Metabolic Engineering, Journal Year: 2022, Volume and Issue: 73, P. 11 - 25
Published: May 31, 2022
Language: Английский
Applied Microbiology and Biotechnology, Journal Year: 2020, Volume and Issue: 104(18), P. 7745 - 7766
Published: Aug. 13, 2020
Abstract Pseudomonas putida is a Gram-negative, rod-shaped bacterium that can be encountered in diverse ecological habitats. This ubiquity traced to its remarkably versatile metabolism, adapted withstand physicochemical stress, and the capacity thrive harsh environments. Owing these characteristics, there growing interest this microbe for industrial use, corresponding research has made rapid progress recent years. Hereby, strong drivers are exploitation of cheap renewable feedstocks waste streams produce value-added chemicals steady genetic strain engineering systems biology understanding bacterium. Here, we summarize advances prospects engineering, synthetic biology, applications P. as cell factory. Key points • global Novel tools enable system-wide streamlined genomic engineering. Applications range from bioeconomy biosynthetic drugs.
Language: Английский
Citations
191
Nature Communications, Journal Year: 2022, Volume and Issue: 13(1)
Published: Aug. 22, 2022
Abstract Muconic acid is a bioprivileged molecule that can be converted into direct replacement chemicals for incumbent petrochemicals and performance-advantaged bioproducts. In this study, Pseudomonas putida KT2440 engineered to convert glucose xylose, the primary carbohydrates in lignocellulosic hydrolysates, muconic using model-guided strategy maximize theoretical yield. Using adaptive laboratory evolution (ALE) metabolic engineering strain express D-xylose isomerase pathway, we demonstrate mutations heterologous D-xylose:H + symporter (XylE), increased expression of major facilitator superfamily transporter (PP_2569), overexpression aroB encoding native 3-dehydroquinate synthase, enable efficient production from xylose simultaneously. rationally strain, produce 33.7 g L −1 muconate at 0.18 h 46% molar yield (92% maximum yield). This promising other shikimate pathway-derived compounds sugars.
Language: Английский
Citations
80
Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)
Published: Sept. 26, 2023
Plastic pollution is rapidly increasing worldwide, causing adverse impacts on the environment, wildlife and human health. One tempting solution to this crisis upcycling plastics into products with engineered microorganisms; however, remains challenging due complexity in conversion. Here we present a synthetic microbial consortium that efficiently degrades polyethylene terephthalate hydrolysate subsequently produces desired chemicals through division of labor. The involves two Pseudomonas putida strains, specializing terephthalic acid ethylene glycol utilization respectively, achieve complete substrate assimilation. Compared its monoculture counterpart, exhibits reduced catabolic crosstalk faster deconstruction, particularly when concentrations are high or crude used. It also outperforms polyhydroxyalkanoates serves as target product confers flexible tuning population modulation for cis-cis muconate synthesis. This work demonstrates consortia promising, effective platform may facilitate polymer environmental sustainability.
Language: Английский
Citations
57
Nature Chemical Biology, Journal Year: 2020, Volume and Issue: 17(1), P. 96 - 103
Published: Oct. 12, 2020
Language: Английский
Citations
105
Metabolic Engineering Communications, Journal Year: 2020, Volume and Issue: 11, P. e00143 - e00143
Published: Aug. 29, 2020
KT2440 is a promising bacterial chassis for the conversion of lignin-derived aromatic compound mixtures to biofuels and bioproducts. Despite inherent robustness this strain, further improvements catabolism toxicity tolerance
Language: Английский
Citations
99
Biotechnology Advances, Journal Year: 2021, Volume and Issue: 49, P. 107732 - 107732
Published: March 27, 2021
Pseudomonas putida is a microbial chassis of huge potential for industrial and environmental biotechnology, owing to its remarkable metabolic versatility ability sustain difficult redox reactions operational stresses, among other attractive characteristics. A wealth genetic in silico tools have been developed enable the unravelling physiology improvement performance. However, rise this microbe as promising platform biotechnological applications has resulted diversification methods rather than standardization convergence. As consequence, multiple same purpose generated, whilst most them not embraced by scientific community, which led compartmentalization inefficient use resources. Inspired substantial increase popularity P. putida, we aim herein bring together assess all currently available (wet dry) synthetic biology specific microbe, focusing on last 5 years. We provide information principles, functionality, advantages limitations, with special focus their engineering. Additionally, compare tool portfolio those bacterial discuss future directions development. Therefore, review intended reference guide experts new 'users' chassis.
Language: Английский
Citations
77
Metabolic Engineering, Journal Year: 2021, Volume and Issue: 67, P. 373 - 386
Published: July 31, 2021
Pseudomonas putida is evolutionarily endowed with features relevant for bioproduction, especially under harsh operating conditions. The rich metabolic versatility of this species, however, comes at the price limited formation acetyl-coenzyme A (CoA) from sugar substrates. Since acetyl-CoA a key precursor number added-value products, in work we deployed an silico-guided rewiring program central carbon metabolism upgrading P. as host acetyl-CoA-dependent bioproduction. An updated kinetic model, integrating fluxomics and metabolomics datasets addition to manually-curated information enzyme mechanisms, identified targets that would lead increased levels. Based on these predictions, set plasmids based clustered regularly interspaced short palindromic repeats (CRISPR) dead CRISPR-associated protein 9 (dCas9) was constructed silence genes by CRISPR interference (CRISPRi). Dynamic reduction gene expression two (gltA, encoding citrate synthase, essential accA gene, subunit carboxylase complex) mediated 8-fold increase content rewired putida. Poly(3-hydroxybutyrate) (PHB) adopted proxy availability, synthetic pathways were engineered biopolymer accumulation. By including cell morphology extra target CRISPRi approach, fully strains programmed PHB accumulation had 5-fold titers bioreactor cultures using glucose. Thus, strategy described herein allowed rationally redirecting fluxes towards product biosynthesis-especially when deletion not option.
Language: Английский
Citations
65
Current Opinion in Biotechnology, Journal Year: 2022, Volume and Issue: 75, P. 102696 - 102696
Published: Feb. 11, 2022
Language: Английский
Citations
49
Metabolic Engineering, Journal Year: 2022, Volume and Issue: 72, P. 297 - 310
Published: April 27, 2022
Bacterial gene expression is orchestrated by numerous transcription factors (TFs). Elucidating how regulated fundamental to understanding bacterial physiology and engineering it for practical use. In this study, a machine-learning approach was applied uncover the genome-scale transcriptional regulatory network (TRN) in Pseudomonas putida KT2440, an important organism bioproduction. We performed independent component analysis of compendium 321 high-quality profiles, which were previously published or newly generated study. identified 84 groups independently modulated genes (iModulons) that explain 75.7% total variance compendium. With these iModulons, we (i) expand our functions 39 iModulon associated TFs (e.g., HexR, Zur) systematic comparison with 1993 reported TF-gene interactions; (ii) outline changes after transition from exponential growth stationary phases; (iii) capture group required utilizing diverse carbon sources increased response slower rates; (iv) unveil multiple evolutionary strategies transcriptome reallocation achieve fast (v) define osmotic stimulon, includes Type VI secretion system, as coordination activity changes. Taken together, study provides first quantitative TRN P. KT2440 basis comprehensive its complex variety physiological states.
Language: Английский
Citations
48
Biotechnology Advances, Journal Year: 2022, Volume and Issue: 62, P. 108076 - 108076
Published: Dec. 10, 2022
Language: Английский
Citations
46