Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal

Detalhes bibliográficos
Autor(a) principal: Pereira, Ermelinda
Data de Publicação: 2024
Outros Autores: Choupina, Altino, Patrício, Maria Sameiro
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10198/30463
Resumo: Soil microorganisms play a crucial role in biogeochemical cycles and are key drivers of soil productivity. However, the soil bacterial community associated with the European chestnut (Castanea sativa Mill.) remains poorly characterized. In this sense, this study aimed to characterize the soil bacterial community in young chestnut orchards in Northern Portugal and investigate its dynamics throughout the year. Soil samples were taken in three different periods of the year (spring, summer, and autumn) from two young chestnuts orchards located in Parada (41⁰38'12.53” N; 6⁰42'42.94” W) and Salgueiros (41⁰54'12.73” N; 7⁰01'40.95” W) with elevations of 740 and 1008 m, respectively. Soil DNA was extracted, and the 16S rRNA amplicons were sequenced using the Illumina MiSeq platform. Overall, the bacterial core of chestnut orchards predominantly consisted of four main phyla: Proteobacteria, Acidobacteriota, Actinobacteriota, and Chloroflexi, which were consistently present in both study sites and across all seasons. However, the phylum Chloroflexi, known for its metabolic and phenotypic diversity, exhibited the highest prominence at higher altitudes during autumn. Acidobacteriales and Acidobacteriaceae (Subgroup 1) of Acidobacteriota, as well as Rhizobiales, Sphingomonadaceae, Rickettsiale, and Micropespsaceae, Burkholderiales, and Xanthomonadales of Proteobacteria, as well as Thermoleophila and Acidimicrobia of Actinobacteriota were dominant across all seasons and in both study sites. This study provides valuable insights into the bacterial community associated with chestnut species and contributes to monitoring potential ecosystem changes resulting from climate change.
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spelling Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern PortugalChestnutBacteria16S rRNAIllumina MiSeqSoil microorganisms play a crucial role in biogeochemical cycles and are key drivers of soil productivity. However, the soil bacterial community associated with the European chestnut (Castanea sativa Mill.) remains poorly characterized. In this sense, this study aimed to characterize the soil bacterial community in young chestnut orchards in Northern Portugal and investigate its dynamics throughout the year. Soil samples were taken in three different periods of the year (spring, summer, and autumn) from two young chestnuts orchards located in Parada (41⁰38'12.53” N; 6⁰42'42.94” W) and Salgueiros (41⁰54'12.73” N; 7⁰01'40.95” W) with elevations of 740 and 1008 m, respectively. Soil DNA was extracted, and the 16S rRNA amplicons were sequenced using the Illumina MiSeq platform. Overall, the bacterial core of chestnut orchards predominantly consisted of four main phyla: Proteobacteria, Acidobacteriota, Actinobacteriota, and Chloroflexi, which were consistently present in both study sites and across all seasons. However, the phylum Chloroflexi, known for its metabolic and phenotypic diversity, exhibited the highest prominence at higher altitudes during autumn. Acidobacteriales and Acidobacteriaceae (Subgroup 1) of Acidobacteriota, as well as Rhizobiales, Sphingomonadaceae, Rickettsiale, and Micropespsaceae, Burkholderiales, and Xanthomonadales of Proteobacteria, as well as Thermoleophila and Acidimicrobia of Actinobacteriota were dominant across all seasons and in both study sites. This study provides valuable insights into the bacterial community associated with chestnut species and contributes to monitoring potential ecosystem changes resulting from climate change.Work carried out within the scope of the PDR2020-032060 GO_ClimCast Project, funded by FEADER and the Portuguese State, within the scope of Action 1.1 “Operational Groups” integrated into Measure 1. «Innovation» of PDR2020. The authors are grateful to the Foundation for Science and Technology (FCT, Portugal) for financial support through national funds FCT/MCTES (PIDDAC) to CIMO (UIDB/00690/2020 and UIDP/00690/2020) and SusTEC (LA/P/0007/2020). We would like to extend our thanks to the Bioinformatics Service of NUCLEUS, University of Salamanca, for their assistance in data analysis.ISHSBiblioteca Digital do IPBPereira, ErmelindaChoupina, AltinoPatrício, Maria Sameiro20242025-08-01T00:00:00Z2024-01-01T00:00:00Zconference objectinfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10198/30463engPereira, E.L.; Choupina, A.; Patrício, M.S. (2024). Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal. In VII International Chestnut Symposium. p. 349-356 . ISBN 978-94-62613-99-7978-94-62613-99-710.17660/ActaHortic.2024.1400.42info:eu-repo/semantics/embargoedAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-10-23T01:23:52Zoai:bibliotecadigital.ipb.pt:10198/30463Portal AgregadorONGhttps://www.rcaap.pt/oai/openairemluisa.alvim@gmail.comopendoar:71602024-10-23T01:23:52Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
title Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
spellingShingle Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
Pereira, Ermelinda
Chestnut
Bacteria
16S rRNA
Illumina MiSeq
title_short Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
title_full Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
title_fullStr Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
title_full_unstemmed Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
title_sort Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
author Pereira, Ermelinda
author_facet Pereira, Ermelinda
Choupina, Altino
Patrício, Maria Sameiro
author_role author
author2 Choupina, Altino
Patrício, Maria Sameiro
author2_role author
author
dc.contributor.none.fl_str_mv Biblioteca Digital do IPB
dc.contributor.author.fl_str_mv Pereira, Ermelinda
Choupina, Altino
Patrício, Maria Sameiro
dc.subject.por.fl_str_mv Chestnut
Bacteria
16S rRNA
Illumina MiSeq
topic Chestnut
Bacteria
16S rRNA
Illumina MiSeq
description Soil microorganisms play a crucial role in biogeochemical cycles and are key drivers of soil productivity. However, the soil bacterial community associated with the European chestnut (Castanea sativa Mill.) remains poorly characterized. In this sense, this study aimed to characterize the soil bacterial community in young chestnut orchards in Northern Portugal and investigate its dynamics throughout the year. Soil samples were taken in three different periods of the year (spring, summer, and autumn) from two young chestnuts orchards located in Parada (41⁰38'12.53” N; 6⁰42'42.94” W) and Salgueiros (41⁰54'12.73” N; 7⁰01'40.95” W) with elevations of 740 and 1008 m, respectively. Soil DNA was extracted, and the 16S rRNA amplicons were sequenced using the Illumina MiSeq platform. Overall, the bacterial core of chestnut orchards predominantly consisted of four main phyla: Proteobacteria, Acidobacteriota, Actinobacteriota, and Chloroflexi, which were consistently present in both study sites and across all seasons. However, the phylum Chloroflexi, known for its metabolic and phenotypic diversity, exhibited the highest prominence at higher altitudes during autumn. Acidobacteriales and Acidobacteriaceae (Subgroup 1) of Acidobacteriota, as well as Rhizobiales, Sphingomonadaceae, Rickettsiale, and Micropespsaceae, Burkholderiales, and Xanthomonadales of Proteobacteria, as well as Thermoleophila and Acidimicrobia of Actinobacteriota were dominant across all seasons and in both study sites. This study provides valuable insights into the bacterial community associated with chestnut species and contributes to monitoring potential ecosystem changes resulting from climate change.
publishDate 2024
dc.date.none.fl_str_mv 2024
2024-01-01T00:00:00Z
2025-08-01T00:00:00Z
dc.type.driver.fl_str_mv conference object
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10198/30463
url http://hdl.handle.net/10198/30463
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Pereira, E.L.; Choupina, A.; Patrício, M.S. (2024). Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal. In VII International Chestnut Symposium. p. 349-356 . ISBN 978-94-62613-99-7
978-94-62613-99-7
10.17660/ActaHortic.2024.1400.42
dc.rights.driver.fl_str_mv info:eu-repo/semantics/embargoedAccess
eu_rights_str_mv embargoedAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv ISHS
publisher.none.fl_str_mv ISHS
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
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reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
repository.mail.fl_str_mv mluisa.alvim@gmail.com
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