Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method

Table showing the number of hits per genome of the aromatic ring-hydroxylating dioxygenase alpha subunit from a survey among species-representative GTDB genomes (R07-RS207). The results of two identification methods are compared, one using using HMMER with the Pfam profile PF00848 and a subsequent c...

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Detalles Bibliográficos
Autor: Iriarte Martínez, Jon
Tipo de recurso: conjunto de datos
Fecha de publicación:2025
País:España
Institución:Consorci de Serveis Universitaris de Catalunya (CSUC)
Repositorio:CORA.Repositori de Dades de Recerca
OAI Identifier:oai:dnet:cora.rdr____::5e1178d58eef48ec07eb65b4aa9544f2
Acceso en línea:https://doi.org/10.34810/DATA2017
Access Level:acceso abierto
Palabra clave:Earth and Environmental Sciences
Aromatic Hydrocarbons
Ring Hydroxylating Dioxygenases
Bacteria
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spelling Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per methodIriarte Martínez, JonEarth and Environmental SciencesAromatic HydrocarbonsRing Hydroxylating DioxygenasesBacteriaTable showing the number of hits per genome of the aromatic ring-hydroxylating dioxygenase alpha subunit from a survey among species-representative GTDB genomes (R07-RS207). The results of two identification methods are compared, one using using HMMER with the Pfam profile PF00848 and a subsequent curation step with a phylogenetic placement tool, and the other using hmm profiles related to aromatic ring dioxygenases from the CANT-HYD approach.CORA.Repositori de Dades de RecercaIriate Martínez, Jon2025info:eu-repo/semantics/datasethttps://doi.org/10.34810/DATA2017Parks DH, Chuvochina M, Rinke C, Mussig AJ, Chaumeil P-A, Hugenholtz P. GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. Nucleic Acids Res 2022;50:D785–94. https://doi.org/10.1093/nar/gkab776reponame:CORA.Repositori de Dades de Recercainstname:Consorci de Serveis Universitaris de Catalunya (CSUC)InglésIriarte Martínez, Jon, 2025, "Anvi'o bacterial tree data", https://doi.org/10.34810/data2019, CORA.Repositori de Dades de Recerca<br/> Iriarte Martinez, Jon, 2025, "Taxonomic annotation of unique arhdA hits from Malaspina Vertical Profiles Gene Database (M-GeneDB-VP) ", https://doi.org/10.34810/data2020, CORA.Repositori de Dades de Recerca<br/> Iriarte Martínez, Jon, 2025, "Individual gene abundance, taxonomy, and phyloplace functional annotation of aromatic ring hydroxylating dioxygenase alpha subunit gene hits found in Malaspina database samples", https://doi.org/10.34810/data2021, CORA.Repositori de Dades de Recercainfo:eu-repo/semantics/openAccessCC0 1.0oai:dnet:cora.rdr____::5e1178d58eef48ec07eb65b4aa9544f22026-06-17T12:20:17Z
dc.title.none.fl_str_mv Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
title Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
spellingShingle Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
Iriarte Martínez, Jon
Earth and Environmental Sciences
Aromatic Hydrocarbons
Ring Hydroxylating Dioxygenases
Bacteria
title_short Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
title_full Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
title_fullStr Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
title_full_unstemmed Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
title_sort Bacterial genomes with arhdA hits from GTDB (R07-RS207), genome taxonomy and number of hits per method
dc.creator.none.fl_str_mv Iriarte Martínez, Jon
author Iriarte Martínez, Jon
author_facet Iriarte Martínez, Jon
author_role author
dc.contributor.none.fl_str_mv Iriate Martínez, Jon
dc.subject.none.fl_str_mv Earth and Environmental Sciences
Aromatic Hydrocarbons
Ring Hydroxylating Dioxygenases
Bacteria
topic Earth and Environmental Sciences
Aromatic Hydrocarbons
Ring Hydroxylating Dioxygenases
Bacteria
description Table showing the number of hits per genome of the aromatic ring-hydroxylating dioxygenase alpha subunit from a survey among species-representative GTDB genomes (R07-RS207). The results of two identification methods are compared, one using using HMMER with the Pfam profile PF00848 and a subsequent curation step with a phylogenetic placement tool, and the other using hmm profiles related to aromatic ring dioxygenases from the CANT-HYD approach.
publishDate 2025
dc.date.none.fl_str_mv 2025
dc.type.none.fl_str_mv info:eu-repo/semantics/dataset
format dataset
dc.identifier.none.fl_str_mv https://doi.org/10.34810/DATA2017
url https://doi.org/10.34810/DATA2017
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Iriarte Martínez, Jon, 2025, "Anvi'o bacterial tree data", https://doi.org/10.34810/data2019, CORA.Repositori de Dades de Recerca
<br/> Iriarte Martinez, Jon, 2025, "Taxonomic annotation of unique arhdA hits from Malaspina Vertical Profiles Gene Database (M-GeneDB-VP) ", https://doi.org/10.34810/data2020, CORA.Repositori de Dades de Recerca
<br/> Iriarte Martínez, Jon, 2025, "Individual gene abundance, taxonomy, and phyloplace functional annotation of aromatic ring hydroxylating dioxygenase alpha subunit gene hits found in Malaspina database samples", https://doi.org/10.34810/data2021, CORA.Repositori de Dades de Recerca
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
CC0 1.0
eu_rights_str_mv openAccess
rights_invalid_str_mv CC0 1.0
dc.publisher.none.fl_str_mv CORA.Repositori de Dades de Recerca
publisher.none.fl_str_mv CORA.Repositori de Dades de Recerca
dc.source.none.fl_str_mv Parks DH, Chuvochina M, Rinke C, Mussig AJ, Chaumeil P-A, Hugenholtz P. GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy. Nucleic Acids Res 2022;50:D785–94. https://doi.org/10.1093/nar/gkab776
reponame:CORA.Repositori de Dades de Recerca
instname:Consorci de Serveis Universitaris de Catalunya (CSUC)
instname_str Consorci de Serveis Universitaris de Catalunya (CSUC)
reponame_str CORA.Repositori de Dades de Recerca
collection CORA.Repositori de Dades de Recerca
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,811543

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