTIR) spectroscopy. All five strains were able to grow on undiluted WSH and to accumulate lipids, but to different extents and with different productivities. R. babjevae DVBPG 8058 was the best-performing strain, accumulating 64.8% of cell dry weight (CDW) as lipids. It reached a culture density of 28 g/L CDW in batch cultivation, resulting in a lipid content of 18.1 g/L and yield of 0.24 g lipids per g carbon source. This strain formed lipids from the major carbon sources in hydrolysate, glucose, acetate and xylose. R. glutinis CBS 2367 also consumed these carbon sources, but when assimilating xylose it consumed intracellular lipids simultaneously. Rhodotorula strains contained a higher proportion of polyunsaturated fatty acids than the two tested Lipomyces starkeyi strains. CONCLUSIONS There is considerable metabolic diversity among oleaginous yeasts, even between closely related species and strains, especially when converting xylose to biomass and lipids. Monitoring the kinetics of lipid accumulation and identifying the molecular basis of this diversity are keys to selecting suitable strains for high lipid production from lignocellulose.
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Affiliation(s)
- Jule Brandenburg
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCenter, Box 7015, 75007, Uppsala, Sweden
| | - Johanna Blomqvist
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCenter, Box 7015, 75007, Uppsala, Sweden
| | - Volha Shapaval
- Faculty of Science and Technology, Norwegian University of Life Sciences, P.O. Box 5003, 1432, Ås, Norway
| | - Achim Kohler
- Faculty of Science and Technology, Norwegian University of Life Sciences, P.O. Box 5003, 1432, Ås, Norway
| | - Sabine Sampels
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCenter, Box 7015, 75007, Uppsala, Sweden
| | - Mats Sandgren
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCenter, Box 7015, 75007, Uppsala, Sweden
| | - Volkmar Passoth
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCenter, Box 7015, 75007, Uppsala, Sweden.
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Szczepańska P, Hapeta P, Lazar Z. Advances in production of high-value lipids by oleaginous yeasts. Crit Rev Biotechnol 2021; 42:1-22. [PMID: 34000935 DOI: 10.1080/07388551.2021.1922353] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
The global market for high-value fatty acids production, mainly omega-3/6, hydroxy fatty-acids, waxes and their derivatives, has seen strong development in the last decade. The reason for this growth was the increasing utilization of these lipids as significant ingredients for cosmetics, food and the oleochemical industries. The large demand for these compounds resulted in a greater scientific interest in research focused on alternative sources of oil production - among which microorganisms attracted the most attention. Microbial oil production offers the possibility to engineer the pathways and store lipids enriched with the desired fatty acids. Moreover, costly chemical steps are avoided and direct commercial use of these fatty acids is available. Among all microorganisms, the oleaginous yeasts have become the most promising hosts for lipid production - their efficient lipogenesis, ability to use various (often highly affordable) carbon sources, feasible large-scale cultivations and wide range of available genetic engineering tools turns them into powerful micro-factories. This review is an in-depth description of the recent developments in the engineering of the lipid biosynthetic pathway with oleaginous yeasts. The different classes of valuable lipid compounds with their derivatives are described and their importance for human health and industry is presented. The emphasis is also placed on the optimization of culture conditions in order to improve the yield and titer of these valuable compounds. Furthermore, the important economic aspects of the current microbial oil production are discussed.
