Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics
Two synthetic bacterial consortia (SC) composed of bacterial strains Sphingobium sp. (AM), Klebsiella aerogenes (B), Pseudomonas sp. (Bc-h and T), Burkholderia sp. (Bk) and Inquilinus limosus (Inq) isolated from a natural phenanthrene (PHN)-degrading consortium (CON) were developed and evaluated as...
| Main Authors: | , , , , , , , , , |
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| Format: | Artículo |
| Language: | Inglés |
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Elsevier
2021
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| Online Access: | http://hdl.handle.net/20.500.12123/8839 https://www.sciencedirect.com/science/article/pii/S2215017X21000047 https://doi.org/10.1016/j.btre.2021.e00588 |
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| author | Macchi, Marianela Festa, Sabrina Nieto, Esteban Irazoqui, Jose Matias Vega-Vela, Nelson E. Junca, Howard Valacco, María Pía Amadio, Ariel Morelli, Irma S. Coppotelli, Bibiana M. |
| author_browse | Amadio, Ariel Coppotelli, Bibiana M. Festa, Sabrina Irazoqui, Jose Matias Junca, Howard Macchi, Marianela Morelli, Irma S. Nieto, Esteban Valacco, María Pía Vega-Vela, Nelson E. |
| author_facet | Macchi, Marianela Festa, Sabrina Nieto, Esteban Irazoqui, Jose Matias Vega-Vela, Nelson E. Junca, Howard Valacco, María Pía Amadio, Ariel Morelli, Irma S. Coppotelli, Bibiana M. |
| author_sort | Macchi, Marianela |
| collection | INTA Digital |
| description | Two synthetic bacterial consortia (SC) composed of bacterial strains Sphingobium sp. (AM), Klebsiella aerogenes (B), Pseudomonas sp. (Bc-h and T), Burkholderia sp. (Bk) and Inquilinus limosus (Inq) isolated from a natural phenanthrene (PHN)-degrading consortium (CON) were developed and evaluated as an alternative approach to PHN biodegradation in bioremediation processes. A metabolic network showing the potential role of strains was reconstructed by in silico study of the six genomes and classification of dioxygenase enzymes using RHObase and AromaDeg databases. Network analysis suggested that AM and Bk were responsible for PHN initial attack, while Inq, B, T and Bc-h would degrade PHN metabolites. The predicted roles were further confirmed by physiological, RT-qPCR and metaproteomic assays. SC-1 with AM as the sole PHN degrader was the most efficient. The ecological roles inferred in this study can be applied to optimize the design of bacterial consortia and tackle the biodegradation of complex environmental pollutants. |
| format | Artículo |
| id | INTA8839 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | INTA88392021-03-08T17:41:13Z Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics Macchi, Marianela Festa, Sabrina Nieto, Esteban Irazoqui, Jose Matias Vega-Vela, Nelson E. Junca, Howard Valacco, María Pía Amadio, Ariel Morelli, Irma S. Coppotelli, Bibiana M. Bacteria Genética Metabolismo Genómica Pseudomonas Genetics Metabolism Genomics Two synthetic bacterial consortia (SC) composed of bacterial strains Sphingobium sp. (AM), Klebsiella aerogenes (B), Pseudomonas sp. (Bc-h and T), Burkholderia sp. (Bk) and Inquilinus limosus (Inq) isolated from a natural phenanthrene (PHN)-degrading consortium (CON) were developed and evaluated as an alternative approach to PHN biodegradation in bioremediation processes. A metabolic network showing the potential role of strains was reconstructed by in silico study of the six genomes and classification of dioxygenase enzymes using RHObase and AromaDeg databases. Network analysis suggested that AM and Bk were responsible for PHN initial attack, while Inq, B, T and Bc-h would degrade PHN metabolites. The predicted roles were further confirmed by physiological, RT-qPCR and metaproteomic assays. SC-1 with AM as the sole PHN degrader was the most efficient. The ecological roles inferred in this study can be applied to optimize the design of bacterial consortia and tackle the biodegradation of complex environmental pollutants. EEA Rafaela Fil: Macchi, Marianela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina Fil: Festa, Sabrina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina Fil: Nieto, Esteban. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina Fil: Irazoqui, Jose Matias. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Rafaela; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: Vega-Vela, Nelson E. Pontificia Universidad Javeriana; Colombia. Universidad de Bogotá Jorge Tadeo Lozano; Colombia Fil: Junca, Howard. Microbiomas Foundation. Division Ecogenomics & Holobionts. RG Microbial Ecology: Metabolism, Genomics & Evolution; Colombia Fil: Valacco, María Pía. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. IQUIBICEN. Consejo Nacional de Investigaciones Científicas y Técnicas. IQUIBICEN; Argentina Fil: Amadio, Ariel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Rafaela; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: Morelli, Irma S. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina. Comisión de Investigaciones Científicas de la Provincia de Buenos Aires; Argentina Fil: Coppotelli, Bibiana M. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina 2021-03-08T17:35:55Z 2021-03-08T17:35:55Z 2021-03 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/8839 https://www.sciencedirect.com/science/article/pii/S2215017X21000047 2215-017X https://doi.org/10.1016/j.btre.2021.e00588 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf Elsevier Biotechnology Reports 29 : e00588 (March 2021) |
| spellingShingle | Bacteria Genética Metabolismo Genómica Pseudomonas Genetics Metabolism Genomics Macchi, Marianela Festa, Sabrina Nieto, Esteban Irazoqui, Jose Matias Vega-Vela, Nelson E. Junca, Howard Valacco, María Pía Amadio, Ariel Morelli, Irma S. Coppotelli, Bibiana M. Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title | Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title_full | Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title_fullStr | Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title_full_unstemmed | Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title_short | Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| title_sort | design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics |
| topic | Bacteria Genética Metabolismo Genómica Pseudomonas Genetics Metabolism Genomics |
| url | http://hdl.handle.net/20.500.12123/8839 https://www.sciencedirect.com/science/article/pii/S2215017X21000047 https://doi.org/10.1016/j.btre.2021.e00588 |
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