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El-Naggar NEA, Rabei NH, Elmansy MF, Elmessiry OT, El-Sherbeny MK, El-Saidy ME, Sarhan MT, Helal MG. Artificial neural network approach for prediction of AuNPs biosynthesis by Streptomyces flavolimosus, characterization, antitumor potency in-vitro and in-vivo against Ehrlich ascites carcinoma. Sci Rep 2023; 13:12686. [PMID: 37542154 PMCID: PMC10403537 DOI: 10.1038/s41598-023-39177-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2023] [Accepted: 07/20/2023] [Indexed: 08/06/2023] Open
Abstract
Gold nanoparticles (AuNPs) have emerged as promising and versatile nanoparticles for cancer therapy and are widely used in drug and gene delivery, biomedical imaging, diagnosis, and biosensors. The current study describes a biological-based strategy for AuNPs biosynthesis using the cell-free supernatant of Streptomyces flavolimosus. The biosynthesized AuNPs have an absorption peak at 530-535 nm. The TEM images indicate that AuNPs were spherical and ranged in size from 4 to 20 nm. The surface capping molecules of AuNPs are negatively charged, having a Zeta potential of - 10.9 mV. FTIR analysis revealed that the AuNPs surface composition contains a variety of functional groups as -OH, C-H, N-, C=O, NH3+, amine hydrochloride, amide group of proteins, C-C and C-N. The bioprocess variables affecting AuNPs biosynthesis were optimized by using the central composite design (CCD) in order to maximize the AuNPs biosynthesis. The maximum yield of AuNPs (866.29 µg AuNPs/mL) was obtained using temperature (35 °C), incubation period (4 days), HAuCl4 concentration (1000 µg/mL) and initial pH level 6. Comparison was made between the fitness of CCD versus Artificial neural network (ANN) approach based on their prediction and the corresponding experimental results. AuNPs biosynthesis values predicted by ANN exhibit a more reasonable agreement with the experimental result. The anticancer activities of AuNPs were assessed under both in vitro and in vivo conditions. The results revealed a significant inhibitory effect on the proliferation of the MCF-7 and Hela carcinoma cell lines treated with AuNPs with IC50 value of 13.4 ± 0.44 μg/mL and 13.8 ± 0.45 μg/mL for MCF-7 and Hela cells; respectively. Further, AuNPs showed potential inhibitory effect against tumor growth in tumor-bearing mice models. AuNPs significantly reduced the tumor volume, tumor weight, and decreased number of viable tumor cells in EAC bearing mice.
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Affiliation(s)
- Noura El-Ahmady El-Naggar
- Department of Bioprocess Development, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, 21934, Alexandria, Egypt.
| | - Nashwa H Rabei
- Department of Bioprocess Development, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, 21934, Alexandria, Egypt
| | - Mohamed F Elmansy
- Biotechnology and Its Application Program, Department of Botany, Faculty of Science, Mansoura University, Mansoura, 35516, Egypt
| | - Omar T Elmessiry
- Biotechnology and Its Application Program, Department of Botany, Faculty of Science, Mansoura University, Mansoura, 35516, Egypt
| | - Mostafa K El-Sherbeny
- Biotechnology and Its Application Program, Department of Botany, Faculty of Science, Mansoura University, Mansoura, 35516, Egypt
| | - Mohanad E El-Saidy
- Biotechnology and Its Application Program, Department of Botany, Faculty of Science, Mansoura University, Mansoura, 35516, Egypt
| | - Mohamed T Sarhan
- Biotechnology and Its Application Program, Department of Botany, Faculty of Science, Mansoura University, Mansoura, 35516, Egypt
| | - Manar G Helal
- Department of Pharmacology and Toxicology, Faculty of Pharmacy, Mansoura University, Mansoura, 35516, Egypt
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Pham VD, Korver DR, Gänzle MG. Conversion of Phenolic Acids in Canola Fermentation: Impact on Antimicrobial Activity against Salmonella enterica and Campylobacter jejuni. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:2059-2069. [PMID: 36669157 DOI: 10.1021/acs.jafc.2c08322] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Canola meal (CM) is commonly used in poultry feeds. CM has a high protein content but also contains high levels of antimicrobial phenolic acids. Lactic acid bacteria can alter CM phenolic composition during fermentation and influence its antimicrobial activity against pathogens. Fermented CM was analyzed for phenolic composition using tandem mass spectrometry (LC-MS/MS) and high-performance liquid chromatography (HPLC). Sinapic acid and derivatives were the major phenolic acids in CM. Growth of lactobacilli in CM was attenuated when compared to cereal substrates. Glucosides and esters of sinapic acid were extensively hydrolyzed during fermentation with Lactiplantibacillus plantarum and Furfurilactobacillus milii. Lp. plantarum transformed hydroxycinnamic acids to dihydro, 4-vinyl, and 4-ethyl derivatives, Ff. milii reduced hydroxycinnamic acids to dihydroderivatives, but Limosilactobacillus reuteri did not convert hydroxycinnamic acids. The minimum inhibitory concentration of phenolic extracts was assessed with lactobacilli, Salmonella, and Campylobacter jejuni as indicator strains. Fermentation of CM with Lp. plantarum or Ff. milii increased the antimicrobial activity of phenolic extracts against Salmonella enterica and Campylobacter jejuni. Fermentation with Lm. reuteri TMW1.656 but not fermentation with Lm. reuteri TMW1.656ΔrtcN increased the antimicrobial activity of extracts owing to the production of reutericyclin. This study demonstrates that fermentation of CM with lactobacilli converts hydroxycinammic esters and may increase the antimicrobial activity of phenolic compounds in CM against pathogens.
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Affiliation(s)
- Vi D Pham
- Department. of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB T6G 2P5, Canada
| | - Douglas R Korver
- Department. of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB T6G 2P5, Canada
| | - Michael G Gänzle
- Department. of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB T6G 2P5, Canada
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3
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Chen AY, Ku JT, Tsai TP, Hung JJ, Hung BC, Lan EI. Metabolic Engineering Design Strategies for Increasing Carbon Fluxes Relevant for Biosynthesis in Cyanobacteria. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2023; 183:105-144. [PMID: 37093259 DOI: 10.1007/10_2023_218] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/25/2023]
Abstract
Cyanobacteria are promising microbial cell factories for the direct production of biochemicals and biofuels from CO2. Through genetic and metabolic engineering, they can be modified to produce a variety of both natural and non-natural compounds. To enhance the yield of these products, various design strategies have been developed. In this chapter, strategies used to enhance metabolic fluxes towards common precursors used in biosynthesis, including pyruvate, acetyl-CoA, malonyl-CoA, TCA cycle intermediates, and aromatics, are discussed. Additionally, strategies related to cofactor availability and mixotrophic conditions for bioproduction are also summarize.
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Affiliation(s)
- Arvin Y Chen
- Institute of Molecular Medicine and Bioengineering, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan
| | - Jason T Ku
- Institute of Molecular Medicine and Bioengineering, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan
| | - Teresa P Tsai
- Institute of Biomedical Engineering, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan
| | - Jenny J Hung
- Institute of Molecular Medicine and Bioengineering, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan
| | - Billy C Hung
- Institute of Molecular Medicine and Bioengineering, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan
| | - Ethan I Lan
- Department of Biological Science and Technology, National Yang Ming Chiao Tung University, Hsinchu City, Taiwan.
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4
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Biopolymer production in microbiology by application of metabolic engineering. Polym Bull (Berl) 2022. [DOI: 10.1007/s00289-021-03820-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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5
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Pedersen TB, Nielsen MR, Kristensen SB, Spedtsberg EML, Sørensen T, Petersen C, Muff J, Sondergaard TE, Nielsen KL, Wimmer R, Gardiner DM, Sørensen JL. Speed dating for enzymes! Finding the perfect phosphopantetheinyl transferase partner for your polyketide synthase. Microb Cell Fact 2022; 21:9. [PMID: 35012550 PMCID: PMC8751348 DOI: 10.1186/s12934-021-01734-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Accepted: 12/29/2021] [Indexed: 11/24/2022] Open
Abstract
The biosynthetic pathways for the fungal polyketides bikaverin and bostrycoidin, from Fusarium verticillioides and Fusarium solani respectively, were reconstructed and heterologously expressed in S. cerevisiae alongside seven different phosphopantetheinyl transferases (PPTases) from a variety of origins spanning bacterial, yeast and fungal origins. In order to gauge the efficiency of the interaction between the ACP-domains of the polyketide synthases (PKS) and PPTases, each were co-expressed individually and the resulting production of target polyketides were determined after 48 h of growth. In co-expression with both biosynthetic pathways, the PPTase from Fusarium verticillioides (FvPPT1) proved most efficient at producing both bikaverin and bostrycoidin, at 1.4 mg/L and 5.9 mg/L respectively. Furthermore, the remaining PPTases showed the ability to interact with both PKS's, except for a single PKS-PPTase combination. The results indicate that it is possible to boost the production of a target polyketide, simply by utilizing a more optimal PPTase partner, instead of the commonly used PPTases; NpgA, Gsp and Sfp, from Aspergillus nidulans, Brevibacillus brevis and Bacillus subtilis respectively.
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Affiliation(s)
- Tobias Bruun Pedersen
- Department of Chemistry and Bioscience, Aalborg University Esbjerg, Niels Bohrs Vej 8, 6700, Esbjerg, Denmark
| | - Mikkel Rank Nielsen
- Department of Chemistry and Bioscience, Aalborg University Esbjerg, Niels Bohrs Vej 8, 6700, Esbjerg, Denmark
| | | | - Eva Mie Lang Spedtsberg
- Department of Chemistry and Bioscience, Aalborg University Esbjerg, Niels Bohrs Vej 8, 6700, Esbjerg, Denmark
| | - Trine Sørensen
- Department of Chemistry and Bioscience, Aalborg University Aalborg, Fredrik Bajers Vej 7H, 9220, Aalborg, Denmark
| | - Celine Petersen
- Department of Chemistry and Bioscience, Aalborg University Aalborg, Fredrik Bajers Vej 7H, 9220, Aalborg, Denmark
| | - Jens Muff
- Department of Chemistry and Bioscience, Aalborg University Esbjerg, Niels Bohrs Vej 8, 6700, Esbjerg, Denmark
| | - Teis Esben Sondergaard
- Department of Chemistry and Bioscience, Aalborg University Aalborg, Fredrik Bajers Vej 7H, 9220, Aalborg, Denmark
| | - Kåre Lehmann Nielsen
- Department of Chemistry and Bioscience, Aalborg University Aalborg, Fredrik Bajers Vej 7H, 9220, Aalborg, Denmark
| | - Reinhard Wimmer
- Department of Chemistry and Bioscience, Aalborg University Aalborg, Fredrik Bajers Vej 7H, 9220, Aalborg, Denmark
| | - Donald Max Gardiner
- The University of Queensland, 306 Carmody Rd, St Lucia, Brisbane, QLD, 4072, Australia
| | - Jens Laurids Sørensen
- Department of Chemistry and Bioscience, Aalborg University Esbjerg, Niels Bohrs Vej 8, 6700, Esbjerg, Denmark.
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6
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Lee JW, Ong TG, Samian MR, Teh AH, Watanabe N, Osada H, Ong EBB. Screening of selected ageing-related proteins that extend chronological life span in yeast Saccharomyces cerevisiae. Sci Rep 2021; 11:24148. [PMID: 34921163 PMCID: PMC8683414 DOI: 10.1038/s41598-021-03490-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2021] [Accepted: 12/03/2021] [Indexed: 12/27/2022] Open
Abstract
Ageing-related proteins play various roles such as regulating cellular ageing, countering oxidative stress, and modulating signal transduction pathways amongst many others. Hundreds of ageing-related proteins have been identified, however the functions of most of these ageing-related proteins are not known. Here, we report the identification of proteins that extended yeast chronological life span (CLS) from a screen of ageing-related proteins. Three of the CLS-extending proteins, Ptc4, Zwf1, and Sme1, contributed to an overall higher survival percentage and shorter doubling time of yeast growth compared to the control. The CLS-extending proteins contributed to thermal and oxidative stress responses differently, suggesting different mechanisms of actions. The overexpression of Ptc4 or Zwf1 also promoted rapid cell proliferation during yeast growth, suggesting their involvement in cell division or growth pathways.