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Affiliation(s)
- Patrycja Szczepańska
- Department of Biotechnology and Food Microbiology, Wroclaw University of Environmental and Life Sciences, Wroclaw, Poland
| | - Piotr Hapeta
- Department of Biotechnology and Food Microbiology, Wroclaw University of Environmental and Life Sciences, Wroclaw, Poland
| | - Zbigniew Lazar
- Department of Biotechnology and Food Microbiology, Wroclaw University of Environmental and Life Sciences, Wroclaw, Poland
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Chawla K, Kaur S, Kaur R, Bhunia RK. Metabolic engineering of oleaginous yeasts to enhance single cell oil production. J FOOD PROCESS ENG 2020. [DOI: 10.1111/jfpe.13634] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Kirti Chawla
- Plant Tissue Culture and Genetic Engineering National Agri‐Food Biotechnology Institute (NABI) Mohali Punjab India
| | - Sumandeep Kaur
- Department of Biotechnology, Sector‐25 Panjab University Chandigarh India
| | - Ranjeet Kaur
- Department of Genetics University of Delhi South Campus New Delhi India
| | - Rupam Kumar Bhunia
- Plant Tissue Culture and Genetic Engineering National Agri‐Food Biotechnology Institute (NABI) Mohali Punjab India
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González J, Romero-Aguilar L, Matus-Ortega G, Pablo Pardo J, Flores-Alanis A, Segal-Kischinevzky C. Levaduras adaptadas al frío: el tesoro biotecnológico de la Antártica. TIP REVISTA ESPECIALIZADA EN CIENCIAS QUÍMICO-BIOLÓGICAS 2020. [DOI: 10.22201/fesz.23958723e.2020.0.267] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Las levaduras son organismos microscópicos que están distribuidos en toda la Tierra, de modo que algunas han adaptado su metabolismo para proliferar en ambientes extremos. Las levaduras que habitan en la Antártica son un grupo de microorganismos adaptados al frío que han sido poco estudiadas. En esta revisión se describen algunas de las adaptaciones metabólicas que les permiten habitar en ambientes extremos, por ejemplo, el de la Antártica. También se abordan las consideraciones relevantes para saber si una levadura es extremófila, así como los criterios utilizados para clasificar a las levaduras por crecimiento y temperatura. Además, se explica el papel de las vías de biosíntesis de carotenoides y lípidos que están involucradas en contrarrestar a las especies reactivas de oxígeno generadas por estrés oxidante en levaduras pigmentadas y oleaginosas del género Rhodotorula. La revisión también considera aspectos de investigación básica y la importancia de las levaduras oleaginosas de la Antártica para el desarrollo de algunas aplicaciones biotecnológicas.
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Single Cell Oil Production by Oleaginous Yeasts Grown in Synthetic and Waste-Derived Volatile Fatty Acids. Microorganisms 2020; 8:microorganisms8111809. [PMID: 33213005 PMCID: PMC7698568 DOI: 10.3390/microorganisms8111809] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 11/01/2020] [Accepted: 11/13/2020] [Indexed: 12/02/2022] Open
Abstract
Four yeast isolates from the species—Apiotrichum brassicae, Candida tropicalis, Metschnikowia pulcherrima, and Pichia kudriavzevii—previously selected by their oleaginous character and growth flexibility in different carbon sources, were tested for their capacity to convert volatile fatty acids into lipids, in the form of single cell oils. Growth, lipid yields, volatile fatty acids consumption, and long-chain fatty acid profiles were evaluated in media supplemented with seven different volatile fatty acids (acetic, butyric, propionic, isobutyric, valeric, isovaleric, and caproic), and also in a dark fermentation effluent filtrate. Yeasts A. brassicae and P. kudriavzevii attained lipid productivities of more than 40% (w/w), mainly composed of oleic (>40%), palmitic (20%), and stearic (20%) acids, both in synthetic media and in the waste-derived effluent filtrate. These isolates may be potential candidates for single cell oil production in larger scale applications by using alternative carbon sources, combining economic and environmental benefits.
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Sreeharsha RV, Mohan SV. Obscure yet Promising Oleaginous Yeasts for Fuel and Chemical Production. Trends Biotechnol 2020; 38:873-887. [DOI: 10.1016/j.tibtech.2020.02.004] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2019] [Revised: 02/10/2020] [Accepted: 02/11/2020] [Indexed: 02/08/2023]
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Kamineni A, Shaw J. Engineering triacylglycerol production from sugars in oleaginous yeasts. Curr Opin Biotechnol 2020; 62:239-247. [DOI: 10.1016/j.copbio.2019.12.022] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 12/10/2019] [Accepted: 12/22/2019] [Indexed: 02/06/2023]
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Yaguchi A, Franaszek N, O'Neill K, Lee S, Sitepu I, Boundy-Mills K, Blenner M. Identification of oleaginous yeasts that metabolize aromatic compounds. J Ind Microbiol Biotechnol 2020; 47:801-813. [PMID: 32221720 DOI: 10.1007/s10295-020-02269-5] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2019] [Accepted: 02/29/2020] [Indexed: 01/02/2023]
Abstract
The valorization of lignin is critical for the economic viability of the bioeconomy. Microbial metabolism is advantageous for handling the myriad of aromatic compounds resulting from lignin chemical or enzymatic depolymerization. Coupling aromatic metabolism to fatty acid biosynthesis makes possible the production of biofuels, oleochemicals, and other fine/bulk chemicals derived from lignin. Our previous work identified Cutaneotrichosporon oleaginosus as a yeast that could accumulate nearly 70% of its dry cell weight as lipids using aromatics as a sole carbon source. Expanding on this, other oleaginous yeast species were investigated for the metabolism of lignin-relevant monoaromatics. Thirty-six oleaginous yeast species from the Phaff yeast collection were screened for growth on several aromatic compounds representing S-, G-, and H- type lignin. The analysis reported in this study suggests that aromatic metabolism is largely segregated to the Cutaenotrichosporon, Trichosporon, and Rhodotorula clades. Each species tested within each clade has different properties with respect to the aromatics metabolized and the concentrations of aromatics tolerated. The combined analysis suggests that Cutaneotrichosporon yeast are the best suited to broad spectrum aromatic metabolism and support its development as a model system for aromatic metabolism in yeast.
