Abstract
Flavonoids, which are mainly extracted from plants, are important antioxidants and play an important role in human diseases. However, the growing market demand is limited by low productivity and complex production processes. Herein, the flavonoids biosynthesis pathway of the endophytic fungus Phomopsis liquidambaris was revealed. The mitogen-activated protein kinase kinase (MAPKK) of the strain was disrupted using a newly constructed CRISPR-Cas9 system mediated by two gRNAs which was conducive to cause plasmid loss. The disruption of the MAPKK gene triggered the biosynthesis of flavonoids against stress and resulted in the precipitation of flavonoids from fermentation broth. Naringenin, kaempferol and quercetin were detected in fed-batch fermentation with yields of 5.65 mg/L, 1.96 mg/L and 2.37 mg/L from P. liquidambaris for dry cell weigh using the mixture of glucose and xylose and corn steep powder as carbon source and nitrogen source for 72 h, respectively. The biosynthesis of flavonoids was triggered by disruption of MAPKK gene in P. liquidambaris and the mutant could utilize xylose.
Similar content being viewed by others
References
Alberti F, Foster GD, Bailey AM (2017) Natural products from filamentous fungi and production by heterologous expression. Appl Microbiol Biotechnol 101(2):493–500
Ancheeva E, Daletos G, Proksch P (2020) Bioactive secondary metabolites from endophytic fungi. Curr Med Chem 27(11):1836–1854
Anne-Emmanuelle H, Hasna B, Antoine B, Marjolaine R, Guillaume M, Laetitia CG, Gilles C, Aude HB (2017) Control of endophytic Frankia sporulation by alnus nodule metabolites. Mol Plant Microbe Interact 30(3):205–214
Bernhard A, Scher Y (1951) Bovine albumin standard for serum protein determinations. Science 114(2973):674
Billet K, Houillé B, Besseau S, Mélin C, Oudin A, Papon N, Courdavault V, Clastre M, Giglioli-Guivarc’h N, Lanoue A, (2018) Mechanical stress rapidly induces E-resveratrol and E-piceatannol biosynthesis in grape canes stored as a freshly-pruned byproduct. Food Chem 240:1022–1027
Cao M, Gao M, Suastegui M, Mei Y, Shao Z (2019) Building microbial factories for the production of aromatic amino acid pathway derivatives: from commodity chemicals to plant-sourced natural products. Metab Eng 58:91–132
Doench JG, Fusi N, Sullender M, Hegde M, Vaimberg EW, Donovan KF, Smith I, Tothova Z, Wilen C, Orchard R, Virgin HW, Listgarten J, Root DE (2016) Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. Nat Biotechnol 34(2):184–191
Hamel LP, Nicole MC, Duplessis S, Ellis BE (2012) Mitogen-activated protein kinase signaling in plant-interacting fungi: distinct messages from conserved messengers. Plant Cell 24(4):1327–1351
Huang PW, Yang Q, Zhu YL, Zhou J, Sun K, Mei YZ, Dai CC (2020) The construction of CRISPR-Cas9 system for endophytic Phomopsis liquidambaris and its PmkkA-deficient mutant revealing the effect on rice. Fungal Genet Biol 136:103301
Iwashina T (2003) Flavonoid function and activity to plants and other organisms. Biol Sci Space 17(1):24–44
Katayama T, Nakamura H, Zhang Y, Pascal A, Fujii W, Maruyama JI (2019) Forced recycling of AMA1-based genome-editing plasmid allows for efficient multiple gene deletion/integration in the industrial filamentous fungus Aspergillus oryzae. Appl Environ Microbiol 85:01896–18
Khan H, Ullah H, Martorell M, Valdes SE, Belwal T, Tejada S, Sureda A, Kamal MA (2019) Flavonoids nanoparticles in cancer: treatment, prevention and clinical prospects. Semin Cancer Biol S1044-579X(19)30182-8
Khare E, Mishra J, Arora NK (2018) Multifaceted interactions between endophytes and plant: developments and prospects. Front Microbiol 9:2732
Lorang JM, Tuori RP, Martinez JP, Sawyer TL, Redman RS, Rollins JA, Wolpert TJ, Johnson KB, Rodriguez RJ, Dickman MB, Ciuffetti LM (2001) Green fluorescent protein is lighting up fungal biology. Appl Environ Microbiol 67(5):1987–1994
