1
|
Prisco SZ, Kazmirczak F, Thenappan T, Prins KW. Ingenuity pathway analysis of the human cardiac cell Atlas identifies differences between right and left ventricular cardiomyocytes. Pulm Circ 2022; 12:e12011. [PMID: 35506094 PMCID: PMC9052994 DOI: 10.1002/pul2.12011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Revised: 09/13/2021] [Accepted: 11/12/2021] [Indexed: 11/09/2022] Open
Affiliation(s)
- Sasha Z. Prisco
- Department of Medicine, Cardiovascular Division, Lillehei Heart Institute University of Minnesota Minneapolis Minnesota USA
| | - Felipe Kazmirczak
- Department of Medicine, Cardiovascular Division, Lillehei Heart Institute University of Minnesota Minneapolis Minnesota USA
| | - Thenappan Thenappan
- Department of Medicine, Cardiovascular Division, Lillehei Heart Institute University of Minnesota Minneapolis Minnesota USA
| | - Kurt W. Prins
- Department of Medicine, Cardiovascular Division, Lillehei Heart Institute University of Minnesota Minneapolis Minnesota USA
| |
Collapse
|
2
|
Herrera‐Gallardo BE, Guzmán‐Gil R, Colín‐Luna JA, García‐Martínez JC, León‐Santiesteban HH, González‐Brambila OM, González‐Brambila MM. Atrazine biodegradation in soil by
Aspergillus niger
. CAN J CHEM ENG 2021. [DOI: 10.1002/cjce.23924] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
| | - Raymundo Guzmán‐Gil
- Departamento de Energía Universidad Autónoma Metropolitana, Unidad Azcapotzalco Ciudad de México Mexico
| | - José A. Colín‐Luna
- Departamento de Energía Universidad Autónoma Metropolitana, Unidad Azcapotzalco Ciudad de México Mexico
| | - Julio C. García‐Martínez
- Departamento de Energía Universidad Autónoma Metropolitana, Unidad Azcapotzalco Ciudad de México Mexico
| | | | | | | |
Collapse
|
3
|
Milaković M, Križanović S, Petrić I, Šimatović A, González-Plaza JJ, Gužvinec M, Andrašević AT, Pole L, Fuka MM, Udiković-Kolić N. Characterization of macrolide resistance in bacteria isolated from macrolide-polluted and unpolluted river sediments and clinical sources in Croatia. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 749:142357. [PMID: 33370905 DOI: 10.1016/j.scitotenv.2020.142357] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2020] [Revised: 09/10/2020] [Accepted: 09/10/2020] [Indexed: 06/12/2023]
Abstract
Environments polluted with excessively high levels of antibiotics released from manufacturing sites can act as a source of transferable antibiotic resistance (AR) genes to human commensal and pathogenic bacteria. The aim of this study was to evaluate AR of bacteria isolated from the Sava river sediments (Croatia) at the discharge site of effluents from azithromycin production compared to those from the upstream site and isolates collected in Croatian hospitals. A total of 228 environmental strains of azithromycin-resistant bacteria were isolated and identified, with 124 from the discharge site and 104 from the upstream site. In addition, a total of 90 clinical, azithromycin-resistant streptococcal and staphylococcal isolates obtained from the Croatian Reference Center for Antibiotic Resistance Surveillance were analyzed. PCR screening of isolates on 11 relevant macrolide-resistance genes (MRGs) showed that discharge isolates had greater detection frequencies for 4 gene targets (ermB, msrE, mphE and ermF) compared to upstream isolates. Among clinical isolates, the most frequently detected gene was ermB, followed by msrD, mefE and mefC. The discharge site demonstrated a greater abundance of isolates with co-occurrence of two different MRGs (predominantly msrE-mphE) than the upstream site, but a lower abundance than the clinical sources (most commonly msrD-mefE). The simultaneous presence of three or even four MRGs was specific for the discharge and clinical isolates, but not for the upstream isolates. When MRG results were sorted by gene mechanism, the ribosomal methylation (erm) and protection genes (msr) were the most frequently detected among both the discharge and the clinical isolates. Following sequencing, high nucleotide sequence similarity was observed between ermB in the discharge isolates and the clinical streptococcal isolates, suggesting a possible transfer of the ermB gene between bacteria of clinical and environmental origin. Our study highlights the importance of environmental bacterial populations as reservoirs for clinically relevant macrolide-resistance genes.