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Affiliation(s)
- Allison Yaguchi
- Department of Chemical and Biomolecular Engineering, Clemson University, 206 S. Palmetto Blvd, Clemson, SC, 29634, USA
| | - Nicole Franaszek
- Department of Chemical and Biomolecular Engineering, Clemson University, 206 S. Palmetto Blvd, Clemson, SC, 29634, USA
| | - Kaelyn O'Neill
- Department of Chemical and Biomolecular Engineering, Clemson University, 206 S. Palmetto Blvd, Clemson, SC, 29634, USA
| | - Stephen Lee
- Department of Chemical and Biomolecular Engineering, Clemson University, 206 S. Palmetto Blvd, Clemson, SC, 29634, USA
| | - Irnayuli Sitepu
- Phaff Yeast Culture Collection, Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Kyria Boundy-Mills
- Phaff Yeast Culture Collection, Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Mark Blenner
- Department of Chemical and Biomolecular Engineering, Clemson University, 206 S. Palmetto Blvd, Clemson, SC, 29634, USA.
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Sitepu I, Enriquez L, Nguyen V, Fry R, Simmons B, Singer S, Simmons C, Boundy-Mills KL. Ionic Liquid Tolerance of Yeasts in Family Dipodascaceae and Genus Wickerhamomyces. Appl Biochem Biotechnol 2020; 191:1580-1593. [PMID: 32185613 DOI: 10.1007/s12010-020-03293-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Accepted: 02/13/2020] [Indexed: 11/26/2022]
Abstract
In previous studies of ionic liquid (IL) tolerance of numerous species of ascomycetous yeasts, two strains of Wickerhamomyces ciferrii and Galactomyces candidus had unusually high tolerance in media containing up to 5% (w/v) of the 1-ethyl-3-methylimidazolium acetate ([C2C1Im][OAc]). The study aimed at investigating whether additional strains of these species, and additional species in the Dipodascaceae family, also possess IL tolerance, and to compare sensitivity to the acetate and chloride versions of the ionic liquid. Fifty five yeast strains in the family Dipodascaceae, which encompasses genera Galactomyces, Geotrichum, and Dipodascus, and seven yeast strains of species Wickerhamomyces ciferrii were tested for ability to grow in laboratory medium containing no IL, 242 mM [C2C1Im][OAc], or 242 mM [C2C1Im]Cl, and in IL-pretreated switchgrass hydrolysate. Many yeasts exhibited tolerance of one or both ILs, with higher tolerance of the chloride anion than of the acetate anion. Different strains of the same species exhibited varying degrees of IL tolerance. Galactomyces candidus, UCDFSTs 52-260, and 50-64, had exceptionally robust growth in [C2C1Im][OAc], and also grew well in the switchgrass hydrolysate. Identification of IL tolerant and IL resistant yeast strains will facilitate studies of the mechanism of IL tolerance, which could include superior efflux, metabolism or exclusion.
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Affiliation(s)
- Irnayuli Sitepu
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Lauren Enriquez
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Valerie Nguyen
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Russell Fry
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Blake Simmons
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA, 94550, USA
| | - Steve Singer
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA
| | - Christopher Simmons
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA
| | - Kyria L Boundy-Mills
- Department of Food Science and Technology, University of California Davis, One Shields Ave, Davis, CA, 95616, USA.
