Industrial biotechnology of Pseudomonas putida: advances and prospects

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

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Integrated approaches in microbial degradation of plastics

Environmental Technology & Innovation, Journal Year: 2019, Volume and Issue: 17, P. 100567 - 100567

Published: Dec. 5, 2019

Language: Английский

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Gene Editing and Systems Biology Tools for Pesticide Bioremediation: A Review

Frontiers in Microbiology, Journal Year: 2019, Volume and Issue: 10

Published: Feb. 13, 2019

Bioremediation is the degradation potential of microorganisms to dissimilate complex chemical compounds from surrounding environment. The genetics and biochemistry biodegradation processes in datasets opened way systems biology. Systemic biology aid study interacting parts involved system. significant keys system are network, computational biology, omics approaches. Biodegradation network consists all databases which assisting deterioration for bioremediation processes. This review deciphers bio-degradation i.e., (UM-BBD, PAN, PTID etc.) aiding processes, multi approaches like metagenomics, genomics, transcriptomics, proteomics metabolomics efficient functional gene mining their validation experiments. Besides, present also describes editing tools CRISPR Cas, TALEN ZFNs can possibly make design microbe with interest particular recalcitrant improved bioremediation.

Language: Английский

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Four priority areas to advance invasion science in the face of rapid environmental change

Environmental Reviews, Journal Year: 2020, Volume and Issue: 29(2), P. 119 - 141

Published: Dec. 7, 2020

Unprecedented rates of introduction and spread non-native species pose burgeoning challenges to biodiversity, natural resource management, regional economies, human health. Current biosecurity efforts are failing keep pace with globalization, revealing critical gaps in our understanding response invasions. Here, we identify four priority areas advance invasion science the face rapid global environmental change. First, should strive develop a more comprehensive framework for predicting how behavior, abundance, interspecific interactions vary relation conditions receiving environments these factors govern ecological impacts invasion. A second is understand potential synergistic effects multiple co-occurring stressors— particularly involving climate change—on establishment impact species. Climate adaptation mitigation strategies will need consider possible consequences promoting species, appropriate management responses be developed. The third address taxonomic impediment. ability detect evaluate risks compromised by growing deficit expertise, which cannot adequately compensated new molecular technologies alone. Management become increasingly challenging unless academia, industry, governments train employ personnel taxonomy systematics. Fourth, recommend that internationally cooperative bridgehead dispersal networks, organisms tend invade regions from locations where they have already established. Cooperation among countries eradicate or control established yield greater benefit than independent attempts individual exclude arriving establishing.

Language: Английский

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Remediation techniques for elimination of heavy metal pollutants from soil: A review

Environmental Research, Journal Year: 2022, Volume and Issue: 214, P. 113918 - 113918

Published: Aug. 1, 2022

Language: Английский

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Bioremediation of lignin derivatives and phenolics in wastewater with lignin modifying enzymes: Status, opportunities and challenges

The Science of The Total Environment, Journal Year: 2021, Volume and Issue: 777, P. 145988 - 145988

Published: Feb. 20, 2021

Lignin modifying enzymes from fungi and bacteria are potential biocatalysts for sustainable mitigation of different potentially toxic pollutants in wastewater. Notably, the paper pulp industry generates enormous amounts wastewater containing high complex lignin-derived chlorinated phenolics sulfonated pollutants. The presence these compounds is a critical issue environmental toxicological perspectives. Some chloro-phenols harmful to environment human health, as they exert carcinogenic, mutagenic, cytotoxic, endocrine-disrupting effects. In order address most urgent concerns, use oxidative lignin bioremediation has come into focus. These catalyze modification phenolic non-phenolic substances, include laccase range peroxidases, specifically peroxidase (LiP), manganese (MnP), versatile (VP), dye-decolorizing (DyP). this review, we explore key pollutant-generating steps processing, summarize recently reported effects industrial compounds, especially pollutants, outline approaches pollutant industry, emphasizing catalytic regard. We highlight other emerging biotechnical approaches, including phytobioremediation, bioaugmentation, Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-based technology, protein engineering, degradation pathways prediction, that currently gathering momentum Finally, current research needs options maximizing biobased biocatalytic

Language: Английский

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Pathways to cellular supremacy in biocomputing

Nature Communications, Journal Year: 2019, Volume and Issue: 10(1)

Published: Nov. 20, 2019

Abstract Synthetic biology uses living cells as the substrate for performing human-defined computations. Many current implementations of cellular computing are based on “genetic circuit” metaphor, an approximation operation silicon-based computers. Although this conceptual mapping has been relatively successful, we argue that it fundamentally limits types computation may be engineered inside cell, and fails to exploit rich diverse functionality available in natural systems. We propose notion “cellular supremacy” focus attention domains which biocomputing might offer superior performance over traditional consider potential pathways toward supremacy, suggest application areas found.