Collapse
Affiliation(s)
- Milena Milaković
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia
| | - Stela Križanović
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia
| | - Ines Petrić
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia
| | - Ana Šimatović
- Division of Physical Chemistry, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia
| | - Juan J González-Plaza
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia
| | - Marija Gužvinec
- Department of Clinical Microbiology, University Hospital for Infectious Diseases, Mirogojska 8, 10 000 Zagreb, Croatia
| | - Arjana Tambić Andrašević
- Department of Clinical Microbiology, University Hospital for Infectious Diseases, Mirogojska 8, 10 000 Zagreb, Croatia
| | - Lucia Pole
- Department of Microbiology, University of Zagreb, Faculty of Agriculture, Svetošimunska 25, 10 000 Zagreb, Croatia
| | - Mirna Mrkonjić Fuka
- Department of Microbiology, University of Zagreb, Faculty of Agriculture, Svetošimunska 25, 10 000 Zagreb, Croatia
| | - Nikolina Udiković-Kolić
- Division for Marine and Environmental Research, Ruđer Bošković Institute, Bijenička 54, P.O. Box 180, 10 002 Zagreb, Croatia.
| |
Collapse
|
4
|
Fernandes AFT, Wang P, Staley C, Aparecida Silva Moretto J, Miguel Altarugio L, Chagas Campanharo S, Guedes Stehling E, Jay Sadowsky M. Impact of Atrazine Exposure on the Microbial Community Structure in a Brazilian Tropical Latosol Soil. Microbes Environ 2020; 35:ME19143. [PMID: 32269200 PMCID: PMC7308567 DOI: 10.1264/jsme2.me19143] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Accepted: 02/17/2020] [Indexed: 11/12/2022] Open
Abstract
Atrazine is a triazine herbicide that is widely used to control broadleaf weeds. Its widespread use over the last 50 years has led to the potential contamination of soils, groundwater, rivers, and lakes. Its main route of complete degradation is via biological means, which is carried out by soil microbiota using a 6-step pathway. The aim of the present study was to investigate whether application of atrazine to soil changes the soil bacterial community. We used 16S rRNA gene sequencing and qPCR to elucidate the microbial community structure and assess the abundance of the atrazine degradation genes atzA, atzD, and trzN in a Brazilian soil. The results obtained showed that the relative abundance of atzA and trzN, encoding triazine-initiating metabolism in Gram-negative and -positive bacteria, respectively, increased in soil during the first weeks following the application of atrazine. In contrast, the abundance of atzD, encoding cyanuric acid amidohydrolase-the fourth step in the pathway-was not related to the atrazine treatment. Moreover, the overall soil bacterial community showed no significant changes after the application of atrazine. Despite this, we observed increases in the relative abundance of bacterial families in the 4th and 8th weeks following the atrazine treatment, which may have been related to higher copy numbers of atzA and trzN, in part due to the release of nitrogen from the herbicide. The present results revealed that while the application of atrazine may temporarily increase the quantities of the atzA and trzN genes in a Brazilian Red Latosol soil, it does not lead to significant and long-term changes in the bacterial community structure.
Collapse
Affiliation(s)
- Ana Flavia Tonelli Fernandes
- Faculty of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Café Avenue s/n, Ribeirão Preto, SP 14040–903, Brazil
- Biotechnology Institute, University of Minnesota, 1479 Gortner Avenue, 55108 Saint Paul, MN 55108, USA
| | - Ping Wang
- Biotechnology Institute, University of Minnesota, 1479 Gortner Avenue, 55108 Saint Paul, MN 55108, USA
| | - Christopher Staley
- Biotechnology Institute, University of Minnesota, 1479 Gortner Avenue, 55108 Saint Paul, MN 55108, USA
| | - Jéssica Aparecida Silva Moretto
- Faculty of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Café Avenue s/n, Ribeirão Preto, SP 14040–903, Brazil
| | - Lucas Miguel Altarugio
- Department of Soil Science ESALQ, University of São Paulo, 11 Pádua Dias Avenue, Piracicaba, SP 13418–260, Brazil
| | - Sarah Chagas Campanharo
- Faculty of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Café Avenue s/n, Ribeirão Preto, SP 14040–903, Brazil
| | - Eliana Guedes Stehling
- Faculty of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Café Avenue s/n, Ribeirão Preto, SP 14040–903, Brazil
| | - Michael Jay Sadowsky
- Biotechnology Institute, University of Minnesota, 1479 Gortner Avenue, 55108 Saint Paul, MN 55108, USA
- Department of Soil, Water, & Climate, 1991 Upper Buford Circle and Department of Plant and Microbial Biology, 1479 Gortner Avenue—University of Minnesota, Saint Paul, MN 55108, USA
| |
Collapse
|
5
|
Lazarini-Martínez A, Pérez-Valdespino A, Martínez FH, Ordaz NR, Galíndez-Mayer J, Juárez-Ramírez C, Curiel-Quesada E. Assembly of an atrazine catabolic operon and its introduction to Gram-negative hosts for robust and stable degradation of triazine herbicides. FEMS Microbiol Lett 2019; 366:5634263. [DOI: 10.1093/femsle/fnz233] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Accepted: 11/19/2019] [Indexed: 01/24/2023] Open
