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Zhao H, Ju X, Nie Y, James TY, Liu XY. High-throughput screening carbon and nitrogen sources to promote growth and sporulation in Rhizopus arrhizus. AMB Express 2024; 14:76. [PMID: 38942930 PMCID: PMC11213844 DOI: 10.1186/s13568-024-01733-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2024] [Accepted: 06/19/2024] [Indexed: 06/30/2024] Open
Abstract
Rhizopus arrhizus is a saprotrophic, sometimes clinically- and industrially-relevant mold (Mucorales) and distributed worldwide, suggesting it can assimilate a broad spectrum of substrates. Here, 69 strains of R. arrhizus were investigated by using the Biolog FF MicroPlate for the profiles of utilizing 95 carbon and nitrogen substrates. The study showed that most R. arrhizus strains were similar in average well color development (AWCD) and substrate richness (SR). Nevertheless, 13 strains were unique in principal component analyses, heatmap, AWCD, and SR analyses, which may imply a niche differentiation within R. arrhizus. The species R. arrhizus was able to utilize all the 95 carbon and nitrogen substrates, consistent with the hypothesis of a great metabolic diversity. It possessed a substrate preference of alcohols, and seven substrates were most frequently utilized, with N-acetyl-D-galactosamine and L-phenylalanine ranking at the top of the list. Eight substrates, especially L-arabinose and xylitol, were capable of promoting sporulation and being applied for rejuvenating degenerated strains. By phenotyping R. arrhizus strains in carbon and nitrogen assimilation capacity, this study revealed the extent of intra-specific variability and laid a foundation for estimating optimum substrates that may be useful for industrial applications.
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Affiliation(s)
- Heng Zhao
- College of Life Sciences, Shandong Normal University, Jinan, 250358, China
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, 100083, China
| | - Xiao Ju
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
- Graduate School, China Pharmaceutical University, Nanjing, 211198, China
| | - Yong Nie
- School of Civil Engineering and Architecture, Anhui University of Technology, Ma'anshan, 243002, China
| | - Timothy Y James
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109-1048, USA
| | - Xiao-Yong Liu
- College of Life Sciences, Shandong Normal University, Jinan, 250358, China.
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China.
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Khunnonkwao P, Thitiprasert S, Jaiaue P, Khumrangsee K, Cheirsilp B, Thongchul N. The outlooks and key challenges in renewable biomass feedstock utilization for value-added platform chemical via bioprocesses. Heliyon 2024; 10:e30830. [PMID: 38770303 PMCID: PMC11103475 DOI: 10.1016/j.heliyon.2024.e30830] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2024] [Revised: 05/04/2024] [Accepted: 05/06/2024] [Indexed: 05/22/2024] Open
Abstract
The conversion of renewable biomass feedstock into value-added products via bioprocessing platforms has become attractive because of environmental and health concerns. Process performance and cost competitiveness are major factors in the bioprocess design to produce desirable products from biomass feedstock. Proper pretreatment allows delignification and hemicellulose removal from the liquid fraction, allowing cellulose to be readily hydrolyzed to monomeric sugars. Several industrial products are produced via sugar fermentation using either naturally isolated or genetically modified microbes. Microbial platforms play an important role in the synthesis of several products, including drop-in chemicals, as-in products, and novel compounds. The key elements in developing a fermentation platform are medium formulation, sterilization, and active cells for inoculation. Downstream bioproduct recovery may seem like a straightforward chemical process, but is more complex, wherein cost competitiveness versus recovery performance becomes a challenge. This review summarizes the prospects for utilizing renewable biomass for bioprocessing.