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25
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Miranda C, Bettencourt S, Pozdniakova T, Pereira J, Sampaio P, Franco-Duarte R, Pais C. Modified high-throughput Nile red fluorescence assay for the rapid screening of oleaginous yeasts using acetic acid as carbon source. BMC Microbiol 2020; 20:60. [PMID: 32169040 PMCID: PMC7071767 DOI: 10.1186/s12866-020-01742-6] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2019] [Accepted: 03/03/2020] [Indexed: 11/24/2022] Open
Abstract
Background Over the last years oleaginous yeasts have been studied for several energetic, oleochemical, medical and pharmaceutical purposes. However, only a small number of yeasts are known and have been deeply exploited. The search for new isolates with high oleaginous capacity becomes imperative, as well as the use of alternative and ecological carbon sources for yeast growth. Results In the present study a high-throughput screening comprising 366 distinct yeast isolates was performed by applying an optimised protocol based on two approaches: (I) yeast cultivation on solid medium using acetic acid as carbon source, (II) neutral lipid estimation by fluorimetry using the lipophilic dye Nile red. Conclusions Results showed that, with the proposed methodology, the oleaginous potential of yeasts with broad taxonomic diversity and variety of growth characteristics was discriminated. Furthermore, this work clearly demonstrated the association of the oleaginous yeast character to the strain level, contrarily to the species-level linkage, as usually stated.
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Affiliation(s)
- Catarina Miranda
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
| | - Sara Bettencourt
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
| | - Tatiana Pozdniakova
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
| | - Joana Pereira
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
| | - Paula Sampaio
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
| | - Ricardo Franco-Duarte
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal. .,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal.
| | - Célia Pais
- CBMA (Centre of Molecular and Environmental Biology), Department of Biology, University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal.,Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Braga, Portugal
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26
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Abstract
Oleaginous microbes, which contain over 20% intracellular lipid, predominantly triacylglycerols (TG), by dry weight, have been discovered to have high oil content by many different protocols, ranging from simple staining to more complex chromatographic methods. In our laboratory, a methodical process was implemented to identify high oil yeasts, designed to minimize labor while optimizing success in identifying high oil strains among thousands of candidates. First, criteria were developed to select candidate yeast strains for analysis. These included observation of buoyancy of the yeast cell mass in 20% glycerol, and phylogenetic placement near known oleaginous species. A low-labor, semiquantitative Nile red staining protocol was implemented to screen numerous yeast cultures for high oil content in 96-well plates. Then, promising candidates were selected for more quantitative analysis. A more labor-intensive and quantitative gravimetric assay was implemented that gave consistent values for intracellular oil content for a broad range of yeast species. Finally, an LC-MS protocol was utilized to quantify and identify yeast triacylglycerols. This progressive approach was successful in identifying 30 new oleaginous yeast species, out of over 1000 species represented in the Phaff Yeast Culture Collection.
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27
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Dinh HV, Suthers PF, Chan SHJ, Shen Y, Xiao T, Deewan A, Jagtap SS, Zhao H, Rao CV, Rabinowitz JD, Maranas CD. A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data. Metab Eng Commun 2019; 9:e00101. [PMID: 31720216 PMCID: PMC6838544 DOI: 10.1016/j.mec.2019.e00101] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2019] [Revised: 08/19/2019] [Accepted: 08/20/2019] [Indexed: 12/21/2022] Open
Abstract
Rhodosporidium toruloides is a red, basidiomycetes yeast that can accumulate a large amount of lipids and produce carotenoids. To better assess this non-model yeast's metabolic capabilities, we reconstructed a genome-scale model of R. toruloides IFO0880's metabolic network (iRhto1108) accounting for 2204 reactions, 1985 metabolites and 1108 genes. In this work, we integrated and supplemented the current knowledge with in-house generated biomass composition and experimental measurements pertaining to the organism's metabolic capabilities. Predictions of genotype-phenotype relations were improved through manual curation of gene-protein-reaction rules for 543 reactions leading to correct recapitulations of 84.5% of gene essentiality data (sensitivity of 94.3% and specificity of 53.8%). Organism-specific macromolecular composition and ATP maintenance requirements were experimentally measured for two separate growth conditions: (i) carbon and (ii) nitrogen limitations. Overall, iRhto1108 reproduced R. toruloides's utilization capabilities for 18 alternate substrates, matched measured wild-type growth yield, and recapitulated the viability of 772 out of 819 deletion mutants. As a demonstration to the model's fidelity in guiding engineering interventions, the OptForce procedure was applied on iRhto1108 for triacylglycerol overproduction. Suggested interventions recapitulated many of the previous successful implementations of genetic modifications and put forth a few new ones.
