Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion

Biogas, a mix of CO2, CH4 and small proportions of other gases, is a biofuel obtained by anaerobic digestion (AD). Biogas production is often considered a black box process, as the role and dynamics of some of the microorganisms involved remain undisclosed. Previous metataxonomic studies in the fram...

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Autores: Puchol-Royo, Roser, Pascual, Javier, Ortega-Legarreta, Asier, Otto, Pascal, Tideman, Jeroen, Vries, Sjoerd-Jan de, Abendroth, Christian, Tanner, Kristie, Porcar, Manuel, Latorre-Pérez, Adriel
Tipo de documento: artigo
Estado:Versão publicada
Data de publicação:2025
País:España
Recursos:Consejo Superior de Investigaciones Científicas (CSIC)
Repositório:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/413657
Acesso em linha:http://hdl.handle.net/10261/413657
Access Level:Acceso aberto
Palavra-chave:Darwinibacteriales
Wood–Ljungdahl
Biogas
Metagenomics
Methane
Syntrophic acetate oxidising bacteria
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spelling Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestionPuchol-Royo, RoserPascual, JavierOrtega-Legarreta, AsierOtto, PascalTideman, JeroenVries, Sjoerd-Jan deAbendroth, ChristianTanner, KristiePorcar, ManuelLatorre-Pérez, AdrielDarwinibacterialesWood–LjungdahlBiogasMetagenomicsMethaneSyntrophic acetate oxidising bacteriaBiogas, a mix of CO2, CH4 and small proportions of other gases, is a biofuel obtained by anaerobic digestion (AD). Biogas production is often considered a black box process, as the role and dynamics of some of the microorganisms involved remain undisclosed. Previous metataxonomic studies in the frame of the MICRO4BIOGAS project (www.micro4biogas.eu) revealed that MBA03, an uncharacterised and uncultured bacterial taxon belonging to phylum Bacillota, was very prevalent and abundant in industrial full-scale AD plants. Despite the efforts, this taxon has not yet been cultivated, which makes the analysis of its taxonomy, ecology and metabolism even more challenging. In the present work, 30 samples derived from anaerobic digesters were sequenced, allowing the reconstruction of 108 metagenome-assembled genomes (MAGs) potentially belonging to MBA03. According to phylogenetic analyses and genomic similarity indices, MBA03 was classified as a new bacterial order, proposed as 'Candidatus Darwinibacteriales' ord. nov., which includes 'Candidatus Darwinibacter acetoxidans' gen. nov., sp. nov. of 'Candidatus Darwinibacteriaceae' fam. nov., along with 'Candidatus Wallacebacter cryptica' gen. nov., sp. nov. of the 'Candidatus Wallacebacteriaceae' fam. nov. Ecotaxonomic studies determined that AD processes are the main ecological niche of 'Candidatus Darwinibacteriales'. Moreover, metabolic predictions identified Darwinibacteraceae members as putative syntrophic acetate-oxidising bacteria (SAOB), as they encode for the reversed Wood-Ljungdahl (W-L) pathway coupled to the glycine cleavage system. This suggests that Darwinibacteraceae members could work in collaboration with hydrogenotrophic methanogenic archaea to produce methane in industrial biogas plants. Overall, our findings present 'Candidatus Darwinibacteriales' as a potential key player in anaerobic digestion and pave the way towards the complete characterisation of this newly described bacterial taxon, which has not yet been cultured.This work was supported by the European Union (MICRO4BIOGAS project with reference number 101000470 funded by the European Union's Horizon 2020 research and innovation programme).Peer reviewedWiley-VCHEuropean CommissionConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202620262025info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10261/413657reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/EC/H2020/101000470The underlying dataset has been published as supplementary material of the article in the publisher platform at DOI 10.1111/1751-7915.70258The data that support the findings of this study are openly available in BioProject at https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA1023866https://doi.org/10.1111/1751-7915.70258Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/4136572026-05-22T06:33:51Z
dc.title.none.fl_str_mv Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
title Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
