Metagenomic characterization of soil bacterial communities in young chestnut orchards in northern Portugal
Autor(a) principal: | |
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Data de Publicação: | 2024 |
Outros Autores: | , |
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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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 instacron:RCAAP |
instname_str |
Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
instacron_str |
RCAAP |
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RCAAP |
reponame_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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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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1817548607438454784 |