Mostrar el registro sencillo del ítem
Harnessing the intragenomic variability of rRNA operons to improve differentiation of Vibrio species
dc.contributor.author | Leunda Esnaola, Amaia | |
dc.contributor.author | Bunin, Evgeni | |
dc.contributor.author | Arrufat, Pablo | |
dc.contributor.author | Pearman, Peter Bretton | |
dc.contributor.author | Kaberdin, Vladimir | |
dc.date.accessioned | 2024-05-17T17:22:02Z | |
dc.date.available | 2024-05-17T17:22:02Z | |
dc.date.issued | 2024 | |
dc.identifier.citation | Scientific Reports 14 : (2024) // Article ID 9908 | es_ES |
dc.identifier.issn | 2045-2322 | |
dc.identifier.uri | http://hdl.handle.net/10810/68022 | |
dc.description.abstract | Although the 16S rRNA gene is frequently used as a phylogenetic marker in analysis of environmental DNA, this marker often fails to distinguish closely related species, including those in the genus Vibrio. Here, we investigate whether inclusion and analysis of 23S rRNA sequence can help overcome the intrinsic weaknesses of 16S rRNA analyses for the differentiation of Vibrio species. We construct a maximum likelihood 16S rRNA gene tree to assess the use of this gene to identify clades of Vibrio species. Within the 16S rRNA tree, we identify the putative informative bases responsible for polyphyly, and demonstrate the association of these positions with tree topology. We demonstrate that concatenation of 16S and 23S rRNA genes increases the number of informative nucleotide positions, thereby overcoming ambiguities in 16S rRNA-based phylogenetic reconstructions. Finally, we experimentally demonstrate that this approach considerably improves the differentiation and identification of Vibrio species in environmental samples. | es_ES |
dc.description.sponsorship | This work was supported by IKERBASQUE Basque Foundation for Science (V.R.K and P.B.P) and by awards IT1657-22, (A.L-E. and V.R.K), and IT1487-22 (P.B.P.); pre-doctoral fellowships (PRE_2022_2_0105, A.L-E.; PRE_2022_2_0171, P.A.) from Consejería de Educación, Universidades e Investigación del Gobierno Vasco and Erasmus Mundus Joint Master Degree ECT+ scholarship (EMJMD 2019-1485, E.B.) from the European Union. The study was also supported by awards PID2020-118028GB-I00 (P.B.P.) and TED2021-132109B-C21 (V.R.K. and A.L-E.) from the Ministerio de Ciencia e Innovación of the Spanish Government and the European Union NextGenerationEU/PRTR as well as by BlueAdapt (ID: 101057764) European Union’s Horizon 2020 HORIZON-HLTH-2021-ENVHLTH-02-03 project. | es_ES |
dc.language.iso | eng | es_ES |
dc.publisher | Nature | es_ES |
dc.relation | info:eu-repo/grantAgreement/EC/H2020/101057764 | es_ES |
dc.relation | info:eu-repo/grantAgreement/MICINN/PID2020-118028GB-I00 | es_ES |
dc.relation | info:eu-repo/grantAgreement/MICINN/TED2021-132109B-C21 | es_ES |
dc.rights | info:eu-repo/semantics/openAccess | es_ES |
dc.rights.uri | http://creativecommons.org/licenses/by/3.0/es/ | * |
dc.title | Harnessing the intragenomic variability of rRNA operons to improve differentiation of Vibrio species | es_ES |
dc.type | info:eu-repo/semantics/article | es_ES |
dc.rights.holder | © The Author(s) 2024. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http:// creativecommons. org/ licenses/ by/4. 0/ | es_ES |
dc.rights.holder | Atribución 3.0 España | * |
dc.relation.publisherversion | https://www.nature.com/articles/s41598-024-60505-9 | es_ES |
dc.identifier.doi | 10.1038/s41598-024-60505-9 | |
dc.contributor.funder | European Commission | |
dc.departamentoes | Inmunología, microbiología y parasitología | es_ES |
dc.departamentoeu | Immunologia, mikrobiologia eta parasitologia | es_ES |
Ficheros en el ítem
Este ítem aparece en la(s) siguiente(s) colección(ones)
Excepto si se señala otra cosa, la licencia del ítem se describe como © The Author(s) 2024. This article is licensed under a Creative Commons Attribution 4.0 International
License, which permits use, sharing, adaptation, distribution and reproduction in any medium or
format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the
Creative Commons licence, and indicate if changes were made. The images or other third party material in this
article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the
material. If material is not included in the article’s Creative Commons licence and your intended use is not
permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from
the copyright holder. To view a copy of this licence, visit http:// creativecommons. org/ licenses/ by/4. 0/