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Affiliation(s)
- Jee Whu Lee
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia, 11800 USM, Penang, Malaysia
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
| | - Tee Gee Ong
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia, 11800 USM, Penang, Malaysia
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
| | - Mohammed Razip Samian
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
- School of Biological Sciences, Universiti Sains Malaysia, 11800 USM, Penang, Malaysia
| | - Aik-Hong Teh
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
- Centre for Chemical Biology, Universiti Sains Malaysia, 11900 Bayan Lepas, Penang, Malaysia
| | - Nobumoto Watanabe
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
- Bioprobe Application Research Unit, RIKEN Centre for Sustainable Resource Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan
| | - Hiroyuki Osada
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang
- Chemical Biology Research Group, RIKEN Centre for Sustainable Resource Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan
| | - Eugene Boon Beng Ong
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia, 11800 USM, Penang, Malaysia.
- USM-RIKEN International Centre for Ageing Science (URICAS), Universiti Sains Malaysia, 11800 USM, Malaysia, Penang.
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7
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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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8
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Tao YM, Bu CY, Zou LH, Hu YL, Zheng ZJ, Ouyang J. A comprehensive review on microbial production of 1,2-propanediol: micro-organisms, metabolic pathways, and metabolic engineering. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:216. [PMID: 34794503 PMCID: PMC8600716 DOI: 10.1186/s13068-021-02067-w] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 11/07/2021] [Indexed: 06/13/2023]
Abstract
1,2-Propanediol is an important building block as a component used in the manufacture of unsaturated polyester resin, antifreeze, biofuel, nonionic detergent, etc. Commercial production of 1,2-propanediol through microbial biosynthesis is limited by low efficiency, and chemical production of 1,2-propanediol requires petrochemically derived routes involving wasteful power consumption and high pollution emissions. With the development of various strategies based on metabolic engineering, a series of obstacles are expected to be overcome. This review provides an extensive overview of the progress in the microbial production of 1,2-propanediol, particularly the different micro-organisms used for 1,2-propanediol biosynthesis and microbial production pathways. In addition, outstanding challenges associated with microbial biosynthesis and feasible metabolic engineering strategies, as well as perspectives on the future microbial production of 1,2-propanediol, are discussed.
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Affiliation(s)
- Yuan-Ming Tao
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
| | - Chong-Yang Bu
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
| | - Li-Hua Zou
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
| | - Yue-Li Hu
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
| | - Zhao-Juan Zheng
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China
| | - Jia Ouyang
- Jiangsu Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing, 210037, People's Republic of China.
- College of Chemical Engineering, Nanjing Forestry University, Nanjing, 210037, People's Republic of China.
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Eigenfeld M, Kerpes R, Becker T. Understanding the Impact of Industrial Stress Conditions on Replicative Aging in Saccharomyces cerevisiae. FRONTIERS IN FUNGAL BIOLOGY 2021; 2:665490. [PMID: 37744109 PMCID: PMC10512339 DOI: 10.3389/ffunb.2021.665490] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Accepted: 03/30/2021] [Indexed: 09/26/2023]
Abstract
In yeast, aging is widely understood as the decline of physiological function and the decreasing ability to adapt to environmental changes. Saccharomyces cerevisiae has become an important model organism for the investigation of these processes. Yeast is used in industrial processes (beer and wine production), and several stress conditions can influence its intracellular aging processes. The aim of this review is to summarize the current knowledge on applied stress conditions, such as osmotic pressure, primary metabolites (e.g., ethanol), low pH, oxidative stress, heat on aging indicators, age-related physiological changes, and yeast longevity. There is clear evidence that yeast cells are exposed to many stressors influencing viability and vitality, leading to an age-related shift in age distribution. Currently, there is a lack of rapid, non-invasive methods allowing the investigation of aspects of yeast aging in real time on a single-cell basis using the high-throughput approach. Methods such as micromanipulation, centrifugal elutriator, or biotinylation do not provide real-time information on age distributions in industrial processes. In contrast, innovative approaches, such as non-invasive fluorescence coupled flow cytometry intended for high-throughput measurements, could be promising for determining the replicative age of yeast cells in fermentation and its impact on industrial stress conditions.
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Affiliation(s)
| | - Roland Kerpes
- Research Group Beverage and Cereal Biotechnology, Institute of Brewing and Beverage Technology, Technical University of Munich, Freising, Germany
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Ünsaldı E, Kurt-Kızıldoğan A, Özcan S, Becher D, Voigt B, Aktaş C, Özcengiz G. Proteomic analysis of a hom-disrupted, cephamycin C overproducing Streptomyces clavuligerus. Protein Pept Lett 2021; 28:205-220. [PMID: 32707026 DOI: 10.2174/0929866527666200723163655] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Revised: 06/18/2020] [Accepted: 06/20/2020] [Indexed: 11/22/2022]
Abstract
BACKGROUND Streptomyces clavuligerus is prolific producer of cephamycin C, a medically important antibiotic. In our former study, cephamycin C titer was 2-fold improved by disrupting homoserine dehydrogenase (hom) gene of aspartate pahway in Streptomyces clavuligerus NRRL 3585. OBJECTIVE In this article, we aimed to provide a comprehensive understanding at the proteome level on potential complex metabolic changes as a consequence of hom disruption in Streptomyces clavuligerus AK39. METHODS A comparative proteomics study was carried out between the wild type and its hom disrupted AK39 strain by 2 Dimensional Electrophoresis-Matrix Assisted Laser Desorption and Ionization Time-Of-Flight Mass Spectrometry (2DE MALDI-TOF/MS) and Nanoscale Liquid Chromatography- Tandem Mass Spectrometry (nanoLC-MS/MS) analyses. Clusters of Orthologous Groups (COG) database was used to determine the functional categories of the proteins. The theoretical pI and Mw values of the proteins were calculated using Expasy pI/Mw tool. RESULTS "Hypothetical/Unknown" and "Secondary Metabolism" were the most prominent categories of the differentially expressed proteins. Upto 8.7-fold increased level of the positive regulator CcaR was a key finding since CcaR was shown to bind to cefF promoter thereby direcly controlling its expression. Consistently, CeaS2, the first enzyme of CA biosynthetic pathway, was 3.3- fold elevated. There were also many underrepresented proteins associated with the biosynthesis of several Non-Ribosomal Peptide Synthases (NRPSs), clavams, hybrid NRPS/Polyketide synthases (PKSs) and tunicamycin. The most conspicuously underrepresented protein of amino acid metabolism was 4-Hydroxyphenylpyruvate dioxygenase (HppD) acting in tyrosine catabolism. The levels of a Two Component System (TCS) response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain as well as DNA-binding protein HU were elevated while a TetR-family transcriptional regulator was underexpressed. CONCLUSION The results obtained herein will aid in finding out new targets for further improvement of cephamycin C production in Streptomyces clavuligerus.
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Affiliation(s)
- Eser Ünsaldı
- Department of Biological Sciences, Middle East Technical University, Ankara 06800, Turkey
| | | | - Servet Özcan
- Department of Biology, Erciyes University, Kayseri 38280, Turkey
| | - Dörte Becher
- Institute of Microbiology, Ernst- Moritz-Arndt-University of Greifswald, Greifswald D-17487, Germany
| | - Birgit Voigt
- Institute of Microbiology, Ernst- Moritz-Arndt-University of Greifswald, Greifswald D-17487, Germany
| | - Caner Aktaş
- Department of Biological Sciences, Middle East Technical University, Ankara 06800, Turkey
| | - Gülay Özcengiz
- Department of Biological Sciences, Middle East Technical University, Ankara 06800, Turkey
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11
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Sulheim S, Fossheim FA, Wentzel A, Almaas E. Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters. BMC Bioinformatics 2021; 22:81. [PMID: 33622234 PMCID: PMC7901079 DOI: 10.1186/s12859-021-03985-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2020] [Accepted: 01/18/2021] [Indexed: 12/17/2022] Open
Abstract
Background A wide range of bioactive compounds is produced by enzymes and enzymatic complexes encoded in biosynthetic gene clusters (BGCs). These BGCs can be identified and functionally annotated based on their DNA sequence. Candidates for further research and development may be prioritized based on properties such as their functional annotation, (dis)similarity to known BGCs, and bioactivity assays. Production of the target compound in the native strain is often not achievable, rendering heterologous expression in an optimized host strain as a promising alternative. Genome-scale metabolic models are frequently used to guide strain development, but large-scale incorporation and testing of heterologous production of complex natural products in this framework is hampered by the amount of manual work required to translate annotated BGCs to metabolic pathways. To this end, we have developed a pipeline for an automated reconstruction of BGC associated metabolic pathways responsible for the synthesis of non-ribosomal peptides and polyketides, two of the dominant classes of bioactive compounds. Results The developed pipeline correctly predicts 72.8% of the metabolic reactions in a detailed evaluation of 8 different BGCs comprising 228 functional domains. By introducing the reconstructed pathways into a genome-scale metabolic model we demonstrate that this level of accuracy is sufficient to make reliable in silico predictions with respect to production rate and gene knockout targets. Furthermore, we apply the pipeline to a large BGC database and reconstruct 943 metabolic pathways. We identify 17 enzymatic reactions using high-throughput assessment of potential knockout targets for increasing the production of any of the associated compounds. However, the targets only provide a relative increase of up to 6% compared to wild-type production rates. Conclusion With this pipeline we pave the way for an extended use of genome-scale metabolic models in strain design of heterologous expression hosts. In this context, we identified generic knockout targets for the increased production of heterologous compounds. However, as the predicted increase is minor for any of the single-reaction knockout targets, these results indicate that more sophisticated strain-engineering strategies are necessary for the development of efficient BGC expression hosts.
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Affiliation(s)
- Snorre Sulheim
- Department of Biotechnology and Food Science, NTNU - Norwegian University of Science and Technology, Sem Sælands vei 8, 7034, Trondheim, Norway. .,Department of Biotechnology and Nanomedicine, SINTEF Industry, Richard Birkelands vei 3, 7034, Trondheim, Norway.
| | - Fredrik A Fossheim
- Department of Biotechnology and Food Science, NTNU - Norwegian University of Science and Technology, Sem Sælands vei 8, 7034, Trondheim, Norway
| | - Alexander Wentzel
- Department of Biotechnology and Nanomedicine, SINTEF Industry, Richard Birkelands vei 3, 7034, Trondheim, Norway
| | - Eivind Almaas
- Department of Biotechnology and Food Science, NTNU - Norwegian University of Science and Technology, Sem Sælands vei 8, 7034, Trondheim, Norway.,K.G. Jebsen Center for Genetic Epidemiology, NTNU - Norwegian University of Science and Technology, Håkon Jarls gate 11, 7030, Trondheim, Norway
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Acedos MG, de la Torre I, Santos VE, García-Ochoa F, García JL, Galán B. Modulating redox metabolism to improve isobutanol production in Shimwellia blattae. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:8. [PMID: 33407735 PMCID: PMC7789792 DOI: 10.1186/s13068-020-01862-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2020] [Accepted: 12/17/2020] [Indexed: 05/04/2023]
Abstract
BACKGROUND Isobutanol is a candidate to replace gasoline from fossil resources. This higher alcohol can be produced from sugars using genetically modified microorganisms. Shimwellia blattae (p424IbPSO) is a robust strain resistant to high concentration of isobutanol that can achieve a high production rate of this alcohol. Nevertheless, this strain, like most strains developed for isobutanol production, has some limitations in its metabolic pathway. Isobutanol production under anaerobic conditions leads to a depletion of NADPH, which is necessary for two enzymes in the metabolic pathway. In this work, two independent approaches have been studied to mitigate the co-substrates imbalance: (i) using a NADH-dependent alcohol dehydrogenase to reduce the NADPH dependence of the pathway and (ii) using a transhydrogenase to increase NADPH level. RESULTS The addition of the NADH-dependent alcohol dehydrogenase from Lactococcus lactis (AdhA) to S. blattae (p424IbPSO) resulted in a 19.3% higher isobutanol production. The recombinant strain S. blattae (p424IbPSO, pIZpntAB) harboring the PntAB transhydrogenase produced 39.0% more isobutanol than the original strain, reaching 5.98 g L-1 of isobutanol. In both strains, we observed a significant decrease in the yields of by-products such as lactic acid or ethanol. CONCLUSIONS The isobutanol biosynthesis pathway in S. blattae (p424IbPSO) uses the endogenous NADPH-dependent alcohol dehydrogenase YqhD to complete the pathway. The addition of NADH-dependent AdhA leads to a reduction in the consumption of NADPH that is a bottleneck of the pathway. The higher consumption of NADH by AdhA reduces the availability of NADH required for the transformation of pyruvate into lactic acid and ethanol. On the other hand, the expression of PntAB from E. coli increases the availability of NADPH for IlvC and YqhD and at the same time reduces the availability of NADH and thus, the production of lactic acid and ethanol. In this work it is shown how the expression of AdhA and PntAB enzymes in Shimwellia blattae increases yield from 11.9% to 14.4% and 16.4%, respectively.