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Affiliation(s)
- Panwana Khunnonkwao
- Institute of Biotechnology and Genetic Engineering, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
- Center of Excellence in Bioconversion and Bioseparation for Platform Chemical Production, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
| | - Sitanan Thitiprasert
- Institute of Biotechnology and Genetic Engineering, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
- Center of Excellence in Bioconversion and Bioseparation for Platform Chemical Production, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
| | - Phetcharat Jaiaue
- Center of Excellence in Bioconversion and Bioseparation for Platform Chemical Production, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
- Program in Biotechnology, Faculty of Science, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
| | - Katsaya Khumrangsee
- Institute of Biotechnology and Genetic Engineering, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
- Center of Excellence in Bioconversion and Bioseparation for Platform Chemical Production, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
| | - Benjamas Cheirsilp
- Center of Excellence in Innovative Biotechnology for Sustainable Utilization of Bioresources, Faculty of Agro-Industry, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand
| | - Nuttha Thongchul
- Institute of Biotechnology and Genetic Engineering, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
- Center of Excellence in Bioconversion and Bioseparation for Platform Chemical Production, Chulalongkorn University, Phayathai Road, Wangmai, Pathumwan, Bangkok, 10330, Thailand
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Rodríguez-Torres M, Romo-Buchelly J, Orozco-Sánchez F. Effects of oxygen transfer rate on the L(+) lactic acid production by Rhizopus oryzae NRRL 395 in stirred tank bioreactor. Biochem Eng J 2022. [DOI: 10.1016/j.bej.2022.108665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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de Jongh NW, Swart RM, Nicol W. Fed-batch growth of Rhizopus oryzae: Eliminating ethanol formation by controlling glucose addition. Biochem Eng J 2021. [DOI: 10.1016/j.bej.2021.107961] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Eş I, Mousavi Khaneghah A, Barba FJ, Saraiva JA, Sant'Ana AS, Hashemi SMB. Recent advancements in lactic acid production - a review. Food Res Int 2018; 107:763-770. [DOI: 10.1016/j.foodres.2018.01.001] [Citation(s) in RCA: 93] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2017] [Revised: 12/31/2017] [Accepted: 01/03/2018] [Indexed: 10/18/2022]
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6
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Thitiprasert S, Kodama K, Tanasupawat S, Prasitchoke P, Rampai T, Prasirtsak B, Tolieng V, Piluk J, Assabumrungrat S, Thongchul N. A homofermentative Bacillus sp. BC-001 and its performance as a potential l-lactate industrial strain. Bioprocess Biosyst Eng 2017; 40:1787-1799. [DOI: 10.1007/s00449-017-1833-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Accepted: 08/16/2017] [Indexed: 11/28/2022]
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Pimtong V, Ounaeb S, Thitiprasert S, Tolieng V, Sooksai S, Boonsombat R, Tanasupawat S, Assabumrungrat S, Thongchul N. Enhanced effectiveness of Rhizopus oryzae by immobilization in a static bed fermentor for l -lactic acid production. Process Biochem 2017. [DOI: 10.1016/j.procbio.2016.09.020] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Zhang L, Li X, Yong Q, Yang ST, Ouyang J, Yu S. Impacts of lignocellulose-derived inhibitors on L-lactic acid fermentation by Rhizopus oryzae. BIORESOURCE TECHNOLOGY 2016; 203:173-80. [PMID: 26724548 DOI: 10.1016/j.biortech.2015.12.014] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2015] [Revised: 11/28/2015] [Accepted: 12/08/2015] [Indexed: 05/23/2023]
Abstract
Inhibitors generated in the pretreatment and hydrolysis of corn stover and corn cob were identified. In general, they inhibited cell growth, lactate dehydrogenase, and lactic acid production but with less or no adverse effect on alcohol dehydrogenase and ethanol production in batch fermentation by Rhizopus oryzae. Furfural and 5-hydroxymethyl furfural (HMF) were highly toxic at 0.5-1 g L(-1), while formic and acetic acids at less than 4 g L(-1) and levulinic acid at 10 g L(-1) were not toxic. Among the phenolic compounds at 1 g L(-1), trans-cinnamic acid and syringaldehyde had the highest toxicity while syringic, ferulic and p-coumaric acids were not toxic. Although these inhibitors were present at concentrations much lower than their separately identified toxic levels, lactic acid fermentation with the hydrolysates showed much inferior performance compared to the control without inhibitor, suggesting synergistic or compounded effects of the lignocellulose-degraded compounds on inhibiting lactic acid fermentation.
