Tan, 2020, An evolutionary view of melatonin synthesis and metabolism related to its biological functions in plants, J. Exp. Bot., 71, 4677, 10.1093/jxb/eraa235
Arkorful, 2020, Metabolomic analyses provide new insights into signaling mechanisms for nutrient uptake by lateral roots of pruned tea plant (Camellia sinensis), J. Agric. Food Chem., 68, 7890, 10.1021/acs.jafc.0c02053
Cravens, 2019, Synthetic biology strategies for microbial biosynthesis of plant natural products, Nat. Commun., 10, 2142, 10.1038/s41467-019-09848-w
Isah, 2019, Stress and defense responses in plant secondary metabolites production, Bio. Res., 52, 39, 10.1186/s40659-019-0246-3
Lin, 2018, Application of protoplast technology to CRISPR/Cas9 mutagenesis: from single‐cell mutation detection to mutant plant regeneration, Plant Biotechnol. J., 16, 1295, 10.1111/pbi.12870
Marx, 2016, Plants: a tool box of cell-based assays, Nat. Methods, 13, 551, 10.1038/nmeth.3900
Li, 2020, Recent advances of metabolic engineering strategies in natural isoprenoid production using cell factories, Nat. Prod. Rep., 37, 80, 10.1039/C9NP00016J
Krivoruchko, 2015, Production of natural products through metabolic engineering of Saccharomyces cerevisiae, Curr. Opin. Biotechnol., 35, 7, 10.1016/j.copbio.2014.12.004
Machado, 2018, Fast automated reconstruction of genome-scale metabolic models for microbial species and communities, Nucleic Acids Res., 46, 7542, 10.1093/nar/gky537
Angelani, 2018, A metabolic control analysis approach to introduce the study of systems in biochemistry: the glycolytic pathway in the red blood cell, Biochem. Mol. Biol. Educ., 46, 502, 10.1002/bmb.21139
Gopalakrishnan, 2018, Elucidation of photoautotrophic carbon flux topology in Synechocystis PCC 6803 using genome-scale carbon mapping models, Metab. Eng., 47, 190, 10.1016/j.ymben.2018.03.008
Halper, 2018, An automated pipeline for engineering many-enzyme pathways: computational sequence design, pathway expression-flux mapping, and scalable pathway optimization, 39, 10.1007/978-1-4939-7295-1_4
Nagai, 2018, Metabolic engineering of mevalonate-producing Escherichia coli strains based on thermodynamic analysis, Metab. Eng., 47, 1, 10.1016/j.ymben.2018.02.012
Skraly, 2018, Metabolic engineering to increase crop yield: from concept to execution, Plant Sci., 273, 23, 10.1016/j.plantsci.2018.03.011
Lian, 2018, Recent advances in metabolic engineering of Saccharomyces cerevisiae: new tools and their applications, Metab. Eng., 50, 85, 10.1016/j.ymben.2018.04.011
Yang, 2020, Metabolic engineering of Escherichia coli for natural product biosynthesis, Trends Biotechnol., 38, 745, 10.1016/j.tibtech.2019.11.007
Rutledge, 2015, Discovery of microbial natural products by activation of silent biosynthetic gene clusters, Nat. Rev. Microbiol., 13, 509, 10.1038/nrmicro3496
Wu, 2016, Metabolic burden: cornerstones in synthetic biology and metabolic engineering applications, Trends Biotechnol., 34, 652, 10.1016/j.tibtech.2016.02.010
Paddon, 2014, Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development, Nat. Rev. Microbiol., 12, 355, 10.1038/nrmicro3240
O’Connor, 2015, Engineering of secondary metabolism, Annu. Rev. Genet., 49, 71, 10.1146/annurev-genet-120213-092053
Jensen, 2015, Recent applications of synthetic biology tools for yeast metabolic engineering, FEMS Yeast Res., 15, 1
Shiba, 2009
Jarboe, 2018, Improving the success and impact of the metabolic engineering design, build, test, learn cycle by addressing proteins of unknown function, Curr. Opin. Biotechnol., 53, 93, 10.1016/j.copbio.2017.12.017