Abstract
ABSTRACTIn 1995, Pseudomonas sp. ADP, capable of metabolizing atrazine, was isolated from contaminated soil. Genes responsible for atrazine mineralization were found scattered in the 108.8 kb pADP-1 plasmid carried by this strain, some of them flanked by insertion sequences rendering them unstable. The goal of this work was to construct a transcriptional unit containing the atz operon in an easy to transfer manner, to be introduced and inherited stably by Gram-negative bacteria. atz genes were PCR amplified, joined into an operon and inserted onto the mobilizable plasmid pBAMD1–2. Primers were designed to add efficient transcription and translation signals. Plasmid bearing the atz operon was transferred to different Gram-negative strains by conjugation, which resulted in Tn5 transposase-mediated chromosomal insertion of the atz operon. To test the operon activity, atrazine degradation by transposants was assessed both colorimetrically and by high-performance liquid chromatography (HPLC). Transposants mineralized atrazine more efficiently than wild-type Pseudomonas sp. ADP and did not accumulate cyanuric acid. Atrazine degradation was not repressed by simple nitrogen sources. Genes conferring atrazine-mineralizing capacities were stable and had little or null effect on the fitness of different transposants. Introduction of catabolic operons in a stable fashion could be used to develop bacteria with better degrading capabilities useful in bioremediation.
Collapse
Affiliation(s)
- Alfredo Lazarini-Martínez
- Department of Biochemistry, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Prolongación de Carpio y Plan de Ayala S/N, Col. Santo Tomás. CP11340 Mexico City, Mexico
| | - Abigail Pérez-Valdespino
- Department of Biochemistry, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Prolongación de Carpio y Plan de Ayala S/N, Col. Santo Tomás. CP11340 Mexico City, Mexico
| | - Fernando Hernández Martínez
- Department of Biochemistry, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Prolongación de Carpio y Plan de Ayala S/N, Col. Santo Tomás. CP11340 Mexico City, Mexico
| | - Nora Ruiz Ordaz
- Department of Biochemical Engineering, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional. Av. Wilfrido Massieu 399, Unidad Adolfo López Mateos, CP07738 Mexico City, Mexico
| | - Juvencio Galíndez-Mayer
- Department of Biochemical Engineering, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional. Av. Wilfrido Massieu 399, Unidad Adolfo López Mateos, CP07738 Mexico City, Mexico
| | - Cleotilde Juárez-Ramírez
- Department of Biochemical Engineering, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional. Av. Wilfrido Massieu 399, Unidad Adolfo López Mateos, CP07738 Mexico City, Mexico
| | - Everardo Curiel-Quesada
- Department of Biochemistry, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Prolongación de Carpio y Plan de Ayala S/N, Col. Santo Tomás. CP11340 Mexico City, Mexico
| |
Collapse
|
6
|
Jiang C, Lu YC, Xu JY, Song Y, Song Y, Zhang SH, Ma LY, Lu FF, Wang YK, Yang H. Activity, biomass and composition of microbial communities and their degradation pathways in exposed propazine soil. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2017; 145:398-407. [PMID: 28763756 DOI: 10.1016/j.ecoenv.2017.07.058] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2017] [Revised: 07/22/2017] [Accepted: 07/24/2017] [Indexed: 06/07/2023]
Abstract
Propazine is a s-triazine herbicide widely used for controlling weeds for crop production. Its persistence and contamination in environment nagatively affect crop growth and food safety. Elimination of propazine residues in the environment is critical for safe crop production. This study identified a microbial community able to degrade propazine in a farmland soil. About 94% of the applied propazine was degraded within 11 days of incubation when soil was treated with 10mgkg-1 propazine as the initial concentration. The process was accompanied by increased microbial biomass and activities of soil enzymes. Denaturing gradient gel electrophoresis (DGGE) revealed multiple bacterial strains in the community as well as dynamic change of the composition of microbial community with a reduced microbial diversity (H' from 3.325 to 2.78). Tracking the transcript level of degradative genes AtzB, AtzC and TrzN showed that these genes were induced by propazine and played important roles in the degradation process. The activities of catalase, dehydrogenase and phenol oxidase were stimulated by propazine exposure. Five degradation products (hydroxyl-, methylated-, dimeric-propazine, ammeline and ammelide) were characterized by UPLC-MS2, revealing a biodegradation of propazine in soil. Several novel methylated and dimeric products of propazine were characterized in thepropazine-exposed soil. These data help understand the pathway, detailed mechanism and efficiency of propazine biodegradation in soil under realistic field condition.