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Affiliation(s)
- Hoang V. Dinh
- Department of Chemical Engineering, The Pennsylvania State University, University Park, 306 Chemical and Biomedical Engineering Building, PA, 16802-4400, USA
| | - Patrick F. Suthers
- Department of Chemical Engineering, The Pennsylvania State University, University Park, 306 Chemical and Biomedical Engineering Building, PA, 16802-4400, USA
| | - Siu Hung Joshua Chan
- Department of Chemical Engineering, The Pennsylvania State University, University Park, 306 Chemical and Biomedical Engineering Building, PA, 16802-4400, USA
| | - Yihui Shen
- Department of Chemistry, Princeton University, 285 Frick Laboratory, Princeton, NJ, 08544, USA
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, 08540, USA
| | - Tianxia Xiao
- Department of Chemistry, Princeton University, 285 Frick Laboratory, Princeton, NJ, 08544, USA
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, 08540, USA
| | - Anshu Deewan
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champagne, 114 Roger Adams Laboratory MC 712, Urbana, IL, 61801, USA
| | - Sujit S. Jagtap
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champagne, 114 Roger Adams Laboratory MC 712, Urbana, IL, 61801, USA
| | - Huimin Zhao
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champagne, 114 Roger Adams Laboratory MC 712, Urbana, IL, 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA
| | - Christopher V. Rao
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champagne, 114 Roger Adams Laboratory MC 712, Urbana, IL, 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA
| | - Joshua D. Rabinowitz
- Department of Chemistry, Princeton University, 285 Frick Laboratory, Princeton, NJ, 08544, USA
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, 08540, USA
| | - Costas D. Maranas
- Department of Chemical Engineering, The Pennsylvania State University, University Park, 306 Chemical and Biomedical Engineering Building, PA, 16802-4400, USA
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28
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Carsanba E, Papanikolaou S, Erten H. Production of oils and fats by oleaginous microorganisms with an emphasis given to the potential of the nonconventional yeast Yarrowia lipolytica. Crit Rev Biotechnol 2018; 38:1230-1243. [DOI: 10.1080/07388551.2018.1472065] [Citation(s) in RCA: 51] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
Affiliation(s)
- E. Carsanba
- Cukurova University, Faculty of Agriculture, Food Engineering Department, Adana, Turkey
- Mustafa Kemal University, Altınozu Agricultural Sciences Vocational School, Hatay, Turkey
| | - S. Papanikolaou
- Agricultural University of Athens, Department of Food Science and Human Nutrition, Athens, Greece
| | - H. Erten
- Cukurova University, Faculty of Agriculture, Food Engineering Department, Adana, Turkey
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29
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Garay LA, Sitepu IR, Cajka T, Xu J, Teh HE, German JB, Pan Z, Dungan SR, Block DE, Boundy-Mills KL. Extracellular fungal polyol lipids: A new class of potential high value lipids. Biotechnol Adv 2018; 36:397-414. [DOI: 10.1016/j.biotechadv.2018.01.003] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Revised: 12/07/2017] [Accepted: 01/03/2018] [Indexed: 01/30/2023]
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30
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Xue SJ, Chi Z, Zhang Y, Li YF, Liu GL, Jiang H, Hu Z, Chi ZM. Fatty acids from oleaginous yeasts and yeast-like fungi and their potential applications. Crit Rev Biotechnol 2018; 38:1049-1060. [DOI: 10.1080/07388551.2018.1428167] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Si-Jia Xue
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Zhe Chi
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Yu Zhang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yan-Feng Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Guang-Lei Liu
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Hong Jiang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Zhong Hu
- Department of Biology, Shantou University, Shantou, China
| | - Zhen-Ming Chi
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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31
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Description of Komagataella mondaviorum sp. nov., a new sibling species of Komagataella (Pichia) pastoris. Antonie van Leeuwenhoek 2018; 111:1197-1207. [DOI: 10.1007/s10482-018-1028-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2017] [Accepted: 01/25/2018] [Indexed: 12/11/2022]
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32
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1-Ethyl-3-methylimidazolium tolerance and intracellular lipid accumulation of 38 oleaginous yeast species. Appl Microbiol Biotechnol 2017; 101:8621-8631. [DOI: 10.1007/s00253-017-8506-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Revised: 08/09/2017] [Accepted: 08/23/2017] [Indexed: 10/18/2022]
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33
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Ramírez-Castrillón M, Jaramillo-Garcia VP, Rosa PD, Landell MF, Vu D, Fabricio MF, Ayub MAZ, Robert V, Henriques JAP, Valente P. The Oleaginous Yeast Meyerozyma guilliermondii BI281A as a New Potential Biodiesel Feedstock: Selection and Lipid Production Optimization. Front Microbiol 2017; 8:1776. [PMID: 29018411 PMCID: PMC5614974 DOI: 10.3389/fmicb.2017.01776] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Accepted: 08/31/2017] [Indexed: 11/22/2022] Open
Abstract
A high throughput screening (HTS) methodology for evaluation of cellular lipid content based on Nile red fluorescence reads using black background 96-wells test plates and a plate reader equipment allowed the rapid intracellular lipid estimation of strains from a Brazilian phylloplane yeast collection. A new oleaginous yeast, Meyerozyma guilliermondii BI281A, was selected, for which the gravimetric determination of total lipids relative to dry weight was 52.38% for glucose or 34.97% for pure glycerol. The lipid production was optimized obtaining 108 mg/L of neutral lipids using pure glycerol as carbon source, and the strain proved capable of accumulating oil using raw glycerol from a biodiesel refinery. The lipid profile showed monounsaturated fatty acids (MUFA) varying between 56 or 74% in pure or raw glycerol, respectively. M. guilliermondii BI281A bears potential as a new biodiesel feedstock.