Klamt, 2018, A mathematical framework for yield (vs. rate) optimization in constraint-based modeling and applications in metabolic engineering, Metab. Eng., 47, 153, 10.1016/j.ymben.2018.02.001
Teng, 2020, System metabolic engineering strategies for cell factories construction, 125
Ellinger, 2017, Construction of a BioBrickTM compatible vector system for Rhodococcus, Plasmid, 90, 1, 10.1016/j.plasmid.2017.01.004
Jia, 2017, Cell-free protein synthesis in micro compartments: building a minimal cell from biobricks, N. Biotechnol., 39, 199, 10.1016/j.nbt.2017.06.014
Popp, 2017, The Bacillus BioBrick Box 2.0: expanding the genetic toolbox for the standardized work with Bacillus subtilis, Sci. Rep., 7, 10.1038/s41598-017-15107-z
Szymanski, 2018, Designing with living systems in the synthetic yeast project, Nat. Commun., 9, 2950, 10.1038/s41467-018-05332-z
Calero, 2019, Chasing bacterial chassis for metabolic engineering: a perspective review from classical to non-traditional microorganisms, Microb. Biotechnol., 12, 98, 10.1111/1751-7915.13292
Capeness, 2020, Synthetic biology approaches towards the recycling of metals from the environment, Biochem. Soc. Trans., 48, 1367, 10.1042/BST20190837
Hanson, 2018, Synthetic biology meets plant metabolism, Plant Sci., 273, 1, 10.1016/j.plantsci.2018.04.004
García-Granados, 2019, Metabolic engineering and synthetic biology: synergies, future, and challenges, Front Bioeng, Biotechnol., 7, 36
Kotopka, 2018, Synthetic biology strategies toward heterologous phytochemical production, Nat. Prod. Rep., 35, 902, 10.1039/C8NP00028J
Lu, 2018, Modular metabolic engineering for biobased chemical production, Trends Biotechnol., 37, 152, 10.1016/j.tibtech.2018.07.003
Lim, 2018, Enhanced biosynthesis of 2-deoxy-scyllo-inosose in metabolically engineered Bacillus subtilis recombinants, Front. Microbiol., 9, 2333, 10.3389/fmicb.2018.02333
Huang, 2018, Molecular basis of dimer formation during the biosynthesis of benzofluorene-containing atypical angucyclines, Nat. Commun., 9, 2088, 10.1038/s41467-018-04487-z
Yang, 2018, Repurposing type III polyketide synthase as a malonyl-CoA biosensor for metabolic engineering in bacteria, Proc. Natl. Acad. Sci. U. S. A., 115, 9835, 10.1073/pnas.1808567115
Wang, 2017, Bioproduction of resveratrol, 61
Yang, 2018, One-step fermentative production of aromatic polyesters from glucose by metabolically engineered Escherichia coli strains, Nat. Commun., 9, 79, 10.1038/s41467-017-02498-w
Kimura, 2001, Chalcone isomerase isozymes with different substrate specificities towards 6′-hydroxy- and 6′-deoxychalcones in cultured cells of Glycyrrhiza echinata, a leguminous plant producing 5-deoxyflavonoids, Plant Cell Physiol., 42, 1169, 10.1093/pcp/pce130
Shomura, 2005, Crystal structure of stilbene synthase from Arachis hypogaea, Proteins Struct. Funct. Genet., 60, 803, 10.1002/prot.20584
He, 2011, A genomic approach to isoflavone biosynthesis in kudzu (Pueraria lobata), Planta, 233, 843, 10.1007/s00425-010-1344-1
Thuan, 2018, Engineering co-culture system for production of apigetrin in Escherichia coli, J Ind, Microbiol. Biotechnol., 45, 175, 10.1007/s10295-018-2012-x
Yoon, 2009, Combinatorial expression of bacterial whole mevalonate pathway for the production of β-carotene in E. coli, J. Biotechnol., 140, 218, 10.1016/j.jbiotec.2009.01.008
Leonard, 2009, Opportunities in metabolic engineering to facilitate scalable alkaloid production, Nat. Chem. Biol., 5, 292, 10.1038/nchembio.160
Carlson, 2012, Cell-free protein synthesis: applications come of age, Biotechnol. Adv., 30, 1185, 10.1016/j.biotechadv.2011.09.016
Parapouli, 2020, Saccharomyces cerevisiae and its industrial applications, AIMS Microbiol., 6, 1, 10.3934/microbiol.2020001
