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dc.contributor | Facultad de Veterinaria | es_ES |
dc.contributor.author | Barcenilla Canduela, Coral | |
dc.contributor.author | Cobo Díaz, José Francisco | |
dc.contributor.author | De Filippis, Francesca | |
dc.contributor.author | Valentino, Vincenzo | |
dc.contributor.author | Cabrera Rubio, Raúl | |
dc.contributor.author | O’Neil, Dominic | |
dc.contributor.author | Mahler de Sanchez, Luisa | |
dc.contributor.author | Armanini, Federica | |
dc.contributor.author | Carlino, Nicolo | |
dc.contributor.author | Blanco-Míguez, Aitor | |
dc.contributor.author | Pinto, Federica | |
dc.contributor.author | Calvete Torre, Inés | |
dc.contributor.author | Sabater, Carlos | |
dc.contributor.author | Delgado, Susana | |
dc.contributor.author | Ruas Madiedo, Patricia | |
dc.contributor.author | Quijada, Narciso M. | |
dc.contributor.author | Dzieciol, Monika | |
dc.contributor.author | Skírnisdóttir, , Sigurlaug | |
dc.contributor.author | Knobloch, Stephen l | |
dc.contributor.author | Puente, Alba | |
dc.contributor.author | López Fernández, María Mercedes | |
dc.contributor.author | Prieto Maradona, Miguel | |
dc.contributor.author | Marteinsson, Viggó Thór | |
dc.contributor.author | Wagner, Martin | |
dc.contributor.author | Margolles, Abelardo | |
dc.contributor.author | Segata, Nicola | |
dc.contributor.author | Cotter, Paul D. | |
dc.contributor.author | Ercolini, Danilo | |
dc.contributor.author | Álvarez Ordóñez, Avelino | |
dc.contributor.other | Microbiologia | es_ES |
dc.date | 2024-01-24 | |
dc.date.accessioned | 2024-02-07T10:31:48Z | |
dc.date.available | 2024-02-07T10:31:48Z | |
dc.identifier.citation | Barcenilla, C., Cobo-Díaz, J.F., De Filippis, F. et al. Improved sampling and DNA extraction procedures for microbiome analysis in food-processing environments. Nat Protoc (2024). https://doi.org/10.1038/s41596-023-00949-x | es_ES |
dc.identifier.issn | 1754-2189 | |
dc.identifier.issn | 1750-2799 | |
dc.identifier.other | https://www.nature.com/articles/s41596-023-00949-x | es_ES |
dc.identifier.uri | https://hdl.handle.net/10612/18105 | |
dc.description.abstract | [EN] Deep investigation of the microbiome of food-production and foodprocessing environments through whole-metagenome sequencing (WMS) can provide detailed information on the taxonomic composition and functional potential of the microbial communities that inhabit them, with huge potential benefits for environmental monitoring programs. However, certain technical challenges jeopardize the application of WMS technologies with this aim, with the most relevant one being the recovery of a sufficient amount of DNA from the frequently low-biomass samples collected from the equipment, tools and surfaces of food-processing plants. Here, we present the first complete workflow, with optimized DNA-purification methodology, to obtain high-quality WMS sequencing results from samples taken from food-production and food-processing environments and reconstruct metagenome assembled genomes (MAGs). The protocol can yield DNA loads >10 ng in >98% of samples and >500 ng in 57.1% of samples and allows the collection of, on average, 12.2 MAGs per sample (with up to 62 MAGs in a single sample) in ~1 week, including both laboratory and computational work. This markedly improves on results previously obtained in studies performing WMS of processing environments and using other protocols not specifically developed to sequence these types of sample, in which <2 MAGs per sample were obtained. The full protocol has been developed and applied in the framework of the European Union project MASTER (Microbiome applications for sustainable food systems through technologies and enterprise) in 114 food-processing facilities from different production sectors. | es_ES |
dc.language | eng | es_ES |
dc.publisher | Nature Publishing Group | es_ES |
dc.rights | Attribution-NonCommercial-NoDerivatives 4.0 Internacional | * |
dc.rights | Attribution-NonCommercial-NoDerivatives 4.0 Internacional | * |
dc.rights.uri | http://creativecommons.org/licenses/by-nc-nd/4.0/ | * |
dc.subject | Tecnología de los alimentos | es_ES |
dc.subject.other | DNA extraction | es_ES |
dc.subject.other | Microbiome | es_ES |
dc.subject.other | Food processing environments | es_ES |
dc.title | Improved sampling and DNA extraction procedures for microbiome analysis in food-processing environments | es_ES |
dc.type | info:eu-repo/semantics/article | es_ES |
dc.identifier.doi | 10.1038/s41596-023-00949-x | |
dc.description.peerreviewed | SI | es_ES |
dc.relation.projectID | info:eu-repo/grantAgreement/EC/H2020/818368/EU | es_ES |
dc.rights.accessRights | info:eu-repo/semantics/openAccess | es_ES |
dc.identifier.essn | 1750-2799 | |
dc.journal.title | Nature Protocols | es_ES |
dc.type.hasVersion | info:eu-repo/semantics/draft | es_ES |
dc.subject.unesco | 3309 Tecnología de Los Alimentos | es_ES |
dc.description.project | This work was funded by the European Commission under the European Union’s Horizon 2020 research and innovation program under grant agreement no. 818368 (MASTER). C.B. is grateful to Junta de Castilla y León and the European Social Fund for awarding her a pre-doctoral grant (BOCYL-D-07072020-6). A.P. is grateful to Ministerio de Ciencia e Innovación for awarding her a pre-doctoral grant (PRE2021-098910). N.M.Q. is currently funded by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 101034371. We thank AV Star Systems for their role in creating the Supplementary Video, and M. Coakley and S. Mortensen for their help in its preparation. | es_ES |
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