Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals

18 páginas.- 5 figuras.- 2 tablas.- 75 referencias.- The online version contains supplementary material available at https://doi.org/10.1007/s00248-025-02626-w

Detalles Bibliográficos
Autores: Garcia-Gutierrez, Laura, Mellado, Emilia, Martín Sánchez, Pedro Mª
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2026
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/413806
Acceso en línea:http://hdl.handle.net/10261/413806
Access Level:acceso abierto
Palabra clave:Fungal ecology
Fungal genetics
Fungal genomics
Microbial Communities
Microbiome Medical
Microbiology
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spelling Contribution of DNA metabarcoding to the environmental fungal assessments in hospitalsGarcia-Gutierrez, LauraMellado, EmiliaMartín Sánchez, Pedro MªFungal ecologyFungal geneticsFungal genomicsMicrobial CommunitiesMicrobiome MedicalMicrobiology18 páginas.- 5 figuras.- 2 tablas.- 75 referencias.- The online version contains supplementary material available at https://doi.org/10.1007/s00248-025-02626-wHospitals are particularly sensitive environments where immunosuppressed patients might acquire invasive fungal infections. Therefore, it is necessary to carry out periodical environmental microbiological assessments that evaluate the fungal bioburden in air and surfaces from different hospital zones. Current microbiological monitoring protocols at healthcare settings are mostly based on cultivation, while environmental DNA (eDNA) assessments are still scarce and should be further evaluated. To fill this gap, this study combines a large sampling scheme, comprising > 200 samples (air, surface, dust and soil) collected from four zones at three Spanish hospitals in two campaigns (winter and autumn), with two eDNA approaches (DNA metabarcoding and quantitative PCR) to characterize the hospital mycobiomes (diversity, community composition and airborne load), compared to a parallel culture-dependent study. DNA metabarcoding revealed a much more comprehensive inventory of hospital fungi compared to culturing; however, both approaches found similar dominant taxa including a variety of potentially opportunistic human pathogens. Hospital mycobiomes were affiliated to 4 phyla (mostly Ascomycota and Basidiomycota), 35 classes, 114 orders, 305 families, 643 genera and 535 species. The dominant genera, in both air and surfaces from the three hospitals, were Cladosporium, Alternaria, Aureobasidium, Penicillium, Neodidymelliopsis, Aspergillus, Pseudopithomyces and Stemphylium. The yeasts Candida and Clavispora were particularly abundant on high-touch surfaces indoors. The most important explanatory factors for the variance in community composition were the hospital and zone where samples were collected, the type of sample and the sampling campaign. DNA metabarcoding can assist hospital managers by providing an in-depth characterization of the baseline hospital mycobiome during normal operating conditions, as well as identifying and controlling community imbalances and associated health risks under demanding situations such as construction works or reported clinical outbreaks.Open Access funding provided thanks to the CRUE-CSIC agreement with Springer Nature. This research is part of the Mycospitalomics project (grant PID2021-123184OA-I00), which is funded by MCIN/AEI/https://doi.org/10.13039/501100011033 and ERDF—A way of making Europe.Peer reviewedSpringer NatureMinisterio de Ciencia e Innovación (España)Agencia Estatal de Investigación (España)European CommissionGarcia-Gutierrez, Laura [0009-0003-0621-1490]Mellado, Emilia [0000-0002-9801-0260]Martín Sánchez, Pedro Mª [0000-0003-2674-8650]Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202620262026info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/413806reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2021-2023/PID2021-123184OA-I00http://dx.doi.org/10.1007/s00248-025-02626-wSíinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/4138062026-05-22T06:33:51Z
dc.title.none.fl_str_mv Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
title Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
spellingShingle Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
Garcia-Gutierrez, Laura
Fungal ecology
Fungal genetics
Fungal genomics
Microbial Communities
Microbiome Medical
Microbiology
title_short Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
title_full Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
title_fullStr Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
title_full_unstemmed Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
title_sort Contribution of DNA metabarcoding to the environmental fungal assessments in hospitals
dc.creator.none.fl_str_mv Garcia-Gutierrez, Laura
Mellado, Emilia
Martín Sánchez, Pedro Mª
author Garcia-Gutierrez, Laura
author_facet Garcia-Gutierrez, Laura
Mellado, Emilia
Martín Sánchez, Pedro Mª
author_role author
author2 Mellado, Emilia
Martín Sánchez, Pedro Mª
author2_role author
author
dc.contributor.none.fl_str_mv Ministerio de Ciencia e Innovación (España)
Agencia Estatal de Investigación (España)
European Commission
Garcia-Gutierrez, Laura [0009-0003-0621-1490]
Mellado, Emilia [0000-0002-9801-0260]
Martín Sánchez, Pedro Mª [0000-0003-2674-8650]
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Fungal ecology
Fungal genetics
Fungal genomics
Microbial Communities
Microbiome Medical
Microbiology
topic Fungal ecology
Fungal genetics
Fungal genomics
Microbial Communities
Microbiome Medical
Microbiology
description 18 páginas.- 5 figuras.- 2 tablas.- 75 referencias.- The online version contains supplementary material available at https://doi.org/10.1007/s00248-025-02626-w
publishDate 2026
dc.date.none.fl_str_mv 2026
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/10261/413806
url http://hdl.handle.net/10261/413806
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/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2021-2023/PID2021-123184OA-I00
http://dx.doi.org/10.1007/s00248-025-02626-w
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Springer Nature
publisher.none.fl_str_mv Springer Nature
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)
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collection DIGITAL.CSIC. Repositorio Institucional del CSIC
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