Böer, 2007, Yeast expression platforms, Appl. Microbiol. Biotechnol., 77, 513, 10.1007/s00253-007-1209-0
Song, 2016, Introduction of a bacterial acetyl-CoA synthesis pathway improves lactic acid production in Saccharomyces cerevisiae, Metab. Eng., 35, 38, 10.1016/j.ymben.2015.09.006
Ye, 2007, Geranylgeranyl diphosphate synthase in fission yeast is a heteromer of Farnesyl Diphosphate Synthase (FPS), Fps1, and an FPS-like protein, Spo9, essential for sporulation, Mol. Biol. Cell, 18, 3568, 10.1091/mbc.e07-02-0112
Ricca, 2011, Multi-enzymatic cascade reactions: overview and perspectives, Adv. Synth. Catal., 353, 2239, 10.1002/adsc.201100256
Mikkelsen, 2012, Microbial production of indolylglucosinolate through engineering of a multi-gene pathway in a versatile yeast expression platform, Metab. Eng., 14, 104, 10.1016/j.ymben.2012.01.006
Dujon, 2004, Genome evolution in yeasts, Nature, 430, 35, 10.1038/nature02579
Yin, 2007, Select what you need: a comparative evaluation of the advantages and limitations of frequently used expression systems for foreign genes, J. Biotechnol., 127, 335, 10.1016/j.jbiotec.2006.07.012
Albertsen, 2011, Diversion of flux toward sesquiterpene production in Saccharomyces cerevisiae by fusion of host and heterologous enzymes, Appl. Environ. Microbiol., 77, 1033, 10.1128/AEM.01361-10
Demain, 2009, Production of recombinant proteins by microbes and higher organisms, Biotechnol. Adv., 27, 297, 10.1016/j.biotechadv.2009.01.008
Keasling, 2010, Manufacturing molecules through metabolic engineering, Science, 330, 1355, 10.1126/science.1193990
Mattanovich, 2012, Recombinant protein production in yeasts, Methods Mol. Biol., 824, 329, 10.1007/978-1-61779-433-9_17
Macauley-Patrick, 2005, Heterologous protein production using the Pichia pastoris expression system, Yeast, 22, 249, 10.1002/yea.1208
Becerra, 2001, Heterologous Kluyveromyces lactis β-galactosidase secretion by Saccharomyces cerevisiae super-secreting mutants, Biotechnol. Lett., 23, 33, 10.1023/A:1026795706520
Kama, 2018, Cdc48 and ubiquilins confer selective anterograde protein sorting and entry into the multivesicular body in yeast, Mol. Biol. Cell, 29, 948, 10.1091/mbc.E17-11-0652
Kroukamp, 2018, Rational strain engineering interventions to enhance cellulase secretion by Saccharomyces cerevisiae, Biofuels, Bioprod. Biorefining, 12, 108, 10.1002/bbb.1824
Zheng, 2018, Potential characterization of yeasts isolated from Kazak artisanal cheese to produce flavoring compounds, MicrobiologyOpen, 7, 10.1002/mbo3.533
Fidan, 2015, Recent advances in engineering yeast for pharmaceutical protein production, RSC Adv., 5, 86665, 10.1039/C5RA13003D
Conde, 2003, Screening for new yeast mutants affected in mannosylphosphorylation of cell wall mannoproteins, Yeast, 20, 1189, 10.1002/yea.1032
Gerngross, 2004, Advances in the production of human therapeutic proteins in yeasts and filamentous fungi, Nat. Biotechnol., 22, 1409, 10.1038/nbt1028
Mandal, 2000, Manganese selectivity of Pmr1, the yeast secretory pathway ion pump, is defined by residue Gln783 in transmembrane segment 6: residue Asp778 is essential for cation transport, J. Biol. Chem., 275, 23933, 10.1074/jbc.M002619200
Wei, 2000, Phenotypic screening of mutations in Pmr1, the yeast secretory pathway Ca2+/Mn2+-ATPase, reveals residues critical for ion selectivity and transport, J. Biol. Chem., 275, 23927, 10.1074/jbc.M002618200
Yoko-o, 2001, Schizosaccharomyces pombe och1+encodes α-1,6-mannosyltransferase that is involved in outer chain elongation of N-linked oligosaccharides, FEBS Lett., 489, 75, 10.1016/S0014-5793(01)02082-8
