Metabolic ability and individual characteristics of an atrazine-degrading consortium DNC5

Zhang, Ying; Cao, Bo; Jiang, Zhao; Dong, Xiaonan; Hu, Miao; Wang, Zhigang

doi:10.1016/j.jhazmat.2012.08.047

Cited by 38 publications

(14 citation statements)

References 12 publications

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“…Microbial metabolism has been described as most influential on atrazine degradation, promoting the development of biodegradation strategies 20 . One of the well-known atrazine degraders is the gram-positive Paenarthrobacter aurescens TC1 [21][22][23][24][25] (previously known as Arthrobacter aurescens TC1), reported to biodegrade atrazine more efficiently than most other known degraders including Pseudomonas sp. ADP 26 .…”

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confidence: 99%

Genome-scale reconstruction of Paenarthrobacter aurescens TC1 metabolic model towards the study of atrazine bioremediation

Ofaim

Zarecki

Porob

et al. 2020

Sci Rep

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Atrazine is an herbicide and a pollutant of great environmental concern that is naturally biodegraded by microbial communities. Paenarthrobacter aurescens TC1 is one of the most studied degraders of this herbicide. Here, we developed a genome scale metabolic model for P. aurescens TC1, iRZ1179, to study the atrazine degradation process at organism level. Constraint based flux balance analysis and time dependent simulations were used to explore the organism's phenotypic landscape. Simulations aimed at designing media optimized for supporting growth and enhancing degradation, by passing the need in strain design via genetic modifications. Growth and degradation simulations were carried with more than 100 compounds consumed by P. aurescens TC1. In vitro validation confirmed the predicted classification of different compounds as efficient, moderate or poor stimulators of growth. Simulations successfully captured previous reports on the use of glucose and phosphate as biostimulators of atrazine degradation, supported by in vitro validation. Model predictions can go beyond supplementing the medium with a single compound and can predict the growth outcomes for higher complexity combinations. Hence, the analysis demonstrates that the exhaustive power of the genome scale metabolic reconstruction allows capturing complexities that are beyond common biochemical expertise and knowledge and further support the importance of computational platforms for the educated design of complex media. The model presented here can potentially serve as a predictive tool towards achieving optimal biodegradation efficiencies and for the development of ecologically friendly solutions for pollutant degradation. Atrazine (2-chloro-4-ethylamino-6-isopropylamino-1,3,5-triazine) is an herbicide employed to control broadleaf and grass mainly in crops such as rice, wheat, maize, and sorghum. It is also a well-known pollutant of great environmental concern. Atrazine has been shown to have negative effects such as DNA damage, gene expression shifts, cancer and endocrine disruption 1,2. Its residues are found in soil samples decades after it was last applied and were shown to chronically leach into local aquifers 3. As such, efforts are being made to limit and monitor its use 4. While atrazine was banned in the European Union and Switzerland since 2003, the United States Environmental Protection Agency still allows its wide use under monitoring 5,6. Areas contaminated with atrazine and other hazardous herbicides are rapidly increasing worldwide introducing a need in remediation approaches. Bioremediation-an environmental bioprocess in which naturally occurring organisms are used for breaking down hazardous substances into less toxic or non-toxic substances-is increasingly acknowledged as a cost-effective feasible alternative for environmental cleaning 7-9. Critical environmental bioprocesses are naturally carried out by bacteria and are related to removal of pollutants from water, soil or air 10. Thus, bacterial bioremediation is widely applied for the ...

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confidence: 99%

Genome-scale reconstruction of Paenarthrobacter aurescens TC1 metabolic model towards the study of atrazine bioremediation

Ofaim

Zarecki

Porob

et al. 2020

Sci Rep

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“…; Zhang et al . ). Several atrazine‐degrading strains were isolated from agricultural soils in France, USA, Canada, China and India.…”

Section: Resultsmentioning

confidence: 97%

“…The pathway for atrazine degradation is well established (Wackett et al 2002;Zhang et al 2012). Several atrazinedegrading strains were isolated from agricultural soils in France, USA, Canada, China and India.…”

Section: Atrazine Biodegradation Analysismentioning

confidence: 99%

Isolation and characterization of atrazine-degrading strain Shewanella sp. YJY4 from cornfield soil

Zhang

Gao

et al. 2016

Lett Appl Microbiol

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A new isolated strain, YJY4 showed high atrazine-degrading ability, being able to degrade 100 mg l(-1) atrazine completely in 36 h. Strain YJY4 was identified as Shewanella sp. and contained atrazine-degrading atzA, atzB and atzC genes. This study examined the degradation mechanism and metabolic ability of this strain and for the bioremediation of contaminated environments, provides more strain selection and determines the strain of atrazine bioremediation potential.

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“…For atrazine degradation, the metabolism might require the combined metabolic activities of more than one organism and some consortia are reported for their metabolic cooperative actions in atrazine degradation [12], [13], [38]. Some reports have showed that the atrazine-degrading pathway may be operating in different atrazine-degrading bacterial communities.…”

Section: Resultsmentioning

confidence: 99%

Isolation and Characterization of Atrazine Mineralizing Bacillus subtilis Strain HB-6

et al. 2014

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Atrazine is a widely used herbicide with great environmental concern due to its high potential to contaminate soil and waters. An atrazine-degrading bacterial strain HB-6 was isolated from industrial wastewater and the 16S rRNA gene sequencing identified HB-6 as a Bacillus subtilis. PCR assays indicated that HB-6 contained atrazine-degrading genes trzN, atzB and atzC. The strain HB-6 was capable of utilizing atrazine and cyanuric acid as a sole nitrogen source for growth and even cleaved the s-triazine ring and mineralized atrazine. The strain demonstrated a very high efficiency of atrazine biodegradation with a broad optimum pH and temperature ranges and could be enhanced by cooperating with other bacteria, suggesting its huge potential for remediation of atrazine-contaminated sites. To our knowledge, there are few Bacillus subtilis strains reported that can mineralize atrazine, therefore, the present work might provide some new insights on atrazine remediation.

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Metabolic ability and individual characteristics of an atrazine-degrading consortium DNC5

Cited by 38 publications

References 12 publications

Genome-scale reconstruction of Paenarthrobacter aurescens TC1 metabolic model towards the study of atrazine bioremediation

Genome-scale reconstruction of Paenarthrobacter aurescens TC1 metabolic model towards the study of atrazine bioremediation

Isolation and characterization of atrazine-degrading strain Shewanella sp. YJY4 from cornfield soil

Isolation and Characterization of Atrazine Mineralizing Bacillus subtilis Strain HB-6

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