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...

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Detalles Bibliográficos
Autores principales: Macchi, Marianela, Festa, Sabrina, Nieto, Esteban Emanuel, Irazoqui, José M., Vega Vela, Nelson E., Junca, Howard, Valacco, María P., Amadio, Ariel F., Morelli, Irma Susana, Coppotelli, Bibiana Marina
Formato: Articulo
Lenguaje:Inglés
Publicado: 2021
Materias:
Química
Synthetic bacterial consortia (SC)
Whole genome sequencing
Metabolic network
RT-qPCR
Shotgun proteomics
Polycyclic aromatic hydrocarbon (PAH)
Acceso en línea:http://sedici.unlp.edu.ar/handle/10915/118814
Aporte de:
SEDICI (UNLP) de Universidad Nacional de La Plata
id I19-R120-10915-118814
record_format dspace
spelling I19-R120-10915-1188142023-09-15T17:21:56Z http://sedici.unlp.edu.ar/handle/10915/118814 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 Emanuel Irazoqui, José M. Vega Vela, Nelson E. Junca, Howard Valacco, María P. Amadio, Ariel F. Morelli, Irma Susana Coppotelli, Bibiana Marina 2021 2021-05-13T18:49:38Z en Química Synthetic bacterial consortia (SC) Whole genome sequencing Metabolic network RT-qPCR Shotgun proteomics Polycyclic aromatic hydrocarbon (PAH) 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. Centro de Investigación y Desarrollo en Fermentaciones Industriales Comisión de Investigaciones Científicas de la provincia de Buenos Aires Articulo Articulo http://creativecommons.org/licenses/by-nc-nd/4.0/ Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) application/pdf
institution Universidad Nacional de La Plata
institution_str I-19
repository_str R-120
collection SEDICI (UNLP)
language Inglés
topic Química
Synthetic bacterial consortia (SC)
Whole genome sequencing
Metabolic network
RT-qPCR
Shotgun proteomics
Polycyclic aromatic hydrocarbon (PAH)
spellingShingle Química
Synthetic bacterial consortia (SC)
Whole genome sequencing
Metabolic network
RT-qPCR
Shotgun proteomics
Polycyclic aromatic hydrocarbon (PAH)
Macchi, Marianela
Festa, Sabrina
Nieto, Esteban Emanuel
Irazoqui, José M.
Vega Vela, Nelson E.
Junca, Howard
Valacco, María P.
Amadio, Ariel F.
Morelli, Irma Susana
Coppotelli, Bibiana Marina
Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics
topic_facet Química
Synthetic bacterial consortia (SC)
Whole genome sequencing
Metabolic network
RT-qPCR
Shotgun proteomics
Polycyclic aromatic hydrocarbon (PAH)
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 Articulo
Articulo
author Macchi, Marianela
Festa, Sabrina
Nieto, Esteban Emanuel
Irazoqui, José M.
Vega Vela, Nelson E.
Junca, Howard
Valacco, María P.
Amadio, Ariel F.
Morelli, Irma Susana
Coppotelli, Bibiana Marina
author_facet Macchi, Marianela
Festa, Sabrina
Nieto, Esteban Emanuel
Irazoqui, José M.
Vega Vela, Nelson E.
Junca, Howard
Valacco, María P.
Amadio, Ariel F.
Morelli, Irma Susana
Coppotelli, Bibiana Marina
author_sort Macchi, Marianela
title 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_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_sort design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics
publishDate 2021
url http://sedici.unlp.edu.ar/handle/10915/118814
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