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Affiliation(s)
- Miguel G Acedos
- Chemical and Materials Engineering Department, Chemical Sciences School, Universidad Complutense de Madrid, 28040, Madrid, Spain
| | - Isabel de la Torre
- Chemical and Materials Engineering Department, Chemical Sciences School, Universidad Complutense de Madrid, 28040, Madrid, Spain
| | - Victoria E Santos
- Chemical and Materials Engineering Department, Chemical Sciences School, Universidad Complutense de Madrid, 28040, Madrid, Spain
| | - Félix García-Ochoa
- Chemical and Materials Engineering Department, Chemical Sciences School, Universidad Complutense de Madrid, 28040, Madrid, Spain
| | - José L García
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas, CSIC, 28040, Madrid, Spain
| | - Beatriz Galán
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas, CSIC, 28040, Madrid, Spain.
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13
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Li Y, Yang S, Jin D, Jia X. Optimization of medium‐chain‐length polyhydroxyalkanoate production by
Pseudomonas putida
KT2440 from co‐metabolism of glycerol and octanoate. CAN J CHEM ENG 2020. [DOI: 10.1002/cjce.23894] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Ying Li
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin China
- Frontier Science Centre for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE) School of Chemical Engineering and Technology, Tianjin University Tianjin China
| | - Songyuan Yang
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin China
- Frontier Science Centre for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE) School of Chemical Engineering and Technology, Tianjin University Tianjin China
| | - Dayao Jin
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin China
- Frontier Science Centre for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE) School of Chemical Engineering and Technology, Tianjin University Tianjin China
| | - Xiaoqiang Jia
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin China
- Frontier Science Centre for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE) School of Chemical Engineering and Technology, Tianjin University Tianjin China
- Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin) Tianjin China
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14
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Xiao Y, Guo J, Zhu H, Muhammad A, Deng H, Hu Z, Wu Q. Inhibition of glucose assimilation in Auxenochlorella protothecoides by light. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:146. [PMID: 32831906 PMCID: PMC7437033 DOI: 10.1186/s13068-020-01787-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2020] [Accepted: 08/12/2020] [Indexed: 05/06/2023]
Abstract
BACKGROUND The yield of microalgae biomass is the key to affect the accumulation of fatty acids. A few microalgae can assimilate organic carbon to improve biomass yield. In mixotrophic cultivation, microalgae can use organic carbon source and light energy simultaneously. The preference of the main energy source by microalgae determines the biomass yield. Auxenochlorella protothecoides is an oleaginous mixotrophic microalga that can efficiently assimilate glucose and accumulate a large amount of biomass and fatty acids. The current study focused on the effect of light on the growth and glucose assimilation of A. protothecoides. RESULTS In this study, we found that the uptake and metabolism of glucose in A. protothecoides could be inhibited by light, resulting in a reduction of biomass growth and lipid accumulation. We employed comparative proteomics to study the influence of light on the regulation of glucose assimilation in A. protothecoides. Proteomics revealed that proteins involving in gene translation and photosynthesis system were up-regulated in the light, such as ribulose-phosphate 3-epimerase and phosphoribulokinase. Calvin cycle-related proteins were also up-regulated, suggesting that light may inhibit glucose metabolism by enhancing the production of glyceraldehyde-3-phosphate (G3P) in the Calvin cycle. In addition, the redox homeostasis-related proteins such as thioredoxin reductase were up-regulated in the light, indicating that light may regulate glucose uptake by changing the redox balance. Moreover, the increase of NADH levels and redox potential of the medium under illumination might inhibit the activity of the glucose transport system and subsequently reduce glucose uptake. CONCLUSIONS A theoretical model of how glucose assimilation in A. protothecoides is negatively influenced by light was proposed, which will facilitate further studies on the complex mechanisms underlying the transition from autotrophy to heterotrophy for improving biomass accumulation.
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Affiliation(s)
- Yibo Xiao
- Guangdong Technology Research Center for Marine Algal Bioengineering, Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060 People’s Republic of China
- Key Laboratory of Optoelectronic Devices and Systems of the Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060 People’s Republic of China
| | - Jianying Guo
- Key Laboratory of Industrial Biocatalysis of the Ministry of Education and Center for Synthetic and Systems Biology, School of Life Sciences, Tsinghua University, Beijing, 100084 People’s Republic of China
| | - Huachang Zhu
- Guangdong Technology Research Center for Marine Algal Bioengineering, Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060 People’s Republic of China
| | - Anwar Muhammad
- Guangdong Technology Research Center for Marine Algal Bioengineering, Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060 People’s Republic of China
- Key Laboratory of Optoelectronic Devices and Systems of the Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060 People’s Republic of China
| | - Haiteng Deng
- Key Laboratory of Industrial Biocatalysis of the Ministry of Education and Center for Synthetic and Systems Biology, School of Life Sciences, Tsinghua University, Beijing, 100084 People’s Republic of China
| | - Zhangli Hu
- Guangdong Technology Research Center for Marine Algal Bioengineering, Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060 People’s Republic of China
- Shenzhen Key Laboratory of Marine Bioresource and Eco-Environmental Science, Longhua Innovation Institute for Biotechnology, Shenzhen University, Shenzhen, 518060 People’s Republic of China
| | - Qingyu Wu
- Guangdong Technology Research Center for Marine Algal Bioengineering, Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060 People’s Republic of China
- Key Laboratory of Industrial Biocatalysis of the Ministry of Education and Center for Synthetic and Systems Biology, School of Life Sciences, Tsinghua University, Beijing, 100084 People’s Republic of China
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15
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Gautam A, Sahai V, Mishra S. Development of a dual specific growth rate-based fed-batch process for production of recombinant human granulocyte colony-stimulating factor in Pichia pastoris. Bioprocess Biosyst Eng 2020; 44:103-112. [PMID: 32808048 DOI: 10.1007/s00449-020-02427-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Accepted: 08/07/2020] [Indexed: 10/23/2022]
Abstract
A number of limitations exist for production of human granulocyte colony-stimulating factor (G-CSF) in Pichia pastoris. In this study, two different specific growth rates (0.015 h-1, 0.01 h-1) were used sequentially in the mixed substrate feeding period during methanol induction phase to enhance the G-CSF titer in the culture broth. Necessary parameters required for implementing the feeding strategy, such as specific product yield on biomass (YP/X) and maintenance coefficient (m) on glycerol, methanol, and sorbitol were estimated using continuous culture technique. Using this strategy, for the same volumetric productivity, about 20% increase in protein titer was achieved over that obtained from the run carried out at a single pre-set value of 0.015 h-1 alone. Thus, implementation of higher specific growth rate (0.015 h-1) set during initial stages of the methanol induction phase followed by a lower specific growth rate (0.01 h-1) helped in achieving increased protein titers.
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Affiliation(s)
- Ashwani Gautam
- Center for Rural Development and Technology, Indian Institute of Technology Delhi, Hauz-Khas, New Delhi, 110016, India
| | - Vikram Sahai
- Care Pro Biosciences Pvt. Ltd., I - 059, Site 5, Kasna Ind Area, Gautam Buddh Nagar, Greater Noida, UP, 201308, India
| | - Saroj Mishra
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, Hauz-Khas, New Delhi, 110016, India.
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van Wyk N, Grossmann M, Wendland J, von Wallbrunn C, Pretorius IS. The Whiff of Wine Yeast Innovation: Strategies for Enhancing Aroma Production by Yeast during Wine Fermentation. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:13496-13505. [PMID: 31724402 DOI: 10.1021/acs.jafc.9b06191] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Despite being used chiefly for fermenting the sugars of grape must to alcohol, wine yeasts (most prominently Saccharomyces cerevisiae) play a pivotal role in the final aroma profiles of wines. Strain selection, intentionally incorporating non-Saccharomyces yeast in so-called mixed-culture fermentations, and genetic modifications of S. cerevisiae have all been shown to greatly enhance the chemical composition and sensory profile of wines. In this Review, we highlight how wine researchers employ fermenting yeasts to expand on the aroma profiles of the wines they study.
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Affiliation(s)
- Niël van Wyk
- Institut für Mikrobiologie und Biochemie , Hochschule Geisenheim University , 65366 Geisenheim , Germany
| | - Manfred Grossmann
- Institut für Mikrobiologie und Biochemie , Hochschule Geisenheim University , 65366 Geisenheim , Germany
| | - Jürgen Wendland
- Institut für Mikrobiologie und Biochemie , Hochschule Geisenheim University , 65366 Geisenheim , Germany
| | - Christian von Wallbrunn
- Institut für Mikrobiologie und Biochemie , Hochschule Geisenheim University , 65366 Geisenheim , Germany
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Ni H, Xiong Z, Mohsin A, Guo M, Petkovic H, Chu J, Zhuang Y. Study on a two-component signal transduction system RimA1A2 that negatively regulates oxytetracycline biosynthesis in Streptomyces rimosus M4018. BIORESOUR BIOPROCESS 2019. [DOI: 10.1186/s40643-019-0238-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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18
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Porras-Agüera JA, Moreno-García J, Mauricio JC, Moreno J, García-Martínez T. First Proteomic Approach to Identify Cell Death Biomarkers in Wine Yeasts during Sparkling Wine Production. Microorganisms 2019; 7:microorganisms7110542. [PMID: 31717411 PMCID: PMC6920952 DOI: 10.3390/microorganisms7110542] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Revised: 10/22/2019] [Accepted: 11/07/2019] [Indexed: 12/22/2022] Open
Abstract
Apoptosis and later autolysis are biological processes which take place in Saccharomyces cerevisiae during industrial fermentation processes, which involve costly and time-consuming aging periods. Therefore, the identification of potential cell death biomarkers can contribute to the creation of a long-term strategy in order to improve and accelerate the winemaking process. Here, we performed a proteomic analysis based on the detection of possible apoptosis and autolysis protein biomarkers in two industrial yeast strains commonly used in post-fermentative processes (sparkling wine secondary fermentation and biological aging) under typical sparkling wine elaboration conditions. Pressure had a negatively effect on viability for flor yeast, whereas the sparkling wine strain seems to be more adapted to these conditions. Flor yeast strain experienced an increase in content of apoptosis-related proteins, glucanases and vacuolar proteases at the first month of aging. Significant correlations between viability and apoptosis proteins were established in both yeast strains. Multivariate analysis based on the proteome of each process allowed to distinguish among samples and strains. The proteomic profile obtained in this study could provide useful information on the selection of wine strains and yeast behavior during sparkling wine elaboration. Additionally, the use of flor yeasts for sparkling wine improvement and elaboration is proposed.