Collapse
Affiliation(s)
- Chen Jiang
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China; State & Local Joint Engineering Research Center of Green Pesticide Invention and Application, Nanjing Agricultural University, Nanjing 210095, China
| | - Yi Chen Lu
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China; College of Food Science and Light Industry, Nanjing Tech University, Nanjing 211800, China
| | - Jiang Yan Xu
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Yang Song
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Yue Song
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Shu Hao Zhang
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Li Ya Ma
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Feng Fan Lu
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Ya Kun Wang
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Hong Yang
- Jiangsu Key Laboratory of Pesticide Science, College of Sciences, Nanjing Agricultural University, Nanjing 210095, China; State & Local Joint Engineering Research Center of Green Pesticide Invention and Application, Nanjing Agricultural University, Nanjing 210095, China.
| |
Collapse
|
7
|
Holmsgaard PN, Dealtry S, Dunon V, Heuer H, Hansen LH, Springael D, Smalla K, Riber L, Sørensen SJ. Response of the bacterial community in an on-farm biopurification system, to which diverse pesticides are introduced over an agricultural season. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2017; 229:854-862. [PMID: 28734695 DOI: 10.1016/j.envpol.2017.07.026] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Revised: 07/06/2017] [Accepted: 07/08/2017] [Indexed: 06/07/2023]
Abstract
A biopurification system (BPS) is used on-farm to clean pesticide-contaminated wastewater. Due to high pesticide loads, a BPS represents a hot spot for the proliferation and selection as well as the genetic adaptation of discrete pesticide degrading microorganisms. However, while considerable knowledge exists on the biodegradation of specific pesticides in BPSs, the bacterial community composition of these systems has hardly been explored. In this work, the Shannon diversity, the richness and the composition of the bacterial community within an operational BPS receiving wastewater contaminated with various pesticides was, for the first time, elucidated over the course of an agricultural season, using DGGE profiling and pyrosequencing of 16S rRNA gene fragments amplified from total community DNA. During the agricultural season, an increase in the concentration of pesticides in the BPS was observed along with the detection of significant community changes including a decrease in microbial diversity. Additionally, a significant increase in the relative abundance of Proteobacteria, mainly the Gammaproteobacteria, was found, and OTUs (operational taxonomic units) affiliated to Pseudomonas responded positively during the course of the season. Furthermore, a banding-pattern analysis of 16S rRNA gene-based DGGE fingerprinting, targeting the Alpha- and Betaproteobacteria as well as the Actinobacteria, indicated that the Betaproteobacteria might play an important role. Interestingly, a decrease of Firmicutes and Bacteroidetes was observed, indicating their selective disadvantage in a BPS, to which pesticides have been introduced.
Collapse
Affiliation(s)
- Peter N Holmsgaard
- Section for Microbiology, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen, Denmark
| | - Simone Dealtry
- Julius Kühn-Institut - Federal Research Centre for Cultivated Plants (JKI), Institute for Epidemiology and Pathogen Diagnostics, 38104 Braunschweig, Germany; Civil Engineering Department, Catholic University of Rio de Janeiro, Rua Marquês de São Vicente 225/301-L, Gávea, 22453-900 Rio de Janeiro, RJ, Brazil
| | - Vincent Dunon
- Division of Soil and Water Management, KULeuven, 3001 Leuven, Belgium
| | - Holger Heuer
- Julius Kühn-Institut - Federal Research Centre for Cultivated Plants (JKI), Institute for Epidemiology and Pathogen Diagnostics, 38104 Braunschweig, Germany
| | - Lars H Hansen
- Section for Microbiology, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen, Denmark; Department of Environmental Science, Aarhus University, Frederiksborgvej 399, DK-4000 Roskilde, Denmark
| | - Dirk Springael
- Division of Soil and Water Management, KULeuven, 3001 Leuven, Belgium
| | - Kornelia Smalla
- Julius Kühn-Institut - Federal Research Centre for Cultivated Plants (JKI), Institute for Epidemiology and Pathogen Diagnostics, 38104 Braunschweig, Germany
| | - Leise Riber
- Section for Microbiology, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen, Denmark.