Lv Y, Marsafari M, Koffas M, Zhou J, Xu P (2019) Optimizing oleaginous yeast cell factories for flavonoids and hydroxylated flavonoids biosynthesis. ACS Synth Biol 8(11):2514–2523
Lyu X, Zhao G, Ng KR, Mark R, Chen WN (2019) Metabolic engineering of Saccharomyces cerevisiae for de novo production of kaempferol. J Agric Food Chem 67(19):5596–5606
Marín L, Gutiérrez-Del-Río I, Entrialgo-Cadierno R, Villar CJ, Lombó F (2018) De novo biosynthesis of myricetin, kaempferol and quercetin in Streptomyces albus and Streptomyces coelicolor. PLoS ONE 13(11):e0207278
Mei YZ, Zhu YL, Huang PW, Yang Q, Dai CC (2019) Strategies for gene disruption and expression in filamentous fungi. Appl Microbiol Biotechnol 103(15):6041–6059
Palmer CM, Miller KK, Nguyen A, Alper HS (2019) Engineering 4-coumaroyl-CoA derived polyketide production in Yarrowia lipolytica through a β-oxidation mediated strategy. Metab Eng 57:174–181
Pattanayak V, Lin S, Guilinger JP, Ma E, Doudna JA, Liu DR (2013) High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity. Nat Biotechnol 31:839–843
Rodriguez A, Strucko T, Stahlhut SG, Kristensen M, Svenssen DK, Forster J, Nielsen J, Borodina I (2017) Metabolic engineering of yeast for fermentative production of flavonoids. Bioresour Technol 245(Pt B):1645–1654
Sarkari P, Marx H, Blumhoff ML, Mattanovich D, Sauer M, Steiger MG (2017) An efficient tool for metabolic pathway construction and gene integration for Aspergillus niger. Bioresour Technol 245(Pt B):1327–1333
Sun M, Sun C, Xie H, Yan S, Yin H (2019) A simple method to calculate the degree of polymerization of alginate oligosaccharides and low molecular weight alginates. Carbohydr Res 486:107856
Tokuyama K, Toya Y, Matsuda F, Cress BF, Koffas MAG, Shimizu H (2019) Magnesium starvation improves production of malonyl-CoA-derived metabolites in Escherichia coli. Metab Eng 52:215–223
Tomas M, Beekwilder J, Hall RD, Sagdic O, Boyacioglu D, Capanoglu E (2017) Industrial processing versus home processing of tomato sauce: effects on phenolics, flavonoids and in vitro bioaccessibility of antioxidants. Food Chem 220:51–58
Tong SM, Feng MG (2019) Insights into regulatory roles of MAPK-cascaded pathways in multiple stress responses and life cycles of insect and nematode mycopathogens. Appl Microbiol Biotechnol 103(2):577–587
Valiante V (2017) The cell wall integrity signaling pathway and its involvement in secondary metabolite production. J Fungi 3(4):68
Wang Y, Chen S, Yu O (2011) Metabolic engineering of flavonoids in plants and microorganisms. Appl Microbiol Biotechnol 91(4):949–956
Wang R, Cress BF, Yang Z, Hordines JC, Zhao S, Jung GY, Wang Z, Koffas MAG (2019) Design and characterization of biosensors for the screening of modular assembled naringenin biosynthetic library in Saccharomyces cerevisiae. ACS Synth Biol 8(9):2121–2130
Wang H, Sun S, Ge W, Zhao L, Hou B, Wang K, Lyu Z, Chen L, Xu S, Guo J, Li M, Su P, Li X, Wang G, Bo C, Fang X, Zhuang W, Cheng X, Wu J, Dong L, Chen W, Li W, Xiao G, Zhao J, Hao Y, Xu Y, Gao Y, Liu W, Liu Y, Yin H, Li J, Li X, Zhao Y, Wang X, Ni F, Ma X, Li A, Xu SS, Bai G, Nevo E, Gao C, Ohm H, Kong L (2020) Horizontal gene transfer of Fhb7 from fungus underlies Fusarium head blight resistance in wheat. Science 368(6493):eaba5435
Winkel-Shirley B (2002) Biosynthesis of flavonoids and effects of stress. Curr Opin Plant Biol 5(3):218–223
Xia YQ, Guo TY, Zhao HL, Song MD, Zhang BH, Zhang BL (2007) A novel solid phase for selective separation of flavonoid compounds. J Sep Sci 30(9):1300–1306
Xie XG, Zhang FM, Wang XX, Li XG, Dai CC (2019) Phomopsis liquidambaris colonization promotes continuous cropping peanut growth by improving the rhizosphere microenvironment, nutrient uptake and disease incidence. J Sci Food Agric 99(4):1898–1907