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Affiliation(s)
- Juan Antonio Porras-Agüera
- Department of Microbiology, Agrifood Campus of International Excellence ceiA3, University of Cordoba, 14014 Cordoba, Spain; (J.A.P.-A.); (J.M.-G.); (T.G.-M.)
| | - Jaime Moreno-García
- Department of Microbiology, Agrifood Campus of International Excellence ceiA3, University of Cordoba, 14014 Cordoba, Spain; (J.A.P.-A.); (J.M.-G.); (T.G.-M.)
| | - Juan Carlos Mauricio
- Department of Microbiology, Agrifood Campus of International Excellence ceiA3, University of Cordoba, 14014 Cordoba, Spain; (J.A.P.-A.); (J.M.-G.); (T.G.-M.)
- Correspondence: ; Tel.: +34-957-218640; Fax: +34-957-218650
| | - Juan Moreno
- Department of Agricultural Chemistry, Agrifood Campus of International Excellence ceiA3, University of Cordoba, 14014 Cordoba, Spain;
| | - Teresa García-Martínez
- Department of Microbiology, Agrifood Campus of International Excellence ceiA3, University of Cordoba, 14014 Cordoba, Spain; (J.A.P.-A.); (J.M.-G.); (T.G.-M.)
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19
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Anion transport as a target of adaption to perchlorate in sulfate-reducing communities. ISME JOURNAL 2019; 14:450-462. [PMID: 31659234 DOI: 10.1038/s41396-019-0540-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2019] [Revised: 09/04/2019] [Accepted: 09/12/2019] [Indexed: 11/09/2022]
Abstract
Inhibitors can be used to control the functionality of microbial communities by targeting specific metabolisms. The targeted inhibition of dissimilatory sulfate reduction limits the generation of toxic and corrosive hydrogen sulfide across several industrial systems. Sulfate-reducing microorganisms (SRM) are specifically inhibited by sulfate analogs, such as perchlorate. Previously, we showed pure culture SRM adaptation to perchlorate stress through mutation of the sulfate adenylyltransferase, a central enzyme in the sulfate reduction pathway. Here, we explored adaptation to perchlorate across unconstrained SRM on a community scale. We followed natural and bio-augmented sulfidogenic communities through serial transfers in increasing concentrations of perchlorate. Our results demonstrated that perchlorate stress altered community structure by initially selecting for innately more resistant strains. Isolation, whole-genome sequencing, and molecular biology techniques allowed us to define subsequent genetic mechanisms of adaptation that arose across the dominant adapting SRM. Changes in the regulation of divalent anion:sodium symporter family transporters led to increased intracellular sulfate to perchlorate ratios, allowing SRM to escape the effects of competitive inhibition. Thus, in contrast to pure-culture results, SRM in communities cope with perchlorate stress via changes in anion transport and its regulation. This highlights the value of probing evolutionary questions in an ecological framework, bridging the gap between ecology, evolution, genomics, and physiology.
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20
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Rod-shaped gold nanoparticles biosynthesized using Pb 2+-induced fungus Aspergillus sp. WL-Au. Bioprocess Biosyst Eng 2019; 43:123-131. [PMID: 31628532 DOI: 10.1007/s00449-019-02210-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2019] [Accepted: 09/07/2019] [Indexed: 10/25/2022]
Abstract
Gold nanoparticles (AuNPs) attracted much attention owing to their distinguished characteristics and applications. In this study, rod-shaped AuNPs were biosynthesized using Pb2+-induced fungus Aspergillus sp. The synthesized AuNPs showed a UV-vis absorption peak at 534 nm. Scanning electron microscopy and transmission electron microscopy analyses showed that rod-shaped AuNPs were biosynthesized and attached on the mycelia surfaces. Energy-dispersive spectrometer analysis identified gold as the unique metallic composition of synthesized nanoparticles. X-ray powder diffraction analysis showed that the AuNPs were face-centered cubic crystalline structure. Furthermore, Fourier transform infrared spectroscopy analysis detected functional groups, including C = O, C-O-C, amine I and II which played active roles in AuNPs formation. In addition, the main shape of synthesized AuNPs changed from sphere to rod-shape with the increase of biomass and Pb2+ concentration. This study reports quite uniform rod-shaped AuNPs biosynthesized using Pb2+-induced fungus Aspergillus sp. WL-Au for the first time. This will provide a valid alternative for oriented biosynthesis of AuNPs.
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21
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Quesada-Ganuza A, Antelo-Varela M, Mouritzen JC, Bartel J, Becher D, Gjermansen M, Hallin PF, Appel KF, Kilstrup M, Rasmussen MD, Nielsen AK. Identification and optimization of PrsA in Bacillus subtilis for improved yield of amylase. Microb Cell Fact 2019; 18:158. [PMID: 31530286 PMCID: PMC6749698 DOI: 10.1186/s12934-019-1203-0] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2019] [Accepted: 09/03/2019] [Indexed: 12/19/2022] Open
Abstract
Background PrsA is an extracytoplasmic folding catalyst essential in Bacillus subtilis. Overexpression of the native PrsA from B. subtilis has repeatedly lead to increased amylase yields. Nevertheless, little is known about how the overexpression of heterologous PrsAs can affect amylase secretion. Results In this study, the final yield of five extracellular alpha-amylases was increased by heterologous PrsA co-expression up to 2.5 fold. The effect of the overexpression of heterologous PrsAs on alpha-amylase secretion is specific to the co-expressed alpha-amylase. Co-expression of a heterologous PrsA can significantly reduce the secretion stress response. Engineering of the B. licheniformis PrsA lead to a further increase in amylase secretion and reduced secretion stress. Conclusions In this work we show how heterologous PrsA overexpression can give a better result on heterologous amylase secretion than the native PrsA, and that PrsA homologs show a variety of specificity towards different alpha-amylases. We also demonstrate that on top of increasing amylase yield, a good PrsA–amylase pairing can lower the secretion stress response of B. subtilis. Finally, we present a new recombinant PrsA variant with increased performance in both supporting amylase secretion and lowering secretion stress.
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Affiliation(s)
- Ane Quesada-Ganuza
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Minia Antelo-Varela
- Institute for Microbiology, Department of Microbial Proteomics, Ernst-Moritz-Arndt-University Greifswald, F.- Hausdorff-Str. 8, 17489, Greifswald, Germany
| | - Jeppe C Mouritzen
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Jürgen Bartel
- Institute for Microbiology, Department of Microbial Proteomics, Ernst-Moritz-Arndt-University Greifswald, F.- Hausdorff-Str. 8, 17489, Greifswald, Germany
| | - Dörte Becher
- Institute for Microbiology, Department of Microbial Proteomics, Ernst-Moritz-Arndt-University Greifswald, F.- Hausdorff-Str. 8, 17489, Greifswald, Germany
| | - Morten Gjermansen
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Peter F Hallin
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Karen F Appel
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Mogens Kilstrup
- Technical University of Denmark, Søltofts Plads, Building 221, Room 204, 2800, Lyngby, Denmark
| | - Michael D Rasmussen
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark
| | - Allan K Nielsen
- Research and Technology, Novozymes A/S, Krogshoejvej 36, 2880, Basgvaerd, Denmark.
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Hu B, Zhu M. Reconstitution of cellulosome: Research progress and its application in biorefinery. Biotechnol Appl Biochem 2019; 66:720-730. [DOI: 10.1002/bab.1804] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2018] [Accepted: 08/03/2019] [Indexed: 09/01/2023]
Affiliation(s)
- Bin‐Bin Hu
- Guangdong Provincial Engineering and Technology Research Center of Biopharmaceuticals School of Biology and Biological Engineering South China University of Technology, Guangzhou Higher Education Mega Center Panyu Guangzhou People's Republic of China
- Yunnan Academy of Tobacco Agricultural Sciences Kunming People's Republic of China
- State Key Laboratory of Pulp and Paper Engineering South China University of Technology Guangzhou People's Republic of China
| | - Ming‐Jun Zhu
- Guangdong Provincial Engineering and Technology Research Center of Biopharmaceuticals School of Biology and Biological Engineering South China University of Technology, Guangzhou Higher Education Mega Center Panyu Guangzhou People's Republic of China
- State Key Laboratory of Pulp and Paper Engineering South China University of Technology Guangzhou People's Republic of China
- College of Life and Geographic Sciences Kashi University Kashi People's Republic of China
- The Key Laboratory of Ecology and Biological Resources in Yarkand Oasis at Colleges & Universities under the Department of Education of Xinjiang Uygur Autonomous Region Kashi University Kashi People's Republic of China
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Karimov IF, Kondrashova KS, Kulikova NA, Manukhov IV. Effects of Antioxidant Molecules on Sensor and Reporter Luminescent Strains. APPL BIOCHEM MICRO+ 2019. [DOI: 10.1134/s000368381902008x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Yang S, Li S, Jia X. Production of medium chain length polyhydroxyalkanoate from acetate by engineered Pseudomonas putida KT2440. ACTA ACUST UNITED AC 2019; 46:793-800. [DOI: 10.1007/s10295-019-02159-5] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2018] [Accepted: 03/05/2019] [Indexed: 11/27/2022]
Abstract
Abstract
Pseudomonas putida was metabolically engineered to produce medium chain length polyhydroxyalkanoate (mcl-PHA) from acetate, a promising carbon source to achieve cost-effective microbial processes. As acetate is known to be harmful to cell growth, P. putida KT2440 was screened from three Pseudomonas strains (P. putida KT2440, P. putida NBRC14164, and P. aeruginosa PH1) as the host with the highest tolerance to 10 g/L of acetate in the medium. Subsequently, P. putida KT2440 was engineered by amplifying the acetate assimilation pathway, including overexpression of the acs (encoding acetyl-CoA synthetase) route and construction of the ackA-pta (encoding acetate kinase-phosphotransacetylase) pathway. The acs overexpressing P. putida KT2440 showed a remarkable increase of mcl-PHA titer (+ 92%), mcl-PHA yield (+ 50%), and cellular mcl-PHA content (+ 43%) compared with the wild-type P. putida KT2440, which indicated that acetate could be a potential substrate for biochemical production of mcl-PHA by engineered P. putida.
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Affiliation(s)
- Songyuan Yang
- 0000 0004 1761 2484 grid.33763.32 Department of Biological Engineering, School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- 0000 0004 1761 2484 grid.33763.32 Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology Tianjin University 300350 Tianjin People’s Republic of China
| | - Suhang Li
- 0000 0004 1761 2484 grid.33763.32 Department of Biological Engineering, School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- 0000 0004 1761 2484 grid.33763.32 Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology Tianjin University 300350 Tianjin People’s Republic of China
| | - Xiaoqiang Jia
- 0000 0004 1761 2484 grid.33763.32 Department of Biological Engineering, School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- 0000 0004 1761 2484 grid.33763.32 Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology Tianjin University 300350 Tianjin People’s Republic of China
- 0000 0004 1761 2484 grid.33763.32 Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
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Vall-Llaura N, Mir N, Garrido L, Vived C, Cabiscol E. Redox control of yeast Sir2 activity is involved in acetic acid resistance and longevity. Redox Biol 2019; 24:101229. [PMID: 31153040 PMCID: PMC6543126 DOI: 10.1016/j.redox.2019.101229] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Revised: 05/10/2019] [Accepted: 05/19/2019] [Indexed: 01/07/2023] Open
Abstract
Yeast Sir2 is an NAD-dependent histone deacetylase related to oxidative stress and aging. In a previous study, we showed that Sir2 is regulated by S-glutathionylation of key cysteine residues located at the catalytic domain. Mutation of these residues results in strains with increased resistance to disulfide stress. In the present study, these mutant cells were highly resistant to acetic acid and had an increased chronological life span. Mutant cells had increased acetyl-CoA synthetase activity, which converts acetic acid generated by yeast metabolism to acetyl.CoA. This could explain the acetic acid resistance and lower levels of this toxic acid in the extracellular media during aging. Increased acetyl-CoA levels would raise lipid droplets, a source of energy during aging, and fuel glyoxylate-dependent gluconeogenesis. The key enzyme of this pathway, phosphoenolpyruvate carboxykinase (Pck1), showed increased activity in these Sir2 mutant cells during aging. Sir2 activity decreased when cells shifted to the diauxic phase in the mutant strains, compared to the WT strain. Since Pck1 is inactivated through Sir2-dependent deacetylation, the decline in Sir2 activity explained the rise in Pck1 activity. As a consequence, storage of sugars such as trehalose would increase. We conclude that extended longevity observed in the mutants was a combination of increased lipid droplets and trehalose, and decreased acetic acid in the extracellular media. These results offer a deeper understanding of the redox regulation of Sir2 in acetic acid resistance, which is relevant in some food and industrial biotechnology and also in the metabolism associated to calorie restriction, aging and pathologies such as diabetes.