Thak, 2020, Core N-glycan structures are critical for the pathogenicity of cryptococcus neoformans by modulating host cell death, MBio, 11, e00711, 10.1128/mBio.00711-20
Gandier, 2018, Pichia pastoris is a suitable host for the heterologous expression of predicted class I and class II hydrophobins for discovery, study, and application in biotechnology, Microorganisms, 6, 3, 10.3390/microorganisms6010003
Mesa-Pereira, 2018, Heterologous expression of biopreservative bacteriocins with a view to low cost production, Front. Microbiol., 9, 1654, 10.3389/fmicb.2018.01654
Valeeva, 2018, Heterologous expression of secreted bacterial BPP and HAP phytases in plants stimulates Arabidopsis thaliana growth on phytate, Front. Plant Sci., 9, 186, 10.3389/fpls.2018.00186
Cognato, 2018, Heterologous expression of three antigenic proteins from Angiostrongylus cantonensis: ES-7, Lec-5, and 14-3-3 in mammalian cells, Mol. Biochem. Parasitol., 221, 32, 10.1016/j.molbiopara.2018.03.001
Kumar, 2018, Plant vaccines: an overview, 249
Mardanova, 2018, Plant-produced recombinant influenza A vaccines based on the M2e peptide, Curr. Pharm. Des., 24, 1317, 10.2174/1381612824666180309125344
Sciutto, 2018, Toward the optimization of a plant-based oral vaccine against cysticercosis, 227
Rybicki, 2018, History and promise of plant-made vaccines for animals, 1
Rybicki, 2020, Plant molecular farming of virus-like nanoparticles as vaccines and reagents, Wiley Interdiscip. Rev. Nanomed. Nanobiotechnol., 12, e1587, 10.1002/wnan.1587
Zhao, 2018, Role of the tomato TAGL1 gene in regulating fruit metabolites elucidated using RNA sequence and metabolomics analyses, PLoS One, 13
Osbourn, 2012, Finding and analyzing plant metabolic gene clusters, Methods Enzymol., 517, 113, 10.1016/B978-0-12-404634-4.00006-1
Harvey, 2018, HEx: a heterologous expression platform for the discovery of fungal natural products, Sci. Adv., 4, 10.1126/sciadv.aar5459
Jackson, 2018, Diverse and abundant secondary metabolism biosynthetic gene clusters in the genomes of marine sponge derived Streptomyces spp, Isolates, Mar. Drugs, 16, 67, 10.3390/md16020067
Xiong, 2018, Condition-specific promoter activities in Saccharomyces cerevisiae, Microb. Cell Fact., 17, 58, 10.1186/s12934-018-0899-6
Chen, 2019, CRISPR/Cas genome editing and precision plant breeding in agriculture, Annu. Rev. Plant Biol., 70, 667, 10.1146/annurev-arplant-050718-100049
Marsafari, 2020, Biotechnological production of flavonoids: an update on plant metabolic engineering, microbial host selection, and genetically encoded biosensors, Biotechnol. J., 15, 10.1002/biot.201900432
Haselmair-Gosch, 2018, Great cause—small effect: undeclared genetically engineered prange Petunias harbor an inefficient Dihydroflavonol 4-reductase, Front. Plant Sci., 9, 149, 10.3389/fpls.2018.00149
Bhatia, 2018, Low temperature enhanced flavonol synthesis requires light-associated regulatory components in Arabidopsis thaliana, Plant Cell Physiol., 59, 2099, 10.1093/pcp/pcy132
Kesidis, 2020, Expression of eukaryotic membrane proteins in eukaryotic and prokaryotic hosts, Methods, 180, 3, 10.1016/j.ymeth.2020.06.006
Chastang, 2018, Resveratrol production by grapevine cells in fed-batch bioreactor: experiments and modelling, Biochem. Eng. J., 131, 9, 10.1016/j.bej.2017.12.009
Chu, 2018, Recent trends and comprehensive appraisal for the biotechnological production of trans-resveratrol and its derivatives, Phytochem. Rev., 17, 491, 10.1007/s11101-017-9546-9
Khatodia, 2018, S.M. Paul Khurana, Genetic engineering for plant transgenesis: focus to pharmaceuticals, Omi. Technol. Bio-Eng., 2, 71, 10.1016/B978-0-12-815870-8.00005-X