Xu J, Zhang S (2015) Mitogen-activated protein kinase cascades in signaling plant growth and development. Trends Plant Sci 20:56–64
Yan L, Zhang H, Chen J, Lin Z, Jin Q, Jia H, Huang H (2009) Dilute sulfuric acid cycle spray flow-through pretreatment of corn stover for enhancement of sugar recovery. Bioresour Technol 100(5):1803–1808
Yang B, Wang XM, Ma HY, Yang T, Jia Y, Zhou J, Dai CC (2015) Fungal endophyte Phomopsis liquidambari affects nitrogen transformation processes and related microorganisms in the rice rhizosphere. Front Microbiol 6:982
Yelton MM, Hamer JE, Timberlake WE (1984) Transformation of Aspergillus nidulans by using a trpC plasmid. Proc Natl Acad Sci 81:1470–1474
Yin Z, Feng W, Chen C, Xu J, Li Y, Yang L, Wang J, Liu X, Wang W, Gao C, Zhang H, Zheng X, Wang P, Zhang Z (2019) Shedding light on autophagy coordinating with cell wall integrity signaling to govern pathogenicity of Magnaporthe oryzae. Autophagy 24:1–17
Zang Y, Zha J, Wu X, Zheng Z, Ouyang J, Koffas MAG (2019) In vitro naringenin biosynthesis from p-coumaric acid using recombinant enzymes. J Agric Food Chem 67(49):13430–13436
Zhang J, Shi J, Liu Y (2013) Substrates and enzyme activities related to biotransformation of resveratrol from phenylalanine by Alternaria sp. MG1. Appl Microbiol Biotechnol 97(23):9941–9954
Zhang C, Meng X, Wei X, Lu L (2016) Highly efficient CRISPR mutagenesis by microhomology-mediated end joining in Aspergillus fumigatus. Fungal Genet Biol 86:47–57
Zhang W, Sun K, Shi RH, Yuan J, Wang XJ, Dai CC (2018a) Auxin signalling of Arachis hypogaea activated by colonization of mutualistic fungus Phomopsis liquidambari enhances nodulation and N2 -fixation. Plant Cell Environ 41(9):2093–2108
Zhang Z, He Y, Huang Y, Ding L, Chen L, Liu Y, Nie Y, Zhang X (2018b) Correction to development and optimization of an in vitro multienzyme dynthetic dystem for production of kaempferol from naringenin. J Agric Food Chem 66(44):11880
Zhang Q, Chen X, Xu C, Zhao H, Zhang X, Zeng G, Qian Y, Liu R, Guo N, Mi W, Meng Y, Leger RJS, Fang W (2019) Horizontal gene transfer allowed the emergence of broad host range entomopathogens. Proc Natl Acad Sci 116(16):7982–7989
Zhang W, Li XG, Sun K, Tang MJ, Xu FJ, Zhang M, Dai CC (2020) Mycelial network-mediated rhizobial dispersal enhances legume nodulation. ISME J 14:1015–1029
Zhou J, Li X, Huang PW, Dai CC (2018) Endophytism or saprophytism: decoding the lifestyle transition of the generalist fungus Phomopsis liquidambari. Microbiol Res 206:99–112
Zhou S, Lyu Y, Li H, Koffas MAG, Zhou J (2019) Fine-tuning the (2S)-naringenin synthetic pathway using an iterative high-throughput balancing strategy. Biotechnol Bioeng 116(6):1392–1404
Acknowledgements
This study was supported by research grants from Key Technologies Research and Development Program of China (2018YFC1604206), National Natural Science Foundation of China (Grant Number: 32070058) and the National Key R&D Program of China (Grant Number: 2017YFD0800705). We thank Dr. Ling Lu (Nanjing Normal University) for kindly providing plasmid pX330 and FM-3.
Author information
Authors and Affiliations
Corresponding authors
Ethics declarations
Conflict of interest
The authors declared that there is no conflict of interest.
Additional information
Publisher’s Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
About this article
Cite this article
Yang, Q., Wu, M., Zhu, YL. et al. The disruption of the MAPKK gene triggering the synthesis of flavonoids in endophytic fungus Phomopsis liquidambaris. Biotechnol Lett 43, 119–132 (2021). https://doi.org/10.1007/s10529-020-03042-5
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10529-020-03042-5