Language: Английский

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Tandem chemical deconstruction and biological upcycling of poly(ethylene terephthalate) to β-ketoadipic acid by Pseudomonas putida KT2440

Metabolic Engineering, Journal Year: 2021, Volume and Issue: 67, P. 250 - 261

Published: July 12, 2021

Poly(ethylene terephthalate) (PET) is the most abundantly consumed synthetic polyester and accordingly a major source of plastic waste. The development chemocatalytic approaches for PET depolymerization to monomers offers new options open-loop upcycling PET, which can leverage biological transformations higher-value products. To that end, here we perform four sequential metabolic engineering efforts in Pseudomonas putida KT2440 enable conversion glycolysis products via: (i) ethylene glycol utilization by constitutive expression native genes, (ii) terephthalate (TPA) catabolism tphA2IIA3IIBIIA1II from Comamonas tpaK Rhodococcus jostii, (iii) bis(2-hydroxyethyl) (BHET) hydrolysis TPA PETase MHETase Ideonella sakaiensis, (iv) BHET performance-advantaged bioproduct, β-ketoadipic acid (βKA) deletion pcaIJ. Using this strain, demonstrate production 15.1 g/L βKA at 76% molar yield bioreactors catalytically depolymerized βKA. Overall, work highlights potential tandem catalytic deconstruction as means upcycle waste PET.

Language: Английский

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Microbial Degradation of Naphthalene and Substituted Naphthalenes: Metabolic Diversity and Genomic Insight for Bioremediation

Frontiers in Bioengineering and Biotechnology, Journal Year: 2021, Volume and Issue: 9

Published: March 9, 2021

Low molecular weight polycyclic aromatic hydrocarbons (PAHs) like naphthalene and substituted naphthalenes (methylnaphthalene, naphthoic acids, 1-naphthyl N -methylcarbamate, etc.) are used in various industries exhibit genotoxic, mutagenic, and/or carcinogenic effects on living organisms. These synthetic organic compounds (SOCs) or xenobiotics considered as priority pollutants that pose a critical environmental public health concern worldwide. The extent of anthropogenic activities emissions from coal gasification, petroleum refining, motor vehicle exhaust, agricultural applications determine the concentration, fate, transport these ubiquitous recalcitrant compounds. Besides physicochemical methods for cleanup/removal, green eco-friendly technology bioremediation, using microbes with ability to degrade SOCs completely convert non-toxic by-products, has been safe, cost-effective, promising alternative. Various bacterial species soil flora belonging Proteobacteria ( Pseudomonas , Pseudoxanthomonas Comamonas Burkholderia Novosphingobium ), Firmicutes Bacillus Paenibacillus Actinobacteria Rhodococcus Arthrobacter ) displayed SOCs. Metabolic studies, genomic metagenomics analyses have aided our understanding catabolic complexity diversity present simple life forms which can be further applied efficient biodegradation. prolonged persistence PAHs led evolution new degradative phenotypes through horizontal gene transfer genetic elements plasmids, transposons, phages, islands, integrative conjugative elements. Systems biology engineering either specific isolates mock community (consortia) might achieve complete, rapid, bioremediation synergistic actions. In this review, we highlight metabolic routes diversity, makeup cellular responses/adaptations by naphthalene-degrading bacteria. This will provide insights into ecological aspects field application strain optimization bioremediation.

Language: Английский

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Reconfiguration of metabolic fluxes in Pseudomonas putida as a response to sub-lethal oxidative stress

The ISME Journal, Journal Year: 2021, Volume and Issue: 15(6), P. 1751 - 1766

Published: Jan. 11, 2021

Abstract As a frequent inhabitant of sites polluted with toxic chemicals, the soil bacterium and plant-root colonizer Pseudomonas putida can tolerate high levels endogenous exogenous oxidative stress. Yet, ultimate reason such phenotypic property remains largely unknown. To shed light on this question, metabolic network-wide routes for NADPH generation—the currency that fuels redox-stress quenching mechanisms—were inspected when P. KT2440 was challenged sub-lethal H2O2 dose as proxy conditions. 13C-tracer experiments, metabolomics, flux analysis, together assessment physiological parameters measurement enzymatic activities, revealed substantial reconfiguration in environments. In particular, periplasmic glucose processing rerouted to cytoplasmic oxidation, cyclic operation pentose phosphate pathway led significant NADPH-forming fluxes, exceeding biosynthetic demands by ~50%. The resulting surplus, turn, fueled glutathione system reduction. These properties not only account tolerance environmental insults—some which end up formation reactive oxygen species—but they also highlight value bacterial host platform bioremediation engineering.

Language: Английский

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