Fernandez, 2018, Unintended effects in genetically modified food/feed safety: a way forward, Trends Biotechnol., 36, 872, 10.1016/j.tibtech.2018.03.005
Fernández-San Millán, 2018, Physiological performance of transplastomic tobacco plants overexpressing aquaporin AQP1 in chloroplast membranes, J. Exp. Bot., 69, 3661, 10.1093/jxb/ery148
Franconi, 2010, Plant-derived vaccines and other therapeutics produced in contained systems, Expert Rev. Vaccines, 9, 877, 10.1586/erv.10.91
Dyall, 2004, Ancient invasions: from endosymbionts to organelles, Science, 304, 253, 10.1126/science.1094884
Fuentes, 2018, Plastid transformation and its application in metabolic engineering, Curr. Opin. Biotechnol., 49, 10, 10.1016/j.copbio.2017.07.004
de Bruijn, 2020, Plant aromatic prenyltransferases: tools for microbial cell factories, Trends Biotechnol., 38, 917, 10.1016/j.tibtech.2020.02.006
Alok, 2020, CRISPR/Cas9 mediated genome engineering in microbes and its application in plant beneficial effects, 351
Bišová, 2014, Cell-cycle regulation in green algae dividing by multiple fission, J. Exp. Bot., 65, 2585, 10.1093/jxb/ert466
Kobayashi, 2009, Tetrapyrrole signal as a cell-cycle coordinator from organelle to nuclear DNA replication in plant cells, Proc. Natl. Acad. Sci. U. S. A., 106, 803, 10.1073/pnas.0804270105
Cvrčková, 2018, A brief history of eukaryotic cell cycle research, 67, 10.1007/978-3-319-69944-8_4
Millar, 2016, The Intracellular dynamics of circadian clocks reach for the light of ecology and evolution, Annu. Rev. Plant Biol., 67, 595, 10.1146/annurev-arplant-043014-115619
Vitova, 2015, Accumulation of energy reserves in algae: from cell cycles to biotechnological applications, Biotechnol. Adv., 33, 1204, 10.1016/j.biotechadv.2015.04.012
Concas, 2016, A novel mathematical model to simulate the size-structured growth of microalgae strains dividing by multiple fission, Chem. Eng. J., 287, 252, 10.1016/j.cej.2015.11.021
Bonnett, 1990, The Nostoc-Gunnera association, 161
Li, 2020, Common problems associated with the microbial productions of aromatic compounds and corresponding metabolic engineering strategies, Biotechnol. Adv., 41, 10.1016/j.biotechadv.2020.107548
Bock, 2016, Multi-omics of single cells: strategies and applications, Trends Biotechnol., 34, 605, 10.1016/j.tibtech.2016.04.004
Heath, 2016, Single-cell analysis tools for drug discovery and development, Nat. Rev. Drug Discov., 15, 204, 10.1038/nrd.2015.16
Thomas, 2017, Dendrobium protoplast co-culture promotes phytochemical assemblage in vitro, Protoplasma, 254, 1517, 10.1007/s00709-016-1043-2
Planchais, 2016, Protocols for studying protein stability in an Arabidopsis protoplast transient expression system, 175, 10.1007/978-1-4939-3759-2_14
Yoo, 2007, Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis, Nat. Protoc., 2, 1565, 10.1038/nprot.2007.199
Im, 2014, Transient expression in Arabidopsis leaf mesophyll protoplast system for cell-based functional analysis of MAPK cascades signaling, Methods Mol. Biol., 1171, 3, 10.1007/978-1-4939-0922-3_1
Guilfoyle, 2015, The PB1 Domain in auxin response factor and Aux/IAA proteins: a versatile protein interaction module in the auxin response, Plant Cell, 27, 33, 10.1105/tpc.114.132753
Son, 2018, Involvement of TOR signaling motif in the regulation of plant autophagy, Biochem. Biophys. Res. Commun., 501, 643, 10.1016/j.bbrc.2018.05.027
John, 2011, Plant TOR signaling components, Plant Signal. Behav., 6, 1700, 10.4161/psb.6.11.17662
Wu, 2018, All together now, a magical mystery tour of the maize shoot meristem, Curr. Opin. Plant Biol., 45, 26, 10.1016/j.pbi.2018.04.010