Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches

19 páginas.- 9 figuras.- 6 tablas.- 102 referencias.- The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fbioe.2023.1158177/full#supplementary-material

Detalles Bibliográficos
Autores: Lara Moreno, Alba, Merchán, F., Morillo González, Esmeralda, Zampolli, Jessica, Di Gennaro, Patrizia, Villaverde Capellán, J.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2023
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/310624
Acceso en línea:http://hdl.handle.net/10261/310624
Access Level:acceso abierto
Palabra clave:Genes expression
Mineralization
Phenanthrene
Phenanthrene biodegradation pathway
Stenotrophomonas indicatrix CPHE1
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spelling Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approachesLara Moreno, AlbaMerchán, F.Morillo González, EsmeraldaZampolli, JessicaDi Gennaro, PatriziaVillaverde Capellán, J.Genes expressionMineralizationPhenanthrenePhenanthrene biodegradation pathwayStenotrophomonas indicatrix CPHE119 páginas.- 9 figuras.- 6 tablas.- 102 referencias.- The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fbioe.2023.1158177/full#supplementary-materialPhenanthrene (PHE) is a highly toxic compound, widely present in soils. For this reason, it is essential to remove PHE from the environment. Stenotrophomonas indicatrix CPHE1 was isolated from an industrial soil contaminated by polycyclic aromatic hydrocarbons (PAHs) and was sequenced to identify the PHE degrading genes. Dioxygenase, monooxygenase, and dehydrogenase gene products annotated in S. indicatrix CPHE1 genome were clustered into different trees with reference proteins. Moreover, S. indicatrix CPHE1 whole-genome sequences were compared to genes of PAHs-degrading bacteria retrieved from databases and literature. On these basis, reverse transcriptase-polymerase chain reaction (RT-PCR) analysis pointed out that cysteine dioxygenase (cysDO), biphenyl-2,3-diol 1,2-dioxygenase (bphC), and aldolase hydratase (phdG) were expressed only in the presence of PHE. Therefore, different techniques have been designed to improve the PHE mineralization process in five PHE artificially contaminated soils (50 mg kg−1), including biostimulation, adding a nutrient solution (NS), bioaugmentation, inoculating S. indicatrix CPHE1 which was selected for its PHE-degrading genes, and the use of 2-hydroxypropyl-β-cyclodextrin (HPBCD) as a bioavailability enhancer. High percentages of PHE mineralization were achieved for the studied soils. Depending on the soil, different treatments resulted to be successful; in the case of a clay loam soil, the best strategy was the inoculation of S. indicatrix CPHE1 and NS (59.9% mineralized after 120 days). In sandy soils (CR and R soils) the highest percentage of mineralization was achieved in presence of HPBCD and NS (87.3% and 61.3%, respectively). However, the combination of CPHE1 strain, HPBCD, and NS showed to be the most efficient strategy for sandy and sandy loam soils (LL and ALC soils showed 35% and 74.6%, respectively). The results indicated a high degree of correlation between gene expression and the rates of mineralization. Copyright © 2023 AutorsThis work was supported by the Spanish Ministry of Economy and Competitiveness under the research project CTM2017-82472-C2-1-R (AEI/FEDER, UE) and by Junta de Andalucía (Council of Economic Transformation, Industry, Knowledge, and University) under the research project PY20_01069 (FEDER Andalucía PO 2014–2020).Peer reviewedFrontiers MediaMinisterio de Economía y Competitividad (España)Agencia Estatal de Investigación (España)European CommissionJunta de AndalucíaLara Moreno, Alba [0000-0002-5741-7662]Merchán, F. [0000-0003-4375-2627]Morillo González, Esmeralda [0000-0002-4485-2315]Zampolli, Jessica [0000-0002-4110-1401]Di Gennaro, PatriziaVillaverde Capellán, J. [0000-0002-8694-7929]Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202320232023info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/310624reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/CTM2017-82472-C2-1-Rhttp://dx.doi.org/10.3389/fbioe.2023.1158177Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/3106242026-05-22T06:33:51Z
dc.title.none.fl_str_mv Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
title Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
spellingShingle Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
Lara Moreno, Alba
Genes expression
Mineralization
Phenanthrene
Phenanthrene biodegradation pathway
Stenotrophomonas indicatrix CPHE1
title_short Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
title_full Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
title_fullStr Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
title_full_unstemmed Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
title_sort Genome analysis for the identification of genes involved in phenanthrene biodegradation pathway in Stenotrophomonas indicatrix CPHE1. Phenanthrene mineralization in soils assisted by integrated approaches
dc.creator.none.fl_str_mv Lara Moreno, Alba
Merchán, F.
Morillo González, Esmeralda
Zampolli, Jessica
Di Gennaro, Patrizia
Villaverde Capellán, J.
author Lara Moreno, Alba
author_facet Lara Moreno, Alba
Merchán, F.
Morillo González, Esmeralda
Zampolli, Jessica
Di Gennaro, Patrizia
Villaverde Capellán, J.
author_role author
author2 Merchán, F.
Morillo González, Esmeralda
Zampolli, Jessica
Di Gennaro, Patrizia
Villaverde Capellán, J.
author2_role author
author
author
author
author
dc.contributor.none.fl_str_mv Ministerio de Economía y Competitividad (España)
Agencia Estatal de Investigación (España)
European Commission
Junta de Andalucía
Lara Moreno, Alba [0000-0002-5741-7662]
Merchán, F. [0000-0003-4375-2627]
Morillo González, Esmeralda [0000-0002-4485-2315]
Zampolli, Jessica [0000-0002-4110-1401]
Di Gennaro, Patrizia
Villaverde Capellán, J. [0000-0002-8694-7929]
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Genes expression
Mineralization
Phenanthrene
Phenanthrene biodegradation pathway
Stenotrophomonas indicatrix CPHE1
topic Genes expression
Mineralization
Phenanthrene
Phenanthrene biodegradation pathway
Stenotrophomonas indicatrix CPHE1
description 19 páginas.- 9 figuras.- 6 tablas.- 102 referencias.- The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fbioe.2023.1158177/full#supplementary-material
publishDate 2023
dc.date.none.fl_str_mv 2023
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/310624
url http://hdl.handle.net/10261/310624
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv #PLACEHOLDER_PARENT_METADATA_VALUE#
info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/CTM2017-82472-C2-1-R
http://dx.doi.org/10.3389/fbioe.2023.1158177
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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