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Affiliation(s)
- Mauricio Ramírez-Castrillón
- Graduate Program in Cell and Molecular Biology, Biotechnology Center, Federal University of Rio Grande do SulPorto Alegre, Brazil.,Department of Microbiology, Immunology and Parasitology, Federal University of Rio Grande do SulPorto Alegre, Brazil.,Research Group in Mycology (GIM), Research Center in Environmental Basic Sciences (CICBA), Faculty of Basic Sciences, Universidad Santiago de CaliCali, Colombia
| | - Victoria P Jaramillo-Garcia
- Graduate Program in Cell and Molecular Biology, Biotechnology Center, Federal University of Rio Grande do SulPorto Alegre, Brazil
| | - Priscila D Rosa
- Graduate Program in Medical Sciences, Federal University of Rio Grande do SulPorto Alegre, Brazil
| | | | - Duong Vu
- Bioinformatics Research Group, Westerdijk Fungal Biodiversity InstituteUtrecht, Netherlands
| | - Mariana F Fabricio
- Biotechnology, Bioprocess, and Biocatalysis Group, Food Science and Technology Institute, Federal University of Rio Grande do SulPorto Alegre, Brazil
| | - Marco A Z Ayub
- Biotechnology, Bioprocess, and Biocatalysis Group, Food Science and Technology Institute, Federal University of Rio Grande do SulPorto Alegre, Brazil
| | - Vincent Robert
- Bioinformatics Research Group, Westerdijk Fungal Biodiversity InstituteUtrecht, Netherlands
| | - João A P Henriques
- Graduate Program in Cell and Molecular Biology, Biotechnology Center, Federal University of Rio Grande do SulPorto Alegre, Brazil
| | - Patricia Valente
- Department of Microbiology, Immunology and Parasitology, Federal University of Rio Grande do SulPorto Alegre, Brazil
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34
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Simultaneous production of intracellular triacylglycerols and extracellular polyol esters of fatty acids by Rhodotorula babjevae and Rhodotorula aff. paludigena. J Ind Microbiol Biotechnol 2017; 44:1397-1413. [PMID: 28681129 DOI: 10.1007/s10295-017-1964-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2017] [Accepted: 06/17/2017] [Indexed: 12/11/2022]
Abstract
Microbial oils have been analyzed as alternatives to petroleum. However, just a handful of microbes have been successfully adapted to produce chemicals that can compete with their petroleum counterparts. One of the reasons behind the low success rate is the overall economic inefficiency of valorizing a single product. This study presents a lab-scale analysis of two yeast species that simultaneously produce multiple high-value bioproducts: intracellular triacylglycerols (TG) and extracellular polyol esters of fatty acids (PEFA), two lipid classes with immediate applications in the biofuels and surfactant industries. At harvest, the yeast strain Rhodotorula aff. paludigena UCDFST 81-84 secreted 20.9 ± 0.2 g L-1 PEFA and produced 8.8 ± 1.0 g L-1 TG, while the yeast strain Rhodotorula babjevae UCDFST 04-877 secreted 11.2 ± 1.6 g L-1 PEFA and 18.5 ± 1.7 g L-1 TG. The overall glucose conversion was 0.24 and 0.22 g(total lipid) g (glucose)-1 , respectively. The results present a stable and scalable microbial growth platform yielding multiple co-products.