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Affiliation(s)
- Li Zhang
- College of Chemical Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, PR China; William G. Lowrie Department of Chemical and Biomolecular Engineering, The Ohio State University, 151 West Woodruff Avenue, Columbus, OH 43210, USA
| | - Xin Li
- College of Chemical Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, PR China
| | - Qiang Yong
- College of Chemical Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, PR China
| | - Shang-Tian Yang
- William G. Lowrie Department of Chemical and Biomolecular Engineering, The Ohio State University, 151 West Woodruff Avenue, Columbus, OH 43210, USA.
| | - Jia Ouyang
- College of Chemical Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, PR China
| | - Shiyuan Yu
- College of Chemical Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, PR China
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Thitiprasert S, Pimtong V, Kodama K, Sooksai S, Tanasupawat S, Assabumrungrat S, Tolieng V, Thongchul N. Correlative effect of dissolved oxygen and key enzyme inhibitors responsible for l-lactate production by immobilized Rhizopus oryzae NRRL395 cultivated in a static bed bioreactor. Process Biochem 2016. [DOI: 10.1016/j.procbio.2015.11.034] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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10
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Enhancement and modeling of microparticle-added Rhizopus oryzae lactic acid production. Bioprocess Biosyst Eng 2015; 39:323-30. [DOI: 10.1007/s00449-015-1518-0] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2015] [Accepted: 11/25/2015] [Indexed: 11/25/2022]
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11
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Wang D, Zhu Z, Wang X, Bustamante M, Xu Y, Liu Y, Liao W. Improving mycelium-bound lipase production by aggregating Rhizopus chinensis on a draft tube in a modified stirred tank fermentor. Process Biochem 2015. [DOI: 10.1016/j.procbio.2015.10.004] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Ke W, Chang S, Chen X, Luo S, Jiang S, Yang P, Wu X, Zheng Z. Metabolic control analysis of L-lactate synthesis pathway in Rhizopus oryzae As 3.2686. Bioprocess Biosyst Eng 2015; 38:2189-99. [PMID: 26288952 DOI: 10.1007/s00449-015-1458-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2015] [Accepted: 08/08/2015] [Indexed: 10/23/2022]
Abstract
The relationship between the metabolic flux and the activities of the pyruvate branching enzymes of Rhizopus oryzae As 3.2686 during L-lactate fermentation was investigated using the perturbation method of aeration. The control coefficients for five enzymes, pyruvate dehydrogenase (PDH), pyruvate carboxylase (PC), pyruvate decarboxylase (PDC), lactate dehydrogenase (LDH), and alcohol dehydrogenase (ADH), were calculated. Our results indicated significant correlations between PDH and PC, PDC and LDH, PDC and ADH, LDH and ADH, and PDC and PC. It also appeared that PDH, PC, and LDH strongly controlled the L-lactate flux; PDH and ADH strongly controlled the ethanol flux; while PDH and PC strongly controlled the acetyl coenzyme A flux and the oxaloacetate flux. Further, the flux control coefficient curves indicated that the control of the system gradually transferred from PDC to PC during the steady state. Therefore, PC was the key rate-limiting enzyme that controls the flux distribution.
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Affiliation(s)
- Wei Ke
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shu Chang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Xiaoju Chen
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shuizhong Luo
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shaotong Jiang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Peizhou Yang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Xuefeng Wu
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Zhi Zheng
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China. .,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.
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Manipulating Pyruvate Decarboxylase by Addition of Enzyme Regulators during Fermentation of Rhizopus oryzae to Enhance Lactic Acid Production. Appl Biochem Biotechnol 2014; 174:1795-809. [DOI: 10.1007/s12010-014-1155-0] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2014] [Accepted: 08/15/2014] [Indexed: 11/26/2022]
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Thitiprasert S, Sooksai S, Thongchul N. 1,2-Diazole and 2,2,2-Trifluoroethanol and Their Regulatory Effects on Ethanol and Lactic Acid Formation in the Living Culture of Rhizopus oryzae. Appl Biochem Biotechnol 2013; 172:1673-86. [DOI: 10.1007/s12010-013-0627-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2013] [Accepted: 10/30/2013] [Indexed: 10/26/2022]
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15
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Recent advances in lactic acid production by microbial fermentation processes. Biotechnol Adv 2013; 31:877-902. [DOI: 10.1016/j.biotechadv.2013.04.002] [Citation(s) in RCA: 607] [Impact Index Per Article: 55.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2012] [Revised: 04/14/2013] [Accepted: 04/15/2013] [Indexed: 11/18/2022]