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Affiliation(s)
- Núria Vall-Llaura
- Department de Ciències Mèdiques Bàsiques, IRBLleida, Universitat de Lleida, Catalonia, Spain.
| | - Noèlia Mir
- Department de Ciències Mèdiques Bàsiques, IRBLleida, Universitat de Lleida, Catalonia, Spain.
| | - Lourdes Garrido
- Department de Ciències Mèdiques Bàsiques, IRBLleida, Universitat de Lleida, Catalonia, Spain.
| | - Celia Vived
- Department de Ciències Mèdiques Bàsiques, IRBLleida, Universitat de Lleida, Catalonia, Spain.
| | - Elisa Cabiscol
- Department de Ciències Mèdiques Bàsiques, IRBLleida, Universitat de Lleida, Catalonia, Spain.
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Carballo-Amador MA, McKenzie EA, Dickson AJ, Warwicker J. Surface patches on recombinant erythropoietin predict protein solubility: engineering proteins to minimise aggregation. BMC Biotechnol 2019; 19:26. [PMID: 31072369 PMCID: PMC6507049 DOI: 10.1186/s12896-019-0520-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2019] [Accepted: 04/30/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Protein solubility characteristics are important determinants of success for recombinant proteins in relation to expression, purification, storage and administration. Escherichia coli offers a cost-efficient expression system. An important limitation, whether for biophysical studies or industrial-scale production, is the formation of insoluble protein aggregates in the cytoplasm. Several strategies have been implemented to improve soluble expression, ranging from modification of culture conditions to inclusion of solubility-enhancing tags. RESULTS Surface patch analysis has been applied to predict amino acid changes that can alter the solubility of expressed recombinant human erythropoietin (rHuEPO) in E. coli, a factor that has importance for both yield and subsequent downstream processing of recombinant proteins. A set of rHuEPO proteins (rHuEPO E13K, F48D, R150D, and F48D/R150D) was designed (from the framework of wild-type protein, rHuEPO WT, via amino acid mutations) that varied in terms of positively-charged patches. A variant predicted to promote aggregation (rHuEPO E13K) decreased solubility significantly compared to rHuEPO WT. In contrast, variants predicted to diminish aggregation (rHuEPO F48D, R150D, and F48D/R150D) increased solubility up to 60% in relation to rHuEPO WT. CONCLUSIONS These findings are discussed in the wider context of biophysical calculations applied to the family of EPO orthologues, yielding a diverse range of calculated values. It is suggested that combining such calculations with naturally-occurring sequence variation, and 3D model generation, could lead to a valuable tool for protein solubility design.
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Affiliation(s)
- M. Alejandro Carballo-Amador
- Facultad de Ciencias, Universidad Autónoma de Baja California, Km. 103 Carretera Tijuana–Ensenada, Pedregal Playitas, 22860 Ensenada, Baja California Mexico
| | - Edward A. McKenzie
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN UK
| | - Alan J. Dickson
- Faculty of Science and Engineering, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN UK
| | - Jim Warwicker
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN UK
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Abstract
Yeasts are very important microorganisms for food production. The high fermentative capacity, mainly of the species of the genus Saccharomyces, is a key factor for their biotechnological use, particularly to produce alcoholic beverages. As viability and vitality are essential to ensure their correct performance in industry, this review addresses the main aspects related to the cellular aging of these fungi as their senescence impacts their proper functioning. Laboratory strains of S. cerevisiae have proven a very successful model for elucidating the molecular mechanisms that control life span. Those mechanisms are shared by all eukaryotic cells. S. cerevisiae has two models of aging, replicative and chronological. Replicative life span is measured by the number of daughter cells a mother can produce. This kind of aging is relevant when the yeast biomass is reused, as in the case of beer fermentations. Chronological life span is measured by the time cells are viable in the stationary phase, and this is relevant for batch fermentations when cells are most of the time in a non-dividing state, such as wine fermentations. The molecular causes and pathways regulating both types of aging are explained in this review.
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Huccetogullari D, Luo ZW, Lee SY. Metabolic engineering of microorganisms for production of aromatic compounds. Microb Cell Fact 2019; 18:41. [PMID: 30808357 PMCID: PMC6390333 DOI: 10.1186/s12934-019-1090-4] [Citation(s) in RCA: 112] [Impact Index Per Article: 22.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 02/19/2019] [Indexed: 01/09/2023] Open
Abstract
Metabolic engineering has been enabling development of high performance microbial strains for the efficient production of natural and non-natural compounds from renewable non-food biomass. Even though microbial production of various chemicals has successfully been conducted and commercialized, there are still numerous chemicals and materials that await their efficient bio-based production. Aromatic chemicals, which are typically derived from benzene, toluene and xylene in petroleum industry, have been used in large amounts in various industries. Over the last three decades, many metabolically engineered microorganisms have been developed for the bio-based production of aromatic chemicals, many of which are derived from aromatic amino acid pathways. This review highlights the latest metabolic engineering strategies and tools applied to the biosynthesis of aromatic chemicals, many derived from shikimate and aromatic amino acids, including L-phenylalanine, L-tyrosine and L-tryptophan. It is expected that more and more engineered microorganisms capable of efficiently producing aromatic chemicals will be developed toward their industrial-scale production from renewable biomass.
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Affiliation(s)
- Damla Huccetogullari
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 Plus Program) and Institute for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon, 34141, Republic of Korea
| | - Zi Wei Luo
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 Plus Program) and Institute for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon, 34141, Republic of Korea
| | - Sang Yup Lee
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 Plus Program) and Institute for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea.
- Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon, 34141, Republic of Korea.
- BioProcess Engineering Research Center and Bioinformatics Research Center, KAIST, Daejeon, 34141, Republic of Korea.
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Gálvez-López D, Chávez-Meléndez B, Vázquez-Ovando A, Rosas-Quijano R. The metabolism and genetic regulation of lipids in the oleaginous yeast Yarrowia lipolytica. Braz J Microbiol 2019; 50:23-31. [PMID: 30637631 PMCID: PMC6863248 DOI: 10.1007/s42770-018-0004-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2017] [Accepted: 09/02/2018] [Indexed: 01/08/2023] Open
Abstract
The biotechnological potential of Yarrowia lipolytica, as a single cell oil-producing microorganism, is presented in this review. Although initially this yeast species was considered as a lipid-degrading, recently, it was reclassified as a lipid-producing microorganism, since it has been reported to be capable of accumulating diverse desirable fatty acids after metabolic pathway engineering. In the first part of the present document, a general revision of the oil metabolic pathways and the capacity of oil production in Y. lipolytica is presented. The single cell oil produced by these metabolic engineering strategies has been designed by optimization, introduction, or suppression of new pathways to increase yield on lipid production. Later on, the genetic regulation systems and the lipid composition generated by this yeast for industrial purposes are discussed. These lipids could be safely used in the chemical food and biofuel industries, due to their high proportion of oleic acid. This document emphasizes in the overviewing at Y. lipolytica as an ideal oil cell factory, and as an excellent model to produce single cell oil.
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Affiliation(s)
- Didiana Gálvez-López
- Instituto de Biociencias, Universidad Autónoma de Chiapas, Tapachula, Chiapas, México
| | - Bianca Chávez-Meléndez
- Unidad Académica Multidisciplinaria, Universidad Autónoma de Tamaulipas, Reynosa, México
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Ge F, Qiao Q, Zhu L, Li W, Song P, Zhu L, Tao Y, Gui L. Preparation of a tumor-targeted drug-loading material, amphiphilic peptide P10, and analysis of its anti-tumor activity. JOURNAL OF MATERIALS SCIENCE. MATERIALS IN MEDICINE 2018; 30:3. [PMID: 30569205 DOI: 10.1007/s10856-018-6204-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Accepted: 12/07/2018] [Indexed: 06/09/2023]
Abstract
A new tumor-targeted drug-loading material, the amphiphilic peptide DGRGGGAAAA (P10) was designed and synthesized, and its self-assembly behavior, drug-loading effects and in vitro characteristics were studied. P10 was synthesized by solid-state synthesis and doxorubicin (DOX) was loaded via dialysis. P10 and DOX were mixed with a mass ratio of 6:1 to form regular round spheres. The interconnection between groups was analyzed spectroscopically and the sphere morphology was studied with SEM and a zeta particle size analyzer. Fluorescence spectroscopy was used to analyze the ability of P10 to form micelles and the efficiency of micelle entrapment, and the drug-loading ratio and drug release characteristics were detected. Finally, the in vitro antitumor activity of P10 was studied with HeLa cells as a model. The results showed that P10's critical micelle concentration (CMC) value and its average grain diameter were approximately 0.045 mg/L and 500 nm. The micelle entrapment ratio and drug-loading ratio were 23.011 ± 2.88 and 10.125 ± 2.62%, respectively, and the in vitro drug-releasing properties of P10 were described by the Zero-order model and the Ritger-Peppas model. Compared with DOX, P10-DOX had a higher tumor cell inhibition ratio and a dose-effect relationship with concentration. When P10-DOX's concentration was 20 μg/mL, the inhibition ratio was 44.17%. The new amphiphilic peptide designed and prepared in this study could be a tumor-targeted drug-loading material with better prospects for application. In this paper, a new tumor-targeted drug-loading material, the amphiphilic peptide DGRGGGAAAA (P10) is designed and synthesized, and its self-assembly behavior, drug-loading effects and in vitro characteristics are studied, providing a theoretical basis and design ideas for further studies and the development of targeted drug-loading materials on tumor cells.
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Affiliation(s)
- Fei Ge
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Qianqian Qiao
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Longbao Zhu
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Wanzhen Li
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Ping Song
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Longlong Zhu
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China
| | - Yugui Tao
- Biological and Chemical Engineering College, Anhui Polytechnic University, Beijing Middle Road, Anhui, 241000, Wuhu, China.
| | - Lin Gui
- Department of Microbiology and immunology, Wannan Medical College, No. 22 Wenchang West Road, 241002, Wuhu, China.
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Song HY, Choi D, Han DM, Kim DH, Kim JM. A Novel Rapid Fungal Promoter Analysis System Using the Phosphopantetheinyl Transferase Gene, npgA, in Aspergillus nidulans. MYCOBIOLOGY 2018; 46:429-439. [PMID: 30637152 PMCID: PMC6319467 DOI: 10.1080/12298093.2018.1548806] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Revised: 11/04/2018] [Accepted: 11/05/2018] [Indexed: 06/09/2023]
Abstract
To develop a convenient promoter analysis system for fungi, a null-pigment mutant (NPG) of Aspergillus nidulans was used with the 4'-phosphopantetheinyl transferase (PPTase) gene, npgA, which restores the normal pigmentation in A. nidulans, as a new reporter gene. The functional organization of serially deleted promoter regions of the A. nidulans trpC gene and the Cryphonectria parasitica crp gene in filamentous fungi was representatively investigated to establish a novel fungal promoter assay system that depends on color complementation of the NPG mutant with the PPTase npgA gene. Several promoter regions of the trpC and crp genes were fused to the npgA gene containing the 1,034-bp open reading frame and the 966-bp 3' downstream region from the TAA, and the constructed fusions were introduced into the NPG mutant in A. nidulans to evaluate color recovery due to the transcriptional activity of the sequence elements. Serial deletion of the trpC and crp promoter regions in this PPTase reporter assay system reaffirmed results in previous reports by using the fungal transformation step without a laborious verification process. This approach suggests a more rapid and convenient system than conventional analyses for fungal gene expression studies.