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35
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Garay LA, Sitepu IR, Cajka T, Fiehn O, Cathcart E, Fry RW, Kanti A, Joko Nugroho A, Faulina SA, Stephanandra S, German JB, Boundy-Mills KL. Discovery of synthesis and secretion of polyol esters of fatty acids by four basidiomycetous yeast species in the order Sporidiobolales. J Ind Microbiol Biotechnol 2017; 44:923-936. [PMID: 28289902 DOI: 10.1007/s10295-017-1919-y] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2016] [Accepted: 02/05/2017] [Indexed: 12/22/2022]
Abstract
Polyol esters of fatty acids (PEFA) are amphiphilic glycolipids produced by yeast that could play a role as natural, environmentally friendly biosurfactants. We recently reported discovery of a new PEFA-secreting yeast species, Rhodotorula babjevae, a basidiomycetous yeast to display this behavior, in addition to a few other Rhodotorula yeasts reported on the 1960s. Additional yeast species within the taxonomic order Sporidiobolales were screened for secreted glycolipid production. PEFA production equal or above 1 g L-1 were detected in 19 out of 65 strains of yeast screened, belonging to 6 out of 30 yeast species tested. Four of these species were not previously known to secrete glycolipids. These results significantly increase the number of yeast species known to secrete PEFA, holding promise for expanding knowledge of PEFA synthesis and secretion mechanisms, as well as setting the groundwork towards commercialization.
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Affiliation(s)
- Luis A Garay
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California, One Shields Ave, Davis, CA, 95616-8598, USA
| | - Irnayuli R Sitepu
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California, One Shields Ave, Davis, CA, 95616-8598, USA.,Biotechnology Department, Indonesia International Institute for Life Sciences (i3L), Jalan Pulo Mas Barat Kav. 88, Jakarta, 13210, Indonesia
| | - Tomas Cajka
- West Coast Metabolomics Center, Genome Center, University of California, 451 Health Sciences Drive, Davis, CA, 95616, USA
| | - Oliver Fiehn
- West Coast Metabolomics Center, Genome Center, University of California, 451 Health Sciences Drive, Davis, CA, 95616, USA.,Biochemistry Department, Faculty of Science, King Abdulaziz University, P.O. Box 80203, Jeddah, 21589, Saudi Arabia
| | - Erin Cathcart
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California, One Shields Ave, Davis, CA, 95616-8598, USA
| | - Russell W Fry
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California, One Shields Ave, Davis, CA, 95616-8598, USA
| | - Atit Kanti
- Research Center for Biology, Indonesian Institute of Sciences, Jalan Raya Jakarta - Bogor Km.46 Cibinong, Bogor, 16911, Indonesia
| | - Agustinus Joko Nugroho
- Research Center for Biology, Indonesian Institute of Sciences, Jalan Raya Jakarta - Bogor Km.46 Cibinong, Bogor, 16911, Indonesia
| | - Sarah Asih Faulina
- Research, Development and Innovation Agency, Ministry of Environment and Forestry, Jalan Gunung Batu No. 5, P.O. Box 165, Bogor, 16610, Indonesia
| | - Sira Stephanandra
- Research, Development and Innovation Agency, Ministry of Environment and Forestry, Jalan Gunung Batu No. 5, P.O. Box 165, Bogor, 16610, Indonesia
| | - J Bruce German
- Department of Food Science and Technology, University of California Davis, One Shields Avenue, Davis, CA, 95616, USA
| | - Kyria L Boundy-Mills
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California, One Shields Ave, Davis, CA, 95616-8598, USA.
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36
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Xu J, Liu D. Exploitation of genus Rhodosporidium for microbial lipid production. World J Microbiol Biotechnol 2017; 33:54. [DOI: 10.1007/s11274-017-2225-6] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Accepted: 02/09/2017] [Indexed: 11/25/2022]
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37
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Cajka T, Garay LA, Sitepu IR, Boundy-Mills KL, Fiehn O. Multiplatform Mass Spectrometry-Based Approach Identifies Extracellular Glycolipids of the Yeast Rhodotorula babjevae UCDFST 04-877. JOURNAL OF NATURAL PRODUCTS 2016; 79:2580-2589. [PMID: 27669091 DOI: 10.1021/acs.jnatprod.6b00497] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
A multiplatform mass spectrometry-based approach was used for elucidating extracellular lipids with biosurfactant properties produced by the oleaginous yeast Rhodotorula babjevae UCDFST 04-877. This strain secreted 8.6 ± 0.1 g/L extracellular lipids when grown in a benchtop bioreactor fed with 100 g/L glucose in medium without addition of hydrophobic substrate, such as oleic acid. Untargeted reversed-phase liquid chromatography-quadrupole/time-of-flight mass spectrometry (QTOFMS) detected native glycolipid molecules with masses of 574-716 Da. After hydrolysis into the fatty acid and sugar components and hydrophilic interaction chromatography-QTOFMS analysis, the extracellular lipids were found to consist of hydroxy fatty acids and sugar alcohols. Derivatization and chiral separation gas chromatography-mass spectrometry (GC-MS) identified these components as d-arabitol, d-mannitol, (R)-3-hydroxymyristate, (R)-3-hydroxypalmitate, and (R)-3-hydroxystearate. In order to assemble these substructures back into intact glycolipids that were detected in the initial screen, potential structures were in-silico acetylated to match the observed molar masses and subsequently characterized by matching predicted and observed MS/MS fragmentation using the Mass Frontier software program. Eleven species of acetylated sugar alcohol esters of hydroxy fatty acids were characterized for this yeast strain.