| | - Søren J Sørensen
- Section for Microbiology, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen, Denmark
| |
Collapse
|
8
|
Douglass JF, Radosevich M, Tuovinen OH. Microbial attenuation of atrazine in agricultural soils: Biometer assays, bacterial taxonomic diversity, and catabolic genes. CHEMOSPHERE 2017; 176:352-360. [PMID: 28273542 DOI: 10.1016/j.chemosphere.2017.02.102] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2016] [Revised: 02/13/2017] [Accepted: 02/20/2017] [Indexed: 06/06/2023]
Abstract
The purpose of this study was to examine the potential biomineralization of atrazine and identification of atrazine-degrading bacteria in agricultural soils. Different atrazine application histories of soils impacted the kinetics of biomineralization but not the presence of catabolic genes of two atrazine degradative pathways (Trz and Atz). Biomineralization was based on the measurement of 14CO2 from [U-ring-14C]-atrazine in surface soil (0-7 cm) samples incubated in biometers. Aerobic atrazine biomineralization rate constants (k) varied in the range of 0.004-0.508 d-1 depending on the specific soil sample and glucose amendment. The corresponding k-values for anaerobic biometers ± nitrate, ferrihydrite or sulfate were 0.002-0.360 d-1. Glucose enhancement of atrazine biomineralization was not consistent. Aerobic enrichments from soil samples and in-situ incubated BioSep beads yielded mixed cultures, four of which were characterized by 16S rRNA gene amplification, cloning and sequencing. Twelve pure cultures were isolated from enrichments and they were primarily Arthrobacter spp. (10/12). The presence of eight atrazine catabolic genes representing two degradative pathways was investigated in seven bacterial isolates by PCR amplification and sequencing. Several combinations of atrazine catabolic genes were detected; each contained at least atzBC. A complete set of genes for the Atz pathway was not found among the isolates. Our data indicate that atrazine metabolism involves multiple microorganisms and cooperative pathways diverging from atrazine metabolites.
Collapse
Affiliation(s)
- James F Douglass
- Department of Microbiology, Ohio State University, 484 West 12th Avenue, Columbus, OH 43210, USA
| | - Mark Radosevich
- Biosystems Engineering and Soil Science, University of Tennessee, 2506 E.J. Chapman Drive, Knoxville, TN 37996, USA
| | - Olli H Tuovinen
- Department of Microbiology, Ohio State University, 484 West 12th Avenue, Columbus, OH 43210, USA.
| |
Collapse
|
9
|
Yale RL, Sapp M, Sinclair CJ, Moir JWB. Microbial changes linked to the accelerated degradation of the herbicide atrazine in a range of temperate soils. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:7359-7374. [PMID: 28108915 PMCID: PMC5383679 DOI: 10.1007/s11356-017-8377-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2016] [Accepted: 01/03/2017] [Indexed: 05/11/2023]
Abstract
Accelerated degradation is the increased breakdown of a pesticide upon its repeated application, which has consequences for the environmental fate of pesticides. The herbicide atrazine was repeatedly applied to soils previously untreated with s-triazines for >5 years. A single application of atrazine, at an agriculturally relevant concentration, was sufficient to induce its rapid dissipation. Soils, with a range of physico-chemical properties and agricultural histories, showed similar degradation kinetics, with the half-life of atrazine decreasing from an average of 25 days after the first application to <2 days after the second. A mathematical model was developed to fit the atrazine-degrading kinetics, which incorporated the exponential growth of atrazine-degrading organisms. Despite the similar rates of degradation, the repertoire of atrazine-degrading genes varied between soils. Only a small portion of the bacterial community had the capacity for atrazine degradation. Overall, the microbial community was not significantly affected by atrazine treatment. One soil, characterised by low pH, did not exhibit accelerated degradation, and atrazine-degrading genes were not detected. Neutralisation of this soil restored accelerated degradation and the atrazine-degrading genes became detectable. This illustrates the potential for accelerated degradation to manifest when conditions become favourable. Additionally, the occurrence of accelerated degradation under agriculturally relevant concentrations supports the consideration of the phenomena in environmental risk assessments.
Collapse
Affiliation(s)
- R. L. Yale
- CRD, Mallard House, 3 Peasholme Green, York, YO1 7PX UK
- Department of Biology, University of York, Heslington, York, YO10 5DD UK
- FERA Science Ltd., Sand Hutton, York, YO41 1LZ UK
| | - M. Sapp
- FERA Science Ltd., Sand Hutton, York, YO41 1LZ UK
- Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, NRW Germany
| | | | - J. W. B. Moir
- Department of Biology, University of York, Heslington, York, YO10 5DD UK
| |
Collapse
|
10
|
Ancient Evolution and Recent Evolution Converge for the Biodegradation of Cyanuric Acid and Related Triazines. Appl Environ Microbiol 2016; 82:1638-1645. [PMID: 26729715 DOI: 10.1128/aem.03594-15] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Cyanuric acid was likely present on prebiotic Earth, may have been a component of early genetic materials, and is synthesized industrially today on a scale of more than one hundred million pounds per year in the United States. In light of this, it is not surprising that some bacteria and fungi have a metabolic pathway that sequentially hydrolyzes cyanuric acid and its metabolites to release the nitrogen atoms as ammonia to support growth. The initial reaction that opens the s-triazine ring is catalyzed by the unusual enzyme cyanuric acid hydrolase. This enzyme is in a rare protein family that consists of only cyanuric acid hydrolase (CAH) and barbiturase, with barbiturase participating in pyrimidine catabolism by some actinobacterial species. The X-ray structures of two cyanuric acid hydrolase proteins show that this family has a unique protein fold. Phylogenetic, bioinformatic, enzymological, and genetic studies are consistent with the idea that CAH has an ancient protein fold that was rare in microbial populations but is currently becoming more widespread in microbial populations in the wake of anthropogenic synthesis of cyanuric acid and other s-triazine compounds that are metabolized via a cyanuric acid intermediate. The need for the removal of cyanuric acid from swimming pools and spas, where it is used as a disinfectant stabilizer, can potentially be met using an enzyme filtration system. A stable thermophilic cyanuric acid hydrolase from Moorella thermoacetica is being tested for this purpose.