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Affiliation(s)
- Ha-Yeon Song
- Department of Bio-Environmental Chemistry, Institute of Life Science and Natural Resources, Wonkwang University, Iksan, Chonbuk, Korea
| | - Dahye Choi
- Department of Bio-Environmental Chemistry, Institute of Life Science and Natural Resources, Wonkwang University, Iksan, Chonbuk, Korea
| | - Dong-Min Han
- Division of Biological Sciences, Wonkwang University, Iksan, Chonbuk, Korea
| | - Dae-Hyuk Kim
- Department of Molecular Biology and Department of Bioactive Material Science, Institute for Molecular Biology and Genetics, Chonbuk National University, Jeonju, Chonbuk, Korea
| | - Jung-Mi Kim
- Department of Bio-Environmental Chemistry, Institute of Life Science and Natural Resources, Wonkwang University, Iksan, Chonbuk, Korea
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Martínez JA, Rodriguez A, Moreno F, Flores N, Lara AR, Ramírez OT, Gosset G, Bolivar F. Metabolic modeling and response surface analysis of an Escherichia coli strain engineered for shikimic acid production. BMC SYSTEMS BIOLOGY 2018; 12:102. [PMID: 30419897 PMCID: PMC6233605 DOI: 10.1186/s12918-018-0632-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/25/2018] [Accepted: 10/12/2018] [Indexed: 11/24/2022]
Abstract
Background Classic metabolic engineering strategies often induce significant flux imbalances to microbial metabolism, causing undesirable outcomes such as suboptimal conversion of substrates to products. Several mathematical frameworks have been developed to understand the physiological and metabolic state of production strains and to identify genetic modification targets for improved bioproduct formation. In this work, a modeling approach was applied to describe the physiological behavior and the metabolic fluxes of a shikimic acid overproducing Escherichia coli strain lacking the major glucose transport system, grown on complex media. Results The obtained flux distributions indicate the presence of high fluxes through the pentose phosphate and Entner-Doudoroff pathways, which could limit the availability of erythrose-4-phosphate for shikimic acid production even with high flux redirection through the pentose phosphate pathway. In addition, highly active glyoxylate shunt fluxes and a pyruvate/acetate cycle are indicators of overflow glycolytic metabolism in the tested conditions. The analysis of the combined physiological and flux response surfaces, enabled zone allocation for different physiological outputs within variant substrate conditions. This information was then used for an improved fed-batch process designed to preserve the metabolic conditions that were found to enhance shikimic acid productivity. This resulted in a 40% increase in the shikimic acid titer (60 g/L) and 70% increase in volumetric productivity (2.45 gSA/L*h), while preserving yields, compared to the batch process. Conclusions The combination of dynamic metabolic modeling and experimental parameter response surfaces was a successful approach to understand and predict the behavior of a shikimic acid producing strain under variable substrate concentrations. Response surfaces were useful for allocating different physiological behavior zones with different preferential product outcomes. Both model sets provided information that could be applied to enhance shikimic acid production on an engineered shikimic acid overproducing Escherichia coli strain. Electronic supplementary material The online version of this article (10.1186/s12918-018-0632-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Juan A Martínez
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Alberto Rodriguez
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Fabian Moreno
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Noemí Flores
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Alvaro R Lara
- Departamento de Ciencias Naturales, Universidad Autonoma Metropolitana (UAM), Vasco de Quiroga 4871, Colonia Santa Fe Cuajimalpa, Delegación Cuajimalpa de Morelos, México D.F., 05348, Mexico
| | - Octavio T Ramírez
- Departamento de Medicina Molecular y Bioprocesos, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Guillermo Gosset
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México
| | - Francisco Bolivar
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México (UNAM), Avenida Universidad 2001, Colonia Chamilpa, Cuernavaca, 62210, Morelos, México.
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Tomimoto K, Akao T, Fukuda H. Histone deacetylases in sake yeast affect fermentation characteristics. Biosci Biotechnol Biochem 2018; 83:1498-1505. [PMID: 30355069 DOI: 10.1080/09168451.2018.1536514] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
Yeast histone deacetylases (HDAC) affect the production of alcoholic beverages. In this study, we evaluated the sake fermentation characteristics when using HDAC gene-disrupted yeast strain Kyokai No. 701. Flavor components of the sake product were significantly changed. RPD3 or HDA1 disruption increased twofold the amount of isoamyl acetate, and isoamyl alcohol levels also increased in the rpd3Δ strain. To determine the contribution of Rpd3L and Rpd3S complexes to sake characteristics, a gene responsible for Rpd3L and/or Rpd3S formation was also disrupted. Disruption of DEP1 or SDS3 that is an essential component of Rpd3L led to increased isoamyl alcohol production similar to that of the rpd3Δ strain, but the efficiency of isoamyl alcohol esterification was not affected. In addition, Rpd3 and Hda1 may regulate the responsiveness to oxygen in isoamyl acetate production. We conclude that HDAC genes regulate the production of flavor components during sake fermentation. Abbreviations: HDAC: Histone deacetylase; HAT: histone acetyltransferase; K701: sake yeast Kyokai No. 701; PCR: polymerase chain reaction; HPLC: high performance liquid chromatography; E/A: Ester/Alcohol; BCAA: branched chain-amino acid; Atf: alcohol acetyltransferase.
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Affiliation(s)
- Kazuya Tomimoto
- a Brewing Microbiology Division , National Research Institute of Brewing, Higashi-hiroshima , Higashi-hiroshima , Japan
| | - Takeshi Akao
- a Brewing Microbiology Division , National Research Institute of Brewing, Higashi-hiroshima , Higashi-hiroshima , Japan
| | - Hisashi Fukuda
- b Planning and Management Division , National Research Institute of Brewing Higashi-hiroshima , Higashi-hiroshima , Japan
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Li JX, Huang YY, Chen XR, Du QS, Meng JZ, Xie NZ, Huang RB. Enhanced production of optical ( S)-acetoin by a recombinant Escherichia coli whole-cell biocatalyst with NADH regeneration. RSC Adv 2018; 8:30512-30519. [PMID: 35546830 PMCID: PMC9085422 DOI: 10.1039/c8ra06260a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Accepted: 08/21/2018] [Indexed: 12/19/2022] Open
Abstract
Acetoin is an important platform chemical with a variety of applications in foods, cosmetics, chemical synthesis, and especially in the asymmetric synthesis of optically active pharmaceuticals. It is also a useful breath biomarker for early lung cancer diagnosis. In order to enhance production of optical (S)-acetoin and facilitate this building block for a series of chiral pharmaceuticals derivatives, we have developed a systematic approach using in situ-NADH regeneration systems and promising diacetyl reductase. Under optimal conditions, we have obtained 52.9 g L-1 of (S)-acetoin with an enantiomeric purity of 99.5% and a productivity of 6.2 g (L h)-1. The results reported in this study demonstrated that the production of (S)-acetoin could be effectively improved through the engineering of cofactor regeneration with promising diacetyl reductase. The systematic approach developed in this study could also be applied to synthesize other optically active α-hydroxy ketones, which may provide valuable benefits for the study of drug development.
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Affiliation(s)
- Jian-Xiu Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Life Science and Biotechnology College, Guangxi University 100 Daxue Road Nanning 530004 China
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
| | - Yan-Yan Huang
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
| | - Xian-Rui Chen
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
| | - Qi-Shi Du
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
| | - Jian-Zong Meng
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Life Science and Biotechnology College, Guangxi University 100 Daxue Road Nanning 530004 China
| | - Neng-Zhong Xie
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
| | - Ri-Bo Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Life Science and Biotechnology College, Guangxi University 100 Daxue Road Nanning 530004 China
- State Key Laboratory of No-Food Biomass and Enzyme Technology, National Engineering Research Center for No-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences 98 Daling Road Nanning 530007 China
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Tang H, Wang J, Wang S, Shen Y, Petranovic D, Hou J, Bao X. Efficient yeast surface-display of novel complex synthetic cellulosomes. Microb Cell Fact 2018; 17:122. [PMID: 30086751 PMCID: PMC6081942 DOI: 10.1186/s12934-018-0971-2] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2018] [Accepted: 08/01/2018] [Indexed: 11/12/2022] Open
Abstract
Background The self-assembly of cellulosomes on the surface of yeast is a promising strategy for consolidated bioprocessing to convert cellulose into ethanol in one step. Results In this study, we developed a novel synthetic cellulosome that anchors to the endogenous yeast cell wall protein a-agglutinin through disulfide bonds. A synthetic scaffoldin ScafAGA3 was constructed using the repeated N-terminus of Aga1p and displayed on the yeast cell surface. Secreted cellulases were then fused with Aga2p to assemble the cellulosome. The display efficiency of the synthetic scaffoldin and the assembly efficiency of each enzyme were much higher than those of the most frequently constructed cellulosome using scaffoldin ScafCipA3 from Clostridium thermocellum. A complex cellulosome with two scaffoldins was also constructed using interactions between the displayed anchoring scaffoldin ScafAGA3 and scaffoldin I ScafCipA3 through disulfide bonds, and the assembly of secreted cellulases to ScafCipA3. The newly designed cellulosomes enabled yeast to directly ferment cellulose into ethanol. Conclusions This is the first report on the development of complex multiple-component assembly system through disulfide bonds. This strategy could facilitate the construction of yeast cell factories to express synergistic enzymes for use in biotechnology. Electronic supplementary material The online version of this article (10.1186/s12934-018-0971-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Hongting Tang
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China
| | - Jiajing Wang
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China
| | - Shenghuan Wang
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China
| | - Yu Shen
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China
| | - Dina Petranovic
- Department of Biology and Biological Engineering, Chalmers University of Technology, Kemivagen 10, 41296, Gothenburg, Sweden
| | - Jin Hou
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China.
| | - Xiaoming Bao
- State Key Laboratory of Microbial Technology, Shandong University, Binhai Road 72, Jimo, Qingdao, 266237, People's Republic of China. .,Shandong Provincial Key Laboratory of Microbial Engineering, Qi Lu University of Technology, Jinan, 250353, People's Republic of China.
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Wilson J, Gering S, Pinard J, Lucas R, Briggs BR. Bio-production of gaseous alkenes: ethylene, isoprene, isobutene. BIOTECHNOLOGY FOR BIOFUELS 2018; 11:234. [PMID: 30181774 PMCID: PMC6114056 DOI: 10.1186/s13068-018-1230-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Accepted: 08/17/2018] [Indexed: 05/05/2023]
Abstract
To reduce emissions from petrochemical refinement, bio-production has been heralded as a way to create economically valuable compounds with fewer harmful effects. For example, gaseous alkenes are precursor molecules that can be polymerized into a variety of industrially significant compounds and have biological production pathways. Production levels, however, remain low, thus enhancing bio-production of gaseous petrochemicals for chemical precursors is critical. This review covers the metabolic pathways and production levels of the gaseous alkenes ethylene, isoprene, and isobutene. Techniques needed to drive production to higher levels are also discussed.