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Affiliation(s)
- Tomas Cajka
- UC Davis Genome Center-Metabolomics, University of California, Davis , 451 Health Sciences Drive, Davis, California 95616, United States
| | - Luis A Garay
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California Davis , One Shields Avenue, Davis, California 95616, United States
| | - Irnayuli R Sitepu
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California Davis , One Shields Avenue, Davis, California 95616, United States
- Bioentrepreneurship Department, Indonesia International Institute for Life Sciences , Jalan Pulo Mas Barat Kav. 88, East Jakarta, DKI Jakarta 13210, Indonesia
| | - Kyria L Boundy-Mills
- Phaff Yeast Culture Collection, Department of Food Science and Technology, University of California Davis , One Shields Avenue, Davis, California 95616, United States
| | - Oliver Fiehn
- UC Davis Genome Center-Metabolomics, University of California, Davis , 451 Health Sciences Drive, Davis, California 95616, United States
- Biochemistry Department, Faculty of Science, King Abdulaziz University , P.O. Box 80203, Jeddah 21589, Saudi Arabia
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38
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Martinez A, Cavello I, Garmendia G, Rufo C, Cavalitto S, Vero S. Yeasts from sub-Antarctic region: biodiversity, enzymatic activities and their potential as oleaginous microorganisms. Extremophiles 2016; 20:759-69. [PMID: 27469174 DOI: 10.1007/s00792-016-0865-3] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2016] [Accepted: 07/12/2016] [Indexed: 10/21/2022]
Abstract
Various microbial groups are well known to produce a range of extracellular enzymes and other secondary metabolites. However, the occurrence and importance of investment in such activities have received relatively limited attention in studies of Antarctic soil microbiota. Sixty-one yeasts strains were isolated from King George Island, Antarctica which were characterized physiologically and identified at the molecular level using the D1/D2 region of rDNA. Fifty-eight yeasts (belonging to the genera Cryptococcus, Leucosporidiella, Rhodotorula, Guehomyces, Candida, Metschnikowia and Debaryomyces) were screened for extracellular amylolytic, proteolytic, esterasic, pectinolytic, inulolytic xylanolytic and cellulolytic activities at low and moderate temperatures. Esterase activity was the most common enzymatic activity expressed by the yeast isolates regardless the assay temperature and inulinase was the second most common enzymatic activity. No cellulolytic activity was detected. One yeast identified as Guehomyces pullulans (8E) showed significant activity across six of seven enzymes types tested. Twenty-eight yeast isolates were classified as oleaginous, being the isolate 8E the strain that accumulated the highest levels of saponifiable lipids (42 %).
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Affiliation(s)
- A Martinez
- Cátedra de Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Montevideo, Uruguay
| | - I Cavello
- Research and Development Center for Industrial Fermentations, CINDEFI (CONICET, La Plata, UNLP), Calle 47 y 115 (B1900ASH), La Plata, Argentina
| | - G Garmendia
- Cátedra de Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Montevideo, Uruguay
| | - C Rufo
- Facultad de Química, Instituto Polo Tecnológico, Universidad de la República, By Pass Ruta 8 s/n, Pando, Canelones, Uruguay
| | - S Cavalitto
- Research and Development Center for Industrial Fermentations, CINDEFI (CONICET, La Plata, UNLP), Calle 47 y 115 (B1900ASH), La Plata, Argentina
| | - S Vero
- Cátedra de Microbiología, Departamento de Biociencias, Facultad de Química, Universidad de la República, Montevideo, Uruguay.
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