Collapse
|
11
|
Devers-Lamrani M, Pesce S, Rouard N, Martin-Laurent F. Evidence for cooperative mineralization of diuron by Arthrobacter sp. BS2 and Achromobacter sp. SP1 isolated from a mixed culture enriched from diuron exposed environments. CHEMOSPHERE 2014; 117:208-215. [PMID: 25061887 DOI: 10.1016/j.chemosphere.2014.06.080] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2014] [Revised: 06/17/2014] [Accepted: 06/18/2014] [Indexed: 06/03/2023]
Abstract
Diuron was found to be mineralized in buffer strip soil (BS) and in the sediments (SED) of the Morcille river in the Beaujolais vineyard repeatedly treated with this herbicide. Enrichment cultures from BS and SED samples led to the isolation of three bacterial strains transforming diuron to 3,4-dichloroaniline (3,4-DCA) its aniline derivative. 16S rRNA sequencing revealed that they belonged to the genus Arthrobacter (99% of similarity to Arthrobacter globiformis strain K01-01) and were designated as Arthrobacter sp. BS1, BS2 and SED1. Diuron-degrading potential characterized by sequencing of the puhA gene, characterizing the diuron-degradaing potential, revealed 99% similarity to A. globiformis strain D47 puhA gene isolated a decade ago in the UK. These isolates were also able to use chlorotoluron for their growth. Although able to degrade linuron and monolinuron to related aniline derivatives they were not growing on them. Enrichment cultures led to the isolation of a strain from the sediments entirely degrading 3,4-DCA. 16S rRNA sequence analysis showed that it was affiliated to the genus Achromobacter (99% of similarity to Achromobacter sp. CH1) and was designated as Achromobacter sp. SP1. The dcaQ gene encoding enzyme responsible for the transformation of 3,4-DCA to chlorocatechol was found in SP1 with 99% similarity to that of Comamonas testosteroni WDL7. This isolate also used for its growth a range of anilines (3-chloro-4-methyl-aniline, 4-isopropylaniline, 4-chloroaniline, 3-chloroaniline, 4-bromoaniline). The mixed culture composed of BS2 and SP1 strains entirely mineralizes (14)C-diuron to (14)CO2. Diuron-mineralization observed in the enrichment culture could result from the metabolic cooperation between these two populations.
Collapse
Affiliation(s)
| | - Stéphane Pesce
- Irstea, Centre de Lyon-Villeurbanne, UR MALY, 5 rue de la Doua, CS 70077, 69626 Villeurbanne Cedex, France
| | - Nadine Rouard
- INRA, UMR 1347 Agroécologie, 17 rue Sully, BP 86510, 21065 Dijon Cedex, France
| | | |
Collapse
|
12
|
Solomon RDJ, Kumar A, Satheeja Santhi V. Atrazine biodegradation efficiency, metabolite detection, and trzD gene expression by enrichment bacterial cultures from agricultural soil. J Zhejiang Univ Sci B 2014; 14:1162-72. [PMID: 24302716 DOI: 10.1631/jzus.b1300001] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Atrazine is a selective herbicide used in agricultural fields to control the emergence of broadleaf and grassy weeds. The persistence of this herbicide is influenced by the metabolic action of habituated native microorganisms. This study provides information on the occurrence of atrazine mineralizing bacterial strains with faster metabolizing ability. The enrichment cultures were tested for the biodegradation of atrazine by high-performance liquid chromatography (HPLC) and mass spectrometry. Nine cultures JS01.Deg01 to JS09.Deg01 were identified as the degrader of atrazine in the enrichment culture. The three isolates JS04.Deg01, JS07.Deg01, and JS08.Deg01 were identified as efficient atrazine metabolizers. Isolates JS04.Deg01 and JS07.Deg01 produced hydroxyatrazine (HA) N-isopropylammelide and cyanuric acid by dealkylation reaction. The isolate JS08.Deg01 generated deethylatrazine (DEA), deisopropylatrazine (DIA), and cyanuric acid by N-dealkylation in the upper degradation pathway and later it incorporated cyanuric acid in their biomass by the lower degradation pathway. The optimum pH for degrading atrazine by JS08.Deg01 was 7.0 and 16S rDNA phylogenetic typing identified it as Enterobacter cloacae strain JS08.Deg01. The highest atrazine mineralization was observed in case of isolate JS08.Deg01, where an ample amount of trzD mRNA was quantified at 72 h of incubation with atrazine. Atrazine bioremediating isolate E. cloacae strain JS08.Deg01 could be the better environmental remediator of agricultural soils and the crop fields contaminated with atrazine could be the source of the efficient biodegrading microbial strains for the environmental cleanup process.