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Affiliation(s)
- James Wilson
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK 99508 USA
| | - Sarah Gering
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK 99508 USA
| | - Jessica Pinard
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK 99508 USA
| | - Ryan Lucas
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK 99508 USA
| | - Brandon R. Briggs
- Department of Biological Sciences, University of Alaska Anchorage, Anchorage, AK 99508 USA
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Adamczyk J, Deregowska A, Skoneczny M, Skoneczna A, Kwiatkowska A, Potocki L, Rawska E, Pabian S, Kaplan J, Lewinska A, Wnuk M. Adaptive response to chronic mild ethanol stress involves ROS, sirtuins and changes in chromosome dosage in wine yeasts. Oncotarget 2017; 7:29958-76. [PMID: 27074556 PMCID: PMC5058656 DOI: 10.18632/oncotarget.8673] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2016] [Accepted: 04/03/2016] [Indexed: 12/23/2022] Open
Abstract
Industrial yeast strains of economic importance used in winemaking and beer production are genomically diverse and subjected to harsh environmental conditions during fermentation. In the present study, we investigated wine yeast adaptation to chronic mild alcohol stress when cells were cultured for 100 generations in the presence of non-cytotoxic ethanol concentration. Ethanol-induced reactive oxygen species (ROS) and superoxide signals promoted growth rate during passages that was accompanied by increased expression of sirtuin proteins, Sir1, Sir2 and Sir3, and DNA-binding transcription regulator Rap1. Genome-wide array-CGH analysis revealed that yeast genome was shaped during passages. The gains of chromosomes I, III and VI and significant changes in the gene copy number in nine functional gene categories involved in metabolic processes and stress responses were observed. Ethanol-mediated gains of YRF1 and CUP1 genes were the most accented. Ethanol also induced nucleolus fragmentation that confirms that nucleolus is a stress sensor in yeasts. Taken together, we postulate that wine yeasts of different origin may adapt to mild alcohol stress by shifts in intracellular redox state promoting growth capacity, upregulation of key regulators of longevity, namely sirtuins and changes in the dosage of genes involved in the telomere maintenance and ion detoxification.
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Affiliation(s)
- Jagoda Adamczyk
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
| | - Anna Deregowska
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland.,Postgraduate School of Molecular Medicine, Medical University of Warsaw, Warsaw, Poland
| | - Marek Skoneczny
- Department of Genetics, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Adrianna Skoneczna
- Laboratory of Mutagenesis and DNA Repair, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | | | - Leszek Potocki
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
| | - Ewa Rawska
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
| | - Sylwia Pabian
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
| | - Jakub Kaplan
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
| | - Anna Lewinska
- Department of Biochemistry and Cell Biology, University of Rzeszow, Rzeszow, Poland
| | - Maciej Wnuk
- Department of Genetics, University of Rzeszow, Rejtana, Rzeszow, Poland
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38
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Wei G, Xia D, Li-Li W, Hong Y. Isolation, selection, and biological characterization research of highly effective electricigens from MFCs for phenol degradation. Folia Microbiol (Praha) 2017. [DOI: 10.1007/s12223-017-0536-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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39
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Abstract
Chromosomal copy number variation (CCNV) plays a key role in evolution and health of eukaryotes. The unicellular yeast Saccharomyces cerevisiae is an important model for studying the generation, physiological impact, and evolutionary significance of CCNV. Fundamental studies of this yeast have contributed to an extensive set of methods for analyzing and introducing CCNV. Moreover, these studies provided insight into the balance between negative and positive impacts of CCNV in evolutionary contexts. A growing body of evidence indicates that CCNV not only frequently occurs in industrial strains of Saccharomyces yeasts but also is a key contributor to the diversity of industrially relevant traits. This notion is further supported by the frequent involvement of CCNV in industrially relevant traits acquired during evolutionary engineering. This review describes recent developments in genome sequencing and genome editing techniques and discusses how these offer opportunities to unravel contributions of CCNV in industrial Saccharomyces strains as well as to rationally engineer yeast chromosomal copy numbers and karyotypes.
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40
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Nature's combinatorial biosynthesis and recently engineered production of nucleoside antibiotics in Streptomyces. World J Microbiol Biotechnol 2017; 33:66. [PMID: 28260195 DOI: 10.1007/s11274-017-2233-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2016] [Accepted: 02/22/2017] [Indexed: 10/20/2022]
Abstract
Modified nucleosides produced by Streptomyces and related actinomycetes are widely used in agriculture and medicine as antibacterial, antifungal, anticancer and antiviral agents. These specialized small-molecule metabolites are biosynthesized by complex enzymatic machineries encoded within gene clusters in the genome. The past decade has witnessed a burst of reports defining the key metabolic processes involved in the biosynthesis of several distinct families of nucleoside antibiotics. Furthermore, genome sequencing of various Streptomyces species has dramatically increased over recent years. Potential biosynthetic gene clusters for novel nucleoside antibiotics are now apparent by analysis of these genomes. Here we revisit strategies for production improvement of nucleoside antibiotics that have defined mechanisms of action, and are in clinical or agricultural use. We summarize the progress for genetically manipulating biosynthetic pathways for structural diversification of nucleoside antibiotics. Microorganism-based biosynthetic examples are provided and organized under genetic principles and metabolic engineering guidelines. We show perspectives on the future of combinatorial biosynthesis, and present a working model for discovery of novel nucleoside natural products in Streptomyces.
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Zhang K, Su H, Yang M, Ge J, Li G, Yi J, Wang Y. Construction of a thermo-sensitive pRI857 vector for efficient DNA capturing in Escherichia coli. Biotechnol Lett 2017; 39:905-909. [PMID: 28251389 DOI: 10.1007/s10529-017-2313-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2016] [Accepted: 02/24/2017] [Indexed: 11/24/2022]
Abstract
OBJECTIVES To establish a positive cloning system with a zero background for high-throughput DNA cloning purpose. RESULTS The cloning vector, pRI857, and the genomic-library construction vector, pRI857-BAC, were constructed based on the mechanism of expression of the thermo-sensitive cI857 repressor gene that can stringently repress the PR promoter and kanamycin resistance gene (PR-kan R ) at 30 °C, but have no effect on PR-kan R gene at 37 °C or at higher temperatures. When the pRI857 vectors were transformed into E. coli with or without a target foreign DNA fragment inserted at the BfrBI site of the cI857 gene, only colonies with the foreign DNA fragment survive. We extended this method to construct a pRI857-BAC vector for genomic library cloning which displays an efficiency of ~107 cfu per µg of genomic DNA, with no empty vectors detected. CONCLUSIONS Cloning by indirect activation of resistance marker gene represents a novel DNA-capturing system, which can be widely applied for high-throughput DNA cloning.
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Affiliation(s)
- Kai Zhang
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Huijuan Su
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Muhan Yang
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Jing Ge
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Guiyao Li
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Jun Yi
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China
| | - Yang Wang
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China. .,Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.
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Dang L, Liu J, Wang C, Liu H, Wen J. Enhancement of rapamycin production by metabolic engineering in Streptomyces hygroscopicus based on genome-scale metabolic model. ACTA ACUST UNITED AC 2017; 44:259-270. [DOI: 10.1007/s10295-016-1880-1] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2016] [Accepted: 11/26/2016] [Indexed: 12/18/2022]
Abstract
Abstract
Rapamycin, as a macrocyclic polyketide with immunosuppressive, antifungal, and anti-tumor activity produced by Streptomyces hygroscopicus, is receiving considerable attention for its significant contribution in medical field. However, the production capacity of the wild strain is very low. Hereby, a computational guided engineering approach was proposed to improve the capability of rapamycin production. First, a genome-scale metabolic model of Streptomyces hygroscopicus ATCC 29253 was constructed based on its annotated genome and biochemical information. The model consists of 1003 reactions, 711 metabolites after manual refinement. Subsequently, several potential genetic targets that likely guaranteed an improved yield of rapamycin were identified by flux balance analysis and minimization of metabolic adjustment algorithm. Furthermore, according to the results of model prediction, target gene pfk (encoding 6-phosphofructokinase) was knocked out, and target genes dahP (encoding 3-deoxy-d-arabino-heptulosonate-7-phosphate synthase) and rapK (encoding chorismatase) were overexpressed in the parent strain ATCC 29253. The yield of rapamycin increased by 30.8% by knocking out gene pfk and increased by 36.2 and 44.8% by overexpression of rapK and dahP, respectively, compared with parent strain. Finally, the combined effect of the genetic modifications was evaluated. The titer of rapamycin reached 250.8 mg/l by knockout of pfk and co-expression of genes dahP and rapK, corresponding to a 142.3% increase relative to that of the parent strain. The relationship between model prediction and experimental results demonstrates the validity and rationality of this approach for target identification and rapamycin production improvement.
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Affiliation(s)
- Lanqing Dang
- grid.419897.a 0000 0004 0369 313X Key Laboratory of System Bioengineering (Tianjin University), Ministry of Education 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
| | - Jiao Liu
- grid.419897.a 0000 0004 0369 313X Key Laboratory of System Bioengineering (Tianjin University), Ministry of Education 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
| | - Cheng Wang
- grid.419897.a 0000 0004 0369 313X Key Laboratory of System Bioengineering (Tianjin University), Ministry of Education 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
| | - Huanhuan Liu
- grid.419897.a 0000 0004 0369 313X Key Laboratory of System Bioengineering (Tianjin University), Ministry of Education 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
| | - Jianping Wen
- grid.419897.a 0000 0004 0369 313X Key Laboratory of System Bioengineering (Tianjin University), Ministry of Education 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 School of Chemical Engineering and Technology Tianjin University 300072 Tianjin People’s Republic of China
- grid.33763.32 0000000417612484 SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin People’s Republic of China
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43
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Effect of Linker Length and Flexibility on the Clostridium thermocellum Esterase Displayed on Bacillus subtilis Spores. Appl Biochem Biotechnol 2016; 182:168-180. [DOI: 10.1007/s12010-016-2318-y] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2016] [Accepted: 10/31/2016] [Indexed: 01/23/2023]
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44
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Tong X, Barberi TT, Botting CH, Sharma SV, Simmons MJH, Overton TW, Goss RJM. Rapid enzyme regeneration results in the striking catalytic longevity of an engineered, single species, biocatalytic biofilm. Microb Cell Fact 2016; 15:180. [PMID: 27769259 PMCID: PMC5073922 DOI: 10.1186/s12934-016-0579-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Accepted: 10/14/2016] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Engineering of single-species biofilms for enzymatic generation of fine chemicals is attractive. We have recently demonstrated the utility of an engineered Escherichia coli biofilm as a platform for synthesis of 5-halotryptophan. E. coli PHL644, expressing a recombinant tryptophan synthase, was employed to generate a biofilm. Its rapid deposition, and instigation of biofilm formation, was enforced by employing a spin-down method. The biofilm presents a large three-dimensional surface area, excellent for biocatalysis. The catalytic longevity of the engineered biofilm is striking, and we had postulated that this was likely to largely result from protection conferred to recombinant enzymes by biofilm's extracellular matrix. SILAC (stable isotopic labelled amino acids in cell cultures), and in particular dynamic SILAC, in which pulses of different isotopically labelled amino acids are administered to cells over a time course, has been used to follow the fate of proteins. To explore within our spin coated biofilm, whether the recombinant enzyme's longevity might be in part due to its regeneration, we introduced pulses of isotopically labelled lysine and phenylalanine into medium overlaying the biofilm and followed their incorporation over the course of biofilm development. RESULTS Through SILAC analysis, we reveal that constant and complete regeneration of recombinant enzymes occurs within spin coated biofilms. The striking catalytic longevity within the biofilm results from more than just simple protection of active enzyme by the biofilm and its associated extracellular matrix. The replenishment of recombinant enzyme is likely to contribute significantly to the catalytic longevity observed for the engineered biofilm system. CONCLUSIONS Here we provide the first evidence of a recombinant enzyme's regeneration in an engineered biofilm. The recombinant enzyme was constantly replenished over time as evidenced by dynamic SILAC, which suggests that the engineered E. coli biofilms are highly metabolically active, having a not inconsiderable energetic demand. The constant renewal of recombinant enzyme highlights the attractive possibility of utilising this biofilm system as a dynamic platform into which enzymes of interest can be introduced in a "plug-and-play" fashion and potentially be controlled through promoter switching for production of a series of desired fine chemicals.
