De Novo Genome Project for the Aromatic Degrader Rhodococcus pyridinivorans Strain AK37

Kriszt, Balázs; Táncsics, Andräs; Cserháti, Mátyás; Tóth, Ákos; Nagy, István; Horváth, Balázs; Tamura, Tomohiro; Kukolya, József; Szoboszlay, Sándor

doi:10.1128/jb.06603-11

Cited by 17 publications

(6 citation statements)

References 18 publications

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“…Molecules 2020, XX, x FOR PEER REVIEW 5 of 18 microorganisms reflects the fact that other energy sources are more prevalent in the environment. However, especially for the main crude oil ingredients, aliphatic and monoaromatic hydrocarbons [21,22], well-regulated and fine-tuned catabolic pathways are already present, reflecting their longexisting occurrence in the evolution when compared to "new" developed catabolic genes and operons, respectively, encoding for only quite recently applied chemicals such as pesticides (e.g., atrazine) or chlorinated hydrocarbons (e.g., highly chlorinated phenols and biphenyls) [23,24]. There are, however, exceptions to the statement given above-bacterial blooms following oil spills.…”

Section: To Biodegrade or Not To Biodegrade?mentioning

confidence: 99%

Microbial Degradation of Hydrocarbons—Basic Principles for Bioremediation: A Review

et al. 2020

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Crude oil-derived hydrocarbons constitute the largest group of environmental pollutants worldwide. The number of reports concerning their toxicity and emphasizing the ultimate need to remove them from marine and soil environments confirms the unceasing interest of scientists in this field. Among the various techniques used for clean-up actions, bioremediation seems to be the most acceptable and economically justified. Analysis of recent reports regarding unsuccessful bioremediation attempts indicates that there is a need to highlight the fundamental aspects of hydrocarbon microbiology in a clear and concise manner. Therefore, in this review, we would like to elucidate some crucial, but often overlooked, factors. First, the formation of crude oil and abundance of naturally occurring hydrocarbons is presented and compared with bacterial ability to not only survive but also to utilize such compounds as an attractive energy source. Then, the significance of nutrient limitation on biomass growth is underlined on the example of a specially designed experiment and discussed in context of bioremediation efficiency. Next, the formation of aerobic and anaerobic conditions, as well as the role of surfactants for maintaining appropriate C:N:P ratio during initial stages of biodegradation is explained. Finally, a summary of recent scientific reports focused on the removal of hydrocarbon contaminants using bioaugmentation, biostimulation and introduction of surfactants, as well as biosurfactants, is presented. This review was designed to be a comprehensive source of knowledge regarding the unique aspects of hydrocarbon microbiology that may be useful for planning future biodegradation experiments. In addition, it is a starting point for wider debate regarding the limitations and possible improvements of currently employed bioremediation strategies.

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Section: To Biodegrade or Not To Biodegrade?mentioning

confidence: 99%

Microbial Degradation of Hydrocarbons—Basic Principles for Bioremediation: A Review

et al. 2020

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“…Such behavior has been mostly related to changes in the cell wall, that hinders the diffusion of deleterious compounds; or to the metabolic versatility displayed by members of this genus, which result in the partial or total mineralization of the toxic compounds or proper processing for use as carbon and/or energy source (Larkin et al, 2005 ; de Carvalho et al, 2005 , 2009 ; de Carvalho, 2012 ). Although active transport is a well-known tool for microbial strains to deal with toxic compounds (Torres et al, 2011 ; Kriszt et al, 2012 ; Nikaido and Pagès, 2012 ; Segura et al, 2012 ) there are very few works where this method has been clearly identified in Rhodococcus strains despite this possibility is often suggested. Such exceptions include: (a) the selective transport of n-hexadecane by R. erythropolis S+14He (Kim et al, 2002 ).…”

Section: Transport Of Solvents Antibiotics and Biocidesmentioning

confidence: 99%

Membrane transport systems and the biodegradation potential and pathogenicity of genus Rhodococcus

et al. 2014

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The Rhodococcus genus contains species with remarkable ability to tolerate toxic compounds and to degrade a myriad of substrates. These substrates have to cross a distinctive cell envelope dominated by mycolic acids anchored in a scaffold of arabinogalactan covalently attached to the cell wall peptidoglycan, and a cellular membrane with phospholipids, whose composition in fatty acids can be rapidly altered in response to environmental conditions. The hydrophobic nature of the cell envelope facilitates the entrance of hydrophobic molecules but some substrates require active transport systems. Additionally, toxic compounds may also be extruded by energy spending efflux systems. In this review, physiological evidences of the use of transport systems by Rhodococcus strains and genomic studies that corroborate their existence are presented and discussed. The recently released complete genomes of several Rhodococcus strains will be the basis for an in silico correlation analysis between the efflux pumps present in the genome and their role on active transport of substrates. These transport systems will be placed on an integrative perspective of the impact of this important genus on biotechnology and health, ranging from bioremediation to antibiotic and biocide resistance.

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“…Bacterial species belonging to the genus Rhodococcus possess the ability to degrade a large diversity of xenobiotic and organic compounds (aliphatic, aromatic, and alicyclic hydrocarbons) that are usually present in polluted soil or oil spills ( 1 – 3 ). These are also suggested to be involved in the metabolism of steroids and atrazine compounds ( 4 , 5 ). Strains of Rhodococcus pyridinivorans , like SB3094, have the ability to degrade methyl-ethyl-ketone (MEK) and thus have been used for bioaugmentation relating to the treatment of wastewater contamination by petrochemical hydrocarbons ( 6 ).…”

Section: Genome Announcementmentioning

confidence: 99%

Draft Genome Sequence of a Versatile Hydrocarbon-Degrading Bacterium, Rhodococcus pyridinivorans Strain KG-16, Collected from Oil Fields in India

et al. 2016

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De Novo Genome Project for the Aromatic Degrader Rhodococcus pyridinivorans Strain AK37

Cited by 17 publications

References 18 publications

Microbial Degradation of Hydrocarbons—Basic Principles for Bioremediation: A Review

Microbial Degradation of Hydrocarbons—Basic Principles for Bioremediation: A Review

Membrane transport systems and the biodegradation potential and pathogenicity of genus Rhodococcus

Draft Genome Sequence of a Versatile Hydrocarbon-Degrading Bacterium, Rhodococcus pyridinivorans Strain KG-16, Collected from Oil Fields in India

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