Collapse
|
13
|
Wan R, Wang Z, Xie S. Dynamics of communities of bacteria and ammonia-oxidizing microorganisms in response to simazine attenuation in agricultural soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2014; 472:502-508. [PMID: 24317158 DOI: 10.1016/j.scitotenv.2013.11.090] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2013] [Revised: 11/11/2013] [Accepted: 11/18/2013] [Indexed: 06/02/2023]
Abstract
Autochthonous microbiota plays a crucial role in natural attenuation of s-triazine herbicides in agricultural soil. Soil microcosm study was carried out to investigate the shift in the structures of soil autochthonous microbial communities and the potential degraders associated with natural simazine attenuation. The relative abundance of soil autochthonous degraders and the structures of microbial communities were assessed using quantitative PCR (q-PCR) and terminal restriction fragment length polymorphism (TRFLP), respectively. Phylogenetic composition of bacterial community was also characterized using clone library analysis. Soil autochthonous microbiota could almost completely clean up simazine (100 mg kg(-1)) in 10 days after herbicide application, indicating a strong self-remediation potential of agricultural soil. A significant increase in the proportion of s-triazine-degrading atzC gene was found in 6 days after simazine amendment. Simazine application could alter the community structures of total bacteria and ammonia-oxidizing archaea (AOA) and bacteria (AOB). AOA were more responsive to simazine application compared to AOB and bacteria. Actinobacteria, Alphaproteobacteria and Gammaproteobacteria were the dominant bacterial groups either at the initial stage after simazine amendment or at the end stage of herbicide biodegradation, but Actinobacteria predominated at the middle stage of biodegradation. Microorganisms from several bacterial genera might be involved in simazine biodegradation. This work could add some new insights on the bioremediation of herbicides contaminated agricultural soils.
Collapse
Affiliation(s)
- Rui Wan
- College of Environmental Sciences and Engineering, The Key Laboratory of Water and Sediment Sciences (Ministry of Education), Peking University, Beijing 100871, China
| | - Zhao Wang
- College of Environmental Sciences and Engineering, The Key Laboratory of Water and Sediment Sciences (Ministry of Education), Peking University, Beijing 100871, China
| | - Shuguang Xie
- College of Environmental Sciences and Engineering, The Key Laboratory of Water and Sediment Sciences (Ministry of Education), Peking University, Beijing 100871, China.
| |
Collapse
|
14
|
Wan R, Yang Y, Sun W, Wang Z, Xie S. Simazine biodegradation and community structures of ammonia-oxidizing microorganisms in bioaugmented soil: impact of ammonia and nitrate nitrogen sources. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2014; 21:3175-3181. [PMID: 24194418 DOI: 10.1007/s11356-013-2268-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2013] [Accepted: 10/21/2013] [Indexed: 06/02/2023]
Abstract
The objective of the present study was to investigate the impact of ammonia and nitrate nitrogen sources on simazine biodegradation by Arthrobacter sp. strain SD1 and the community structures of ammonia-oxidizing archaea (AOA) and bacteria (AOB) in non-agricultural soil. Soil microcosms with different treatments were constructed for herbicide biodegradation test. The relative abundance of the strain SD1 and the structures of AOA and AOB communities were assessed using quantitative PCR (q-PCR) and terminal restriction fragment length polymorphism (TRFLP), respectively. The co-existence of two inorganic nitrogen sources (ammonia and nitrate) had certain impact on simazine dissipation by the strain SD1. Bioaugmentation could induce a shift in the community structures of both AOA and AOB, but AOA were more responsive. Nitrogen application had significant impacts on AOA and AOB communities in bioaugmented soils. Moreover, in non-bioaugmented soil, the community structure of AOA, instead of AOB, could be quickly recovered after herbicide application. This study could add some new insights towards the impacts of nitrogen sources on s-triazine bioremediation and ammonia-oxidizing microorganisms in soil ecosystem.
