Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis

A cultivation-independent approach based on polymerase chain reaction (PCR)-amplified partial small subunit rRNA genes was used to characterize bacterial populations in the surface soil of a commercial pear orchard consisting of different pear cultivars during two consecutive growing seasons. Pyrus...

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Detalles Bibliográficos
Autores: Martínez Alonso, María Ramos, Escolano Sánchez, Jordi, Montesinos Seguí, Emilio, Gaju, Núria
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2010
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10256/7769
Acceso en línea:http://hdl.handle.net/10256/7769
Access Level:acceso abierto
Palabra clave:Perera -- Conreu
Pear -- Breeding
Bacteris
Bacteria
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spelling Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysisMartínez Alonso, María RamosEscolano Sánchez, JordiMontesinos Seguí, EmilioGaju, NúriaPerera -- ConreuPear -- BreedingBacterisBacteriaA cultivation-independent approach based on polymerase chain reaction (PCR)-amplified partial small subunit rRNA genes was used to characterize bacterial populations in the surface soil of a commercial pear orchard consisting of different pear cultivars during two consecutive growing seasons. Pyrus communis L. cvs Blanquilla, Conference, and Williams are among the most widely cultivated cultivars in Europe and account for the majority of pear production in Northeastern Spain. To assess the heterogeneity of the community structure in response to environmental variables and tree phenology, bacterial populations were examined using PCR-denaturing gradient gel electrophoresis (DGGE) followed by cluster analysis of the 16S ribosomal DNA profiles by means of the unweighted pair group method with arithmetic means. Similarity analysis of the band patterns failed to identify characteristic fingerprints associated with the pear cultivars. Both environmentally and biologically based principal-component analyses showed that the microbial communities changed significantly throughout the year depending on temperature and, to a lesser extent, on tree phenology and rainfall. Prominent DGGE bands were excised and sequenced to gain insight into the identities of the predominant bacterial populations. Most DGGE band sequences were related to bacterial phyla, such as Bacteroidetes, Cyanobacteria, Acidobacteria, Proteobacteria, Nitrospirae, and Gemmatimonadetes, previously associated with typical agronomic crop environmentsInstitut d'Estudis Catalans2010info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10256/7769International Microbiology, 2010, vol. 13, núm. 3, p. 123-134Articles publicats (D-EQATA)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)Inglésinfo:eu-repo/semantics/altIdentifier/issn/1139-6709info:eu-repo/semantics/altIdentifier/eissn/1618-1905Attribution-NonCommercial-ShareAlike 3.0 Spainhttp://creativecommons.org/licenses/by-nc-sa/3.0/es/info:eu-repo/semantics/openAccessoai:recercat.cat:10256/77692026-05-29T05:05:01Z
dc.title.none.fl_str_mv Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
title Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
spellingShingle Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
Martínez Alonso, María Ramos
Perera -- Conreu
Pear -- Breeding
Bacteris
Bacteria
title_short Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
title_full Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
title_fullStr Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
title_full_unstemmed Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
title_sort Diversity of the bacterial community in the surface soil of a pear orchard based on 16S rRNA gene analysis
dc.creator.none.fl_str_mv Martínez Alonso, María Ramos
Escolano Sánchez, Jordi
Montesinos Seguí, Emilio
Gaju, Núria
author Martínez Alonso, María Ramos
author_facet Martínez Alonso, María Ramos
Escolano Sánchez, Jordi
Montesinos Seguí, Emilio
Gaju, Núria
author_role author
author2 Escolano Sánchez, Jordi
Montesinos Seguí, Emilio
Gaju, Núria
author2_role author
author
author
dc.subject.none.fl_str_mv Perera -- Conreu
Pear -- Breeding
Bacteris
Bacteria
topic Perera -- Conreu
Pear -- Breeding
Bacteris
Bacteria
description A cultivation-independent approach based on polymerase chain reaction (PCR)-amplified partial small subunit rRNA genes was used to characterize bacterial populations in the surface soil of a commercial pear orchard consisting of different pear cultivars during two consecutive growing seasons. Pyrus communis L. cvs Blanquilla, Conference, and Williams are among the most widely cultivated cultivars in Europe and account for the majority of pear production in Northeastern Spain. To assess the heterogeneity of the community structure in response to environmental variables and tree phenology, bacterial populations were examined using PCR-denaturing gradient gel electrophoresis (DGGE) followed by cluster analysis of the 16S ribosomal DNA profiles by means of the unweighted pair group method with arithmetic means. Similarity analysis of the band patterns failed to identify characteristic fingerprints associated with the pear cultivars. Both environmentally and biologically based principal-component analyses showed that the microbial communities changed significantly throughout the year depending on temperature and, to a lesser extent, on tree phenology and rainfall. Prominent DGGE bands were excised and sequenced to gain insight into the identities of the predominant bacterial populations. Most DGGE band sequences were related to bacterial phyla, such as Bacteroidetes, Cyanobacteria, Acidobacteria, Proteobacteria, Nitrospirae, and Gemmatimonadetes, previously associated with typical agronomic crop environments
publishDate 2010
dc.date.none.fl_str_mv 2010
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10256/7769
url http://hdl.handle.net/10256/7769
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/issn/1139-6709
info:eu-repo/semantics/altIdentifier/eissn/1618-1905
dc.rights.none.fl_str_mv Attribution-NonCommercial-ShareAlike 3.0 Spain
http://creativecommons.org/licenses/by-nc-sa/3.0/es/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv Attribution-NonCommercial-ShareAlike 3.0 Spain
http://creativecommons.org/licenses/by-nc-sa/3.0/es/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Institut d'Estudis Catalans
publisher.none.fl_str_mv Institut d'Estudis Catalans
dc.source.none.fl_str_mv International Microbiology, 2010, vol. 13, núm. 3, p. 123-134
Articles publicats (D-EQATA)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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