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Yamane T, Tanaka R. Mass production of spores of lactic acid-producing Rhizopus oryzae NBRC 5384 on agar plate. Biotechnol Prog 2013; 29:876-81. [PMID: 23658025 DOI: 10.1002/btpr.1744] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2012] [Revised: 02/22/2013] [Indexed: 11/10/2022]
Abstract
Mass production of sporangiospores (spores) of Rhizopus oryzae NBRC 5384 (identical to NRRL 395 and ATCC 9363) on potato-dextrose-agar medium was studied aiming at starting its L(+)-lactic acid fermentation directly from spore inoculation. Various parameters including harvest time, sowed spore density, size of agar plate, height of air space, and incubation mode of plate (agar-on-bottom or agar-on-top) were studied. Ordinarily used shallow Petri dishes were found out to be unsuitable for the full growth of R. oryzae sporangiophores. In a very wide range of the sowed spore density, the smaller it was, the greater the number of the harvested spores was. It was also interesting to find out that R. oryzae grown downward vertically with a deep air space in an agar-on-top mode gave larger amount of spores than in an agar-on-bottom mode at 30°C for 7-day cultivation. Scale-up of the agar plate culture from 26.4 to 292 cm(2) was studied, resulting in the proportional relationship between the number of the harvested spores/plate and the plate area in the deep Petri dishes. The number of plates of 50 cm in diameter needed for 100 m(3) industrial submerged fermentation started directly from 2 × 10(5) spores/mL inoculum size was estimated as about 6, from which it was inferred that such a fermentation would be feasible. Designing a 50 cm plate and a method of spreading and collecting the spores were suggested. Bioprocess technological significance of the "full-scale industrial submerged fermentation started directly from spore inoculation omitting pre-culture" has been discussed.
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Affiliation(s)
- Tsuneo Yamane
- Department of Environmental Bioscience, College of Bioscience and Biotechnology, Chubu University, Kasugai City, Aichi Prefecture, Japan.
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Highly accumulative production of l(+)-lactate from glucose by crystallization fermentation with immobilized Rhizopus oryzae. J Biosci Bioeng 2013; 115:90-5. [DOI: 10.1016/j.jbiosc.2012.08.005] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2012] [Revised: 08/07/2012] [Accepted: 08/07/2012] [Indexed: 11/18/2022]
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Meussen BJ, de Graaff LH, Sanders JPM, Weusthuis RA. Metabolic engineering of Rhizopus oryzae for the production of platform chemicals. Appl Microbiol Biotechnol 2012; 94:875-86. [PMID: 22526790 PMCID: PMC3339055 DOI: 10.1007/s00253-012-4033-0] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2012] [Revised: 03/14/2012] [Accepted: 03/15/2012] [Indexed: 11/28/2022]
Abstract
Rhizopus oryzae is a filamentous fungus belonging to the Zygomycetes. It is among others known for its ability to produce the sustainable platform chemicals L: -(+)-lactic acid, fumaric acid, and ethanol. During glycolysis, all fermentable carbon sources are metabolized to pyruvate and subsequently distributed over the pathways leading to the formation of these products. These platform chemicals are produced in high yields on a wide range of carbon sources. The yields are in excess of 85 % of the theoretical yield for L: -(+)-lactic acid and ethanol and over 65 % for fumaric acid. The study and optimization of the metabolic pathways involved in the production of these compounds requires well-developed metabolic engineering tools and knowledge of the genetic makeup of this organism. This review focuses on the current metabolic engineering techniques available for R. oryzae and their application on the metabolic pathways of the main fermentation products.
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Affiliation(s)
- Bas J Meussen
- Fungal Systems Biology, Laboratory of Systems and Synthetic Biology, Wageningen University, Dreijenplein 10, Wageningen, The Netherlands
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Phrueksawan P, Kulpreecha S, Sooksai S, Thongchul N. Direct fermentation of l(+)-lactic acid from cassava pulp by solid state culture of Rhizopus oryzae. Bioprocess Biosyst Eng 2012; 35:1429-36. [DOI: 10.1007/s00449-012-0731-3] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2012] [Accepted: 03/21/2012] [Indexed: 10/28/2022]
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Thitiprasert S, Sooksai S, Thongchul N. In Vivo Regulation of Alcohol Dehydrogenase and Lactate Dehydrogenase in Rhizopus Oryzae to Improve l-Lactic Acid Fermentation. Appl Biochem Biotechnol 2011; 164:1305-22. [DOI: 10.1007/s12010-011-9214-2] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2010] [Accepted: 03/01/2011] [Indexed: 11/24/2022]
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