Degradation of Aromatic Compounds in Pseudomonas: A Systems Biology View

Nogales, Juan; Garcı́a, José Luis; Dı́az, Eduardo

doi:10.1007/978-3-319-50418-6_32

Cited by 4 publications

(4 citation statements)

References 265 publications

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“…While P . putida is known for its ability to degrade aromatics such as toluene, benzoate, and naphthalene [ 15 ], no study thus far has reported the presence of a specific dioxygenase for anthranilate degradation in this strain. To complete this reaction gap in the synthetic pathway, a non-native anthranilate-1,2-dioxygenase reaction (AnthDO) from Acinetobacter sp.…”

Section: Resultsmentioning

confidence: 99%

“…Simply breaking down these azo bonds without further processing releases aromatic amines that are highly toxic and carcinogenic [ 13 ]. Given the ability of many bacterial genera to catabolize aromatic compounds [ 14 , 15 ], by engineering bacterial metabolism, azo dyes and their aromatic amine by-product can be valorized to produce a heterologous compound such as polyketides.…”

Section: Introductionmentioning

confidence: 99%

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Computational analysis into the potential of azo dyes as a feedstock for actinorhodin biosynthesis in Pseudomonas putida

Nayyara,

Permana,

Ermawar

et al. 2024

PLoS ONE

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Fermentation-based biosynthesis in synthetic biology relies heavily on sugar-derived feedstocks, a limited and carbon-intensive commodity. Unconventional feedstocks from less-noble sources such as waste are being utilized to produce high-value chemical products. Azo dyes, a major pollutant commonly discharged by food, textile, and pharmaceutical industries, present significant health and environmental risks. We explore the potential of engineering Pseudomonas putida KT2440 to utilize azo dyes as a substrate to produce a polyketide, actinorhodin (ACT). Using the constrained minimal cut sets (cMCS) approach, we identified metabolic interventions that optimize ACT biosynthesis and compare the growth-coupling solutions attainable on an azo dye compared to glucose. Our results predicted that azo dyes could perform better as a feedstock for ACT biosynthesis than glucose as it allowed growth-coupling regimes that are unfeasible with glucose and generated an 18.28% higher maximum ACT flux. By examining the flux distributions enabled in different carbon sources, we observed that carbon fluxes from aromatic compounds like azo dyes have a unique capability to leverage gluconeogenesis to support both growth and production of secondary metabolites that produce excess NADH. Carbon sources are commonly chosen based on the host organism, availability, cost, and environmental implications. We demonstrated that careful selection of carbon sources is also crucial to ensure that the resulting flux distribution is suitable for further metabolic engineering of microbial cell factories.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Computational analysis into the potential of azo dyes as a feedstock for actinorhodin biosynthesis in Pseudomonas putida

Nayyara,

Permana,

Ermawar

et al. 2024

PLoS ONE

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“…Aerobic degradation of aromatic compounds by Pseudomonas typically proceeds through pathways that converge on catechol, protocatechuate or homogentisate which, depending on the pathway, ultimately generate acetyl‐CoA, pyruvate, succinate or fumarate (Diaz et al., 2013 ; Nogales et al., 2019 , and references therein). The aceE mutant strain could grow when an aromatic substrate such as benzoate was used as the carbon source (Figure 3 ), a compound whose assimilation produces succinyl‐CoA and acetyl‐CoA.…”

Section: Resultsmentioning

confidence: 99%

Inactivation of Pseudomonas putida KT2440 pyruvate dehydrogenase relieves catabolite repression and improves the usefulness of this strain for degrading aromatic compounds

Moreno,

Yuste,

Morales

et al. 2024

Microbial Biotechnology

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Pyruvate dehydrogenase (PDH) catalyses the irreversible decarboxylation of pyruvate to acetyl‐CoA, which feeds the tricarboxylic acid cycle. We investigated how the loss of PDH affects metabolism in Pseudomonas putida. PDH inactivation resulted in a strain unable to utilize compounds whose assimilation converges at pyruvate, including sugars and several amino acids, whereas compounds that generate acetyl‐CoA supported growth. PDH inactivation also resulted in the loss of carbon catabolite repression (CCR), which inhibits the assimilation of non‐preferred compounds in the presence of other preferred compounds. Pseudomonas putida can degrade many aromatic compounds, most of which produce acetyl‐CoA, making it useful for biotransformation and bioremediation. However, the genes involved in these metabolic pathways are often inhibited by CCR when glucose or amino acids are also present. Our results demonstrate that the PDH‐null strain can efficiently degrade aromatic compounds even in the presence of other preferred substrates, which the wild‐type strain does inefficiently, or not at all. As the loss of PDH limits the assimilation of many sugars and amino acids and relieves the CCR, the PDH‐null strain could be useful in biotransformation or bioremediation processes that require growth with mixtures of preferred substrates and aromatic compounds.

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“…Gram-negative bacteria, Pseudomonas, are able to degrade numerous compounds of various compositions and structures [7]. The diversity of genera and species of bacteria with relevant potential for the destruction of hazardous chemical wastes is increased by the search for microbial strains with various physiological and metabolic traits.…”

Section: Introductionmentioning

confidence: 99%

Effects of Aromatic Compounds Degradation on Bacterial Cell Morphology

Gerginova,

Spankulova,

Paunova-Krasteva

et al. 2023

Fermentation

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The aim of the present study was to evaluate in parallel the capacity of three bacterial strains originating from oil-polluted soils to degrade monoaromatic compounds and the alterations in the bacterial cell morphology as a result of the biodegradation. The strain Gordonia sp. 12/5 can grow well in media containing catechol, o-, m-, and p-cresol without significant morphological changes in the cells, as shown by scanning electron microscopy. This implies good adaptation of the strain for growth in hydrocarbon-containing media and indicates it is a proper candidate strain for further development of purification methodologies applicable to ecosystems contaminated with such compounds. The growth of the two Rhodococcus strains in the presence of the above carbon sources is accompanied by changes in cell size characteristic of stress conditions. Nevertheless, their hydrocarbon-degrading capacity should not be neglected for future applications. In summary, the established ability to degrade monoaromatic compounds, in parallel with the morphological changes of the bacterial cells, can be used as a valuable indicator of the strain’s vitality in the presence of tested aromatic compounds and, accordingly, of its applicability for bioremediation purposes.

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Degradation of Aromatic Compounds in Pseudomonas: A Systems Biology View

Cited by 4 publications

References 265 publications

Computational analysis into the potential of azo dyes as a feedstock for actinorhodin biosynthesis in Pseudomonas putida

Computational analysis into the potential of azo dyes as a feedstock for actinorhodin biosynthesis in Pseudomonas putida

Inactivation of Pseudomonas putida KT2440 pyruvate dehydrogenase relieves catabolite repression and improves the usefulness of this strain for degrading aromatic compounds

Effects of Aromatic Compounds Degradation on Bacterial Cell Morphology

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