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Affiliation(s)
- Xiaoxue Tong
- School of Chemistry, University of St. Andrews, St. Andrews, KY16 9ST, UK.,Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, KY16 9ST, UK
| | - Tania Triscari Barberi
- School of Chemistry, University of St. Andrews, St. Andrews, KY16 9ST, UK.,Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, KY16 9ST, UK
| | - Catherine H Botting
- Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, KY16 9ST, UK
| | - Sunil V Sharma
- School of Chemistry, University of St. Andrews, St. Andrews, KY16 9ST, UK.,Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, KY16 9ST, UK
| | - Mark J H Simmons
- School of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham, B152TT, UK
| | - Tim W Overton
- School of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham, B152TT, UK
| | - Rebecca J M Goss
- School of Chemistry, University of St. Andrews, St. Andrews, KY16 9ST, UK. .,Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, KY16 9ST, UK.
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45
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Adamczyk J, Deregowska A, Potocki L, Kuna E, Kaplan J, Pabian S, Kwiatkowska A, Lewinska A, Wnuk M. Relationships between rDNA, Nop1 and Sir complex in biotechnologically relevant distillery yeasts. Arch Microbiol 2016; 198:715-23. [PMID: 27329282 PMCID: PMC4969353 DOI: 10.1007/s00203-016-1258-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2016] [Revised: 05/26/2016] [Accepted: 06/09/2016] [Indexed: 11/30/2022]
Abstract
Distillery yeasts are poorly characterized physiological group among the Saccharomyces sensu stricto complex. As industrial yeasts are under constant environmental stress during fermentation processes and the nucleolus is a stress sensor, in the present study, nucleolus-related parameters were evaluated in 22 commercially available distillery yeast strains. Distillery yeasts were found to be a heterogeneous group with a variable content and length of rDNA and degree of nucleolus fragmentation. The levels of rDNA were negatively correlated with Nop1 (r = -0.59, p = 0.0038). Moreover, the protein levels of Sir transcriptional silencing complex and longevity regulators, namely Sir1, Sir2, Sir3 and Fob1, were studied and negative correlations between Sir2 and Nop1 (r = -0.45, p = 0.0332), and between Sir2 and Fob1 (r = -0.49, p = 0.0211) were revealed. In general, S. paradoxus group of distillery yeasts with higher rDNA pools and Sir2 level than S. bayanus group was found to be more tolerant to fermentation-associated stress stimuli, namely mild cold/heat stresses and KCl treatment. We postulate that rDNA state may be considered as a novel factor that may modulate a biotechnological process.
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Affiliation(s)
- Jagoda Adamczyk
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
| | - Anna Deregowska
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
- Postgraduate School of Molecular Medicine, Medical University of Warsaw, Warsaw, Poland
| | - Leszek Potocki
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
| | - Ewelina Kuna
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
| | - Jakub Kaplan
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
| | - Sylwia Pabian
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland
| | | | - Anna Lewinska
- Department of Biochemistry and Cell Biology, University of Rzeszow, Zelwerowicza 4, 35-601, Rzeszow, Poland.
| | - Maciej Wnuk
- Department of Genetics, University of Rzeszow, Rejtana 16C, 35-959, Rzeszow, Poland.
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46
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Rizzello CG, Losito I, Facchini L, Katina K, Palmisano F, Gobbetti M, Coda R. Degradation of vicine, convicine and their aglycones during fermentation of faba bean flour. Sci Rep 2016; 6:32452. [PMID: 27578427 PMCID: PMC5006014 DOI: 10.1038/srep32452] [Citation(s) in RCA: 65] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2016] [Accepted: 08/08/2016] [Indexed: 11/20/2022] Open
Abstract
In spite of its positive repercussions on nutrition and environment, faba bean still remains an underutilized crop due to the presence of some undesired compounds. The pyrimidine glycosides vicine and convicine are precursors of the aglycones divicine and isouramil, the main factors of favism, a genetic condition which may lead to severe hemolysis after faba bean ingestion. The reduction of vicine and convicine has been targeted in several studies but little is known about their degradation. In this study, the hydrolysis kinetics of vicine and convicine and their derivatives during fermentation with L. plantarum DPPMAB24W was investigated. In particular, a specific HPLC method coupled to ESI-MS and MS/MS analysis, including the evaluation procedure of the results, was set up as the analytical approach to monitor the compounds. The degradation of the pyrimidine glycosides in the fermented flour was complete after 48 h of incubation and the aglycone derivatives could not be detected in any of the samples. The toxicity of the fermented faba bean was established through ex-vivo assays on human blood, confirming the experimental findings. Results indicate that mild and cost effective bioprocessing techniques can be applied to detoxify faba bean also for industrial applications.
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Affiliation(s)
- Carlo Giuseppe Rizzello
- University of Bari “Aldo Moro”, Department of Soil, Plant, and Food Science, Via Amendola 165/a, 70125 Bari, Italy
| | - Ilario Losito
- University of Bari “Aldo Moro”, Department of Chemistry, Via E. Orabona 4, 70125 Bari, Italy
- University of Bari “Aldo Moro”, SMART Inter-department Research Center, Via E. Orabona 4, 70125 Bari, Italy
| | - Laura Facchini
- University of Bari “Aldo Moro”, Department of Chemistry, Via E. Orabona 4, 70125 Bari, Italy
| | - Kati Katina
- University of Helsinki, Department of Food and Environmental Sciences, Agnes Sjioberginkatu 2, Helsinki, Finland
| | - Francesco Palmisano
- University of Bari “Aldo Moro”, Department of Chemistry, Via E. Orabona 4, 70125 Bari, Italy
- University of Bari “Aldo Moro”, SMART Inter-department Research Center, Via E. Orabona 4, 70125 Bari, Italy
| | - Marco Gobbetti
- University of Bari “Aldo Moro”, Department of Soil, Plant, and Food Science, Via Amendola 165/a, 70125 Bari, Italy
| | - Rossana Coda
- University of Helsinki, Department of Food and Environmental Sciences, Agnes Sjioberginkatu 2, Helsinki, Finland
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47
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Yin Y, Cai M, Zhou X, Li Z, Zhang Y. Polyketides in Aspergillus terreus: biosynthesis pathway discovery and application. Appl Microbiol Biotechnol 2016; 100:7787-98. [PMID: 27455860 DOI: 10.1007/s00253-016-7733-z] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Revised: 07/03/2016] [Accepted: 07/07/2016] [Indexed: 01/01/2023]
Abstract
The knowledge of biosynthesis gene clusters, production improving methods, and bioactivity mechanisms is very important for the development of filamentous fungi metabolites. Metabolic engineering and heterologous expression methods can be applied to improve desired metabolite production, when their biosynthesis pathways have been revealed. And, stable supplement is a necessary basis of bioactivity mechanism discovery and following clinical trial. Aspergillus terreus is an outstanding producer of many bioactive agents, and a large part of them are polyketides. In this review, we took polyketides from A. terreus as examples, focusing on 13 polyketide synthase (PKS) genes in A. terreus NIH 2624 genome. The biosynthesis pathways of nine PKS genes have been reported, and their downstream metabolites are lovastatin, terreic acid, terrein, geodin, terretonin, citreoviridin, and asperfuranone, respectively. Among them, lovastatin is a well-known hypolipidemic agent. Terreic acid, terrein, citreoviridin, and asperfuranone show good bioactivities, especially anticancer activities. On the other hand, geodin and terretonin are mycotoxins. So, biosynthesis gene cluster information is important for the production or elimination of them. We also predicted three possible gene clusters that contain four PKS genes by homologous gene alignment with other Aspergillus strains. We think that this is an effective way to mine secondary metabolic gene clusters.
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Affiliation(s)
- Ying Yin
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai, 200237, China.
| | - Menghao Cai
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai, 200237, China
| | - Xiangshan Zhou
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai, 200237, China
| | - Zhiyong Li
- Marine Biotechnology Laboratory, State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yuanxing Zhang
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai, 200237, China. .,Shanghai Collaborative Innovation Center for Biomanufacturing, 130 Meilong Road, Shanghai, 200237, China.
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48
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Man Z, Xu M, Rao Z, Guo J, Yang T, Zhang X, Xu Z. Systems pathway engineering of Corynebacterium crenatum for improved L-arginine production. Sci Rep 2016; 6:28629. [PMID: 27338253 PMCID: PMC4919616 DOI: 10.1038/srep28629] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2016] [Accepted: 06/06/2016] [Indexed: 01/04/2023] Open
Abstract
L-arginine is an important amino acid in food and pharmaceutical industries. Until now, the main production method of L-arginine in China is the highly polluting keratin acid hydrolysis. The industrial level L-arginine production by microbial fermentation has become an important task. In previous work, we obtained a new L-arginine producing Corynebacterium crenatum (subspecies of Corynebacterium glutamicum) through screening and mutation breeding. In this work, we performed systems pathway engineering of C. crenatum for improved L-arginine production, involving amplification of L-arginine biosynthetic pathway flux by removal of feedback inhibition and overexpression of arginine operon; optimization of NADPH supply by modulation of metabolic flux distribution between glycolysis and pentose phosphate pathway; increasing glucose consumption by strengthening the preexisting glucose transporter and exploitation of new glucose uptake system; channeling excess carbon flux from glycolysis into tricarboxylic acid cycle to alleviate the glucose overflow metabolism; redistribution of carbon flux at α-ketoglutarate metabolic node to channel more flux into L-arginine biosynthetic pathway; minimization of carbon and cofactor loss by attenuation of byproducts formation. The final strain could produce 87.3 g L(-1) L-arginine with yield up to 0.431 g L-arginine g(-1) glucose in fed-batch fermentation.
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Affiliation(s)
- Zaiwei Man
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
| | - Meijuan Xu
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
| | - Zhiming Rao
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi 214122, China
| | - Jing Guo
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
| | - Taowei Yang
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
| | - Xian Zhang
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China
| | - Zhenghong Xu
- School of Pharmaceutical Sciences, Jiangnan University, Wuxi 214122, China
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Salunke BK, Sawant SS, Lee SI, Kim BS. Microorganisms as efficient biosystem for the synthesis of metal nanoparticles: current scenario and future possibilities. World J Microbiol Biotechnol 2016; 32:88. [PMID: 27038958 DOI: 10.1007/s11274-016-2044-1] [Citation(s) in RCA: 59] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Accepted: 03/02/2016] [Indexed: 11/26/2022]
Abstract
Nanoparticles, the elementary structures of nanotechnology, are important materials for fundamental studies and variety of applications. The different sizes and shapes of these materials exhibit unique physical and chemical properties than their bulk materials. There is a great interest in obtaining well-dispersed, ultrafine, and uniform nanoparticles to delineate and utilize their distinct properties. Nanoparticle synthesis can be achieved through a wide range of materials utilizing a number of methods including physical, chemical, and biological processes with various precursors from liquids and solids. There is a growing need to prepare environmentally friendly nanoparticles that do not produce toxic wastes in their process synthesis protocol. This kind of synthesis can be achieved by green environment benign processes, which happen to be mostly of a biological nature. Microorganisms are one of the most attractive and simple sources for the synthesis of different types of nanoparticles. This review is an attempt to provide the up-to-date information on current status of nanoparticle synthesis by different types of microorganisms such as fungi, yeast, bacteria, cyanobacteria, actinomycete, and algae. The probable biosynthesis mechanism and conditions for size/shape control are described. Various applications of microbially synthesized nanoparticles are summarized. They include antibacterial, antifungal, anticancer, larvicidal, medical imaging, biosensor, and catalytic applications. Finally, limitations and future prospects for specific research are discussed.
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Affiliation(s)
- Bipinchandra K Salunke
- Department of Chemical Engineering, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Shailesh S Sawant
- Department of Chemical Engineering, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Sang-Ill Lee
- Department of Environmental Engineering, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Beom Soo Kim
- Department of Chemical Engineering, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea.
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RNA binding protein Pub1p regulates glycerol production and stress tolerance by controlling Gpd1p activity during winemaking. Appl Microbiol Biotechnol 2016; 100:5017-27. [DOI: 10.1007/s00253-016-7340-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 01/14/2016] [Accepted: 01/17/2016] [Indexed: 12/18/2022]
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