spellingShingle Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
Puchol-Royo, Roser
Darwinibacteriales
Wood–Ljungdahl
Biogas
Metagenomics
Methane
Syntrophic acetate oxidising bacteria
title_short Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
title_full Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
title_fullStr Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
title_full_unstemmed Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
title_sort Metagenomic insights into the ecology, taxonomy and metabolic capabilities of ‘Candidatus Darwinibacteriales’ Ord. Nov. (Formerly MBA03), a potential key player in anaerobic digestion
dc.creator.none.fl_str_mv Puchol-Royo, Roser
Pascual, Javier
Ortega-Legarreta, Asier
Otto, Pascal
Tideman, Jeroen
Vries, Sjoerd-Jan de
Abendroth, Christian
Tanner, Kristie
Porcar, Manuel
Latorre-Pérez, Adriel
author Puchol-Royo, Roser
author_facet Puchol-Royo, Roser
Pascual, Javier
Ortega-Legarreta, Asier
Otto, Pascal
Tideman, Jeroen
Vries, Sjoerd-Jan de
Abendroth, Christian
Tanner, Kristie
Porcar, Manuel
Latorre-Pérez, Adriel
author_role author
author2 Pascual, Javier
Ortega-Legarreta, Asier
Otto, Pascal
Tideman, Jeroen
Vries, Sjoerd-Jan de
Abendroth, Christian
Tanner, Kristie
Porcar, Manuel
Latorre-Pérez, Adriel
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv European Commission
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Darwinibacteriales
Wood–Ljungdahl
Biogas
Metagenomics
Methane
Syntrophic acetate oxidising bacteria
topic Darwinibacteriales
Wood–Ljungdahl
Biogas
Metagenomics
Methane
Syntrophic acetate oxidising bacteria
description Biogas, a mix of CO2, CH4 and small proportions of other gases, is a biofuel obtained by anaerobic digestion (AD). Biogas production is often considered a black box process, as the role and dynamics of some of the microorganisms involved remain undisclosed. Previous metataxonomic studies in the frame of the MICRO4BIOGAS project (www.micro4biogas.eu) revealed that MBA03, an uncharacterised and uncultured bacterial taxon belonging to phylum Bacillota, was very prevalent and abundant in industrial full-scale AD plants. Despite the efforts, this taxon has not yet been cultivated, which makes the analysis of its taxonomy, ecology and metabolism even more challenging. In the present work, 30 samples derived from anaerobic digesters were sequenced, allowing the reconstruction of 108 metagenome-assembled genomes (MAGs) potentially belonging to MBA03. According to phylogenetic analyses and genomic similarity indices, MBA03 was classified as a new bacterial order, proposed as 'Candidatus Darwinibacteriales' ord. nov., which includes 'Candidatus Darwinibacter acetoxidans' gen. nov., sp. nov. of 'Candidatus Darwinibacteriaceae' fam. nov., along with 'Candidatus Wallacebacter cryptica' gen. nov., sp. nov. of the 'Candidatus Wallacebacteriaceae' fam. nov. Ecotaxonomic studies determined that AD processes are the main ecological niche of 'Candidatus Darwinibacteriales'. Moreover, metabolic predictions identified Darwinibacteraceae members as putative syntrophic acetate-oxidising bacteria (SAOB), as they encode for the reversed Wood-Ljungdahl (W-L) pathway coupled to the glycine cleavage system. This suggests that Darwinibacteraceae members could work in collaboration with hydrogenotrophic methanogenic archaea to produce methane in industrial biogas plants. Overall, our findings present 'Candidatus Darwinibacteriales' as a potential key player in anaerobic digestion and pave the way towards the complete characterisation of this newly described bacterial taxon, which has not yet been cultured.
publishDate 2025
dc.date.none.fl_str_mv 2025
2026
2026
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/10261/413657
url http://hdl.handle.net/10261/413657
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/EC/H2020/101000470
The underlying dataset has been published as supplementary material of the article in the publisher platform at DOI 10.1111/1751-7915.70258
The data that support the findings of this study are openly available in BioProject at https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA1023866
https://doi.org/10.1111/1751-7915.70258
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Wiley-VCH
publisher.none.fl_str_mv Wiley-VCH
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
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