Collapse
Affiliation(s)
- Rui Wan
- College of Environmental Sciences and Engineering, The Key Laboratory of Water and Sediment Sciences (Ministry of Education), Peking University, Beijing, 100871, China
| | | | | | | | | |
Collapse
|
15
|
Tyler HL, Khalid S, Jackson CR, Moore MT. Determining potential for microbial atrazine degradation in agricultural drainage ditches. JOURNAL OF ENVIRONMENTAL QUALITY 2013; 42:828-834. [PMID: 23673950 DOI: 10.2134/jeq2012.0388] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Passage of agricultural runoff through vegetated drainage ditches has been shown to reduce the amount of pesticides, such as atrazine, exiting out of agricultural watersheds. Previous studies have found that microbial communities in soil from fields treated with atrazine display enhanced rates of atrazine degradation. However, no studies have examined the potential for atrazine degradation in ditches used to drain these lands. The purpose of the current study was to determine the potential of the drainage ditch soil microbial community for atrazine degradation. Soil samples were collected from fields and adjacent drainage ditches and from nonagricultural land with no previous exposure to atrazine. Polymerase chain reaction analysis indicated widespread presence of atrazine degradation genes in fields and ditches. Potential for degradation was determined by following the decrease of atrazine in spiked soil samples over a 28-d incubation period. Greater than 95% of atrazine was degraded in field and ditch soils, whereas only 68.5 ± 1.3% was degraded in the nonagricultural control. Comparison with autoclaved soil samples indicated the primary mechanism of atrazine degradation in agricultural soils was microbially mediated, whereas its breakdown in nonagricultural soil appeared to be the byproduct of abiotic processes. Therefore, microbial communities in drainage ditch sediments have the potential to play a role in atrazine removal from agricultural runoff by breaking down atrazine deposited in sediments and limiting the amount of this herbicide carried into downstream ecosystems.
Collapse
|
16
|
Zhou X, Wang Q, Wang Z, Xie S. Nitrogen impacts on atrazine-degrading Arthrobacter strain and bacterial community structure in soil microcosms. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2013; 20:2484-2491. [PMID: 22961491 DOI: 10.1007/s11356-012-1168-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2012] [Accepted: 08/27/2012] [Indexed: 06/01/2023]
Abstract
The objective of this study was to investigate the impacts of exogenous nitrogen on a microbial community inoculated with the atrazine-degrading Arthrobacter sp. in soil amended with a high concentration of atrazine. Inoculated and uninoculated microcosms for biodegradation tests were constructed. Atrazine degradation capacity of the strain DAT1 and the strain's atrazine-metabolic potential and survival were assessed. The relative abundance of the strain DAT1 and the bacterial community structure in soils were characterized using quantitative PCR in combination with terminal restriction fragment length polymorphism. Atrazine degradation by the strain DAT1 and the strain's atrazine-metabolic potential and survival were not affected by addition of a medium level of nitrate, but these processes were inhibited by addition of a high level of nitrate. Microbial community structure changed in both inoculated and uninoculated microcosms, dependent on the level of added nitrate. Bioaugmentation with the strain DAT1 could be a very efficient biotechnology for bioremediation of soils with high concentrations of atrazine.
Collapse
Affiliation(s)
- Xiaode Zhou
- State Key Laboratory of Ecohydraulic Engineering in Shaanxi, Xi'an University of Technology, Xi'an 710048, China
| | | | | | | |
Collapse
|
17
|
Udiković-Kolić N, Scott C, Martin-Laurent F. Evolution of atrazine-degrading capabilities in the environment. Appl Microbiol Biotechnol 2012; 96:1175-89. [DOI: 10.1007/s00253-012-4495-0] [Citation(s) in RCA: 108] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2012] [Revised: 10/02/2012] [Accepted: 10/03/2012] [Indexed: 11/30/2022]
|
18
|
Liang B, Jiang J, Zhang J, Zhao Y, Li S. Horizontal transfer of dehalogenase genes involved in the catalysis of chlorinated compounds: evidence and ecological role. Crit Rev Microbiol 2011; 38:95-110. [DOI: 10.3109/1040841x.2011.618114] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
|
19
|
Udiković-Kolić N, Devers-Lamrani M, Petrić I, Hršak D, Martin-Laurent F. Evidence for taxonomic and functional drift of an atrazine-degrading culture in response to high atrazine input. Appl Microbiol Biotechnol 2011; 90:1547-54. [DOI: 10.1007/s00253-011-3198-2] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2010] [Revised: 02/28/2011] [Accepted: 03/01/2011] [Indexed: 10/18/2022]
|