Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS

Detalhes bibliográficos
Autor(a) principal: Cuadrat, Rafael R. C.
Data de Publicação: 2015
Outros Autores: Cury, Juliano C., Dávila, Alberto M. R.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/13842
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil / Leibniz-Institute of Freshwater Ecology and Inland Fisheries. Stechlin, Germany / Berlin Center for Genomics in Biodiversity Research. Berlin, Germany.
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spelling Cuadrat, Rafael R. C.Cury, Juliano C.Dávila, Alberto M. R.2016-04-18T13:08:57Z2016-04-18T13:08:57Z2015CUADRAT, Rafael R. C.; CURY, Juliano C.; DÁVILA, Alberto M. R. Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS. International Journal of Molecular Sciences, v.16, p.28285-28295, 2015.1661-6596https://www.arca.fiocruz.br/handle/icict/1384210.3390/ijms1612261011422-0067engMDPIMeio ambiente costeiroPKSNRPSMetagenomicsEnvironmental genomicsUpwellingCoastal environmentMetagenômicaSurgênciaGenômica ambientalMetagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPSinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil / Leibniz-Institute of Freshwater Ecology and Inland Fisheries. Stechlin, Germany / Berlin Center for Genomics in Biodiversity Research. Berlin, Germany.Universidade Federal de São João del-Rei. Laboratório de Microbiologia Molecular. Sete Lagoas, MG, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil.Marine environments harbor a wide range of microorganisms from the three domains of life. These microorganisms have great potential to enable discovery of new enzymes and bioactive compounds for industrial use. However, only ~1% of microorganisms from the environment can currently be identified through cultured isolates, limiting the discovery of new compounds. To overcome this limitation, a metagenomics approach has been widely adopted for biodiversity studies on samples from marine environments. In this study, we screened metagenomes in order to estimate the potential for new natural compound synthesis mediated by diversity in the Polyketide Synthase (PKS) and Nonribosomal Peptide Synthetase (NRPS) genes. The samples were collected from the Praia dos Anjos (Angel’s Beach) surface water—Arraial do Cabo (Rio de Janeiro state, Brazil), an environment affected by upwelling. In order to evaluate the potential for screening natural products in Arraial do Cabo samples, we used KS (keto-synthase) and C (condensation) domains (from PKS and NRPS, respectively) to build Hidden Markov Models (HMM) models. From both samples, a total of 84 KS and 46 C novel domain sequences were obtained, showing the potential of this environment for the discovery of new genes of biotechnological interest. These domains were classified by phylogenetic analysis and this was the first study conducted to screen PKS and NRPS genes in an upwelling affected sample.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/13842/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALrafael_cuadrat_etal_IOC_2015.pdfrafael_cuadrat_etal_IOC_2015.pdfapplication/pdf1349645https://www.arca.fiocruz.br/bitstream/icict/13842/2/rafael_cuadrat_etal_IOC_2015.pdf1e9e4c31b62514366f2804feff5831d0MD52TEXTrafael_cuadrat_etal_IOC_2015.pdf.txtrafael_cuadrat_etal_IOC_2015.pdf.txtExtracted texttext/plain41012https://www.arca.fiocruz.br/bitstream/icict/13842/3/rafael_cuadrat_etal_IOC_2015.pdf.txt8eeebbf49e2cff28766e0d81ca6d4ad9MD53icict/138422022-06-24 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dc.title.pt_BR.fl_str_mv Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
title Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
spellingShingle Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
Cuadrat, Rafael R. C.
Meio ambiente costeiro
PKS
NRPS
Metagenomics
Environmental genomics
Upwelling
Coastal environment
Metagenômica
Surgência
Genômica ambiental
title_short Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
title_full Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
title_fullStr Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
title_full_unstemmed Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
title_sort Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS
author Cuadrat, Rafael R. C.
author_facet Cuadrat, Rafael R. C.
Cury, Juliano C.
Dávila, Alberto M. R.
author_role author
author2 Cury, Juliano C.
Dávila, Alberto M. R.
author2_role author
author
dc.contributor.author.fl_str_mv Cuadrat, Rafael R. C.
Cury, Juliano C.
Dávila, Alberto M. R.
dc.subject.other.pt_BR.fl_str_mv Meio ambiente costeiro
topic Meio ambiente costeiro
PKS
NRPS
Metagenomics
Environmental genomics
Upwelling
Coastal environment
Metagenômica
Surgência
Genômica ambiental
dc.subject.en.pt_BR.fl_str_mv PKS
NRPS
Metagenomics
Environmental genomics
Upwelling
Coastal environment
dc.subject.decs.pt_BR.fl_str_mv Metagenômica
Surgência
Genômica ambiental
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil / Leibniz-Institute of Freshwater Ecology and Inland Fisheries. Stechlin, Germany / Berlin Center for Genomics in Biodiversity Research. Berlin, Germany.
publishDate 2015
dc.date.issued.fl_str_mv 2015
dc.date.accessioned.fl_str_mv 2016-04-18T13:08:57Z
dc.date.available.fl_str_mv 2016-04-18T13:08:57Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv CUADRAT, Rafael R. C.; CURY, Juliano C.; DÁVILA, Alberto M. R. Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS. International Journal of Molecular Sciences, v.16, p.28285-28295, 2015.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/13842
dc.identifier.issn.none.fl_str_mv 1661-6596
dc.identifier.doi.none.fl_str_mv 10.3390/ijms161226101
dc.identifier.eissn.none.fl_str_mv 1422-0067
identifier_str_mv CUADRAT, Rafael R. C.; CURY, Juliano C.; DÁVILA, Alberto M. R. Metagenomic Analysis of Upwelling-Affected Brazilian Coastal Seawater Reveals Sequence Domains of Type I PKS and Modular NRPS. International Journal of Molecular Sciences, v.16, p.28285-28295, 2015.
1661-6596
10.3390/ijms161226101
1422-0067
url https://www.arca.fiocruz.br/handle/icict/13842
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
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instname_str Fundação Oswaldo Cruz (FIOCRUZ)
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collection Repositório Institucional da FIOCRUZ (ARCA)
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