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The indoor microbiome: sampling, analysis and emerging trends

2026-04Artigo científico Acesso aberto
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datacite.subject.sdg03:Saúde de Qualidade
dc.contributor.authorŠunić, Iva
dc.contributor.authorŠarac, Jelena
dc.contributor.authorAuguštin, Dubravka Havaš
dc.contributor.authorPozdniakova, Sofya
dc.contributor.authorFerguson, Robert M.
dc.contributor.authorJergović, Matijana
dc.contributor.authorVisentin, David
dc.contributor.authorBorràs, Silvia
dc.contributor.authorArcher, Elizabeth
dc.contributor.authorHenderson, Drew K.
dc.contributor.authorVitko, Sandra
dc.contributor.authorAšić, Adna
dc.contributor.authorBošnjaković, Anja
dc.contributor.authorMaglica, Željka
dc.contributor.authorViegas, Carla
dc.contributor.authorNovokmet, Natalija
dc.contributor.authorKarlović, Nina
dc.contributor.authorMarjanović, Damir
dc.contributor.authorMuszyński, Adam
dc.contributor.authorLiu, Yuxi
dc.contributor.authorKarisola, Piia
dc.contributor.authorAlenius, Harri
dc.contributor.authorKrych, Lukasz
dc.contributor.authorLovrić, Mario
dc.date.accessioned2026-04-14T08:15:46Z
dc.date.available2026-04-14T08:15:46Z
dc.date.issued2026-04
dc.descriptionThis work was supported by the European Union's Horizon Europe research and innovation programme, Grant Agreement No. 101057497 and Grant Agreement No. 101057779. The European Union, Grant agreement: 101056883. Swiss State Secretariat for Education, Research and Innovation, SERI grant agreement 22.00324. United Kingdom Research and Innovation, UKRI grant agreement 10040524. Australian National Health and Medical Research Council, NHMRC grant agreements APP2017786, NHMRC grant agreements APP2008813—European Union's Call on Environment and Health (HORIZON-HLTH-2021-ENVHLTH-02), 101057693.
dc.description.abstractIndoor spaces contain diverse microbial communities that shape human health. These microorganisms are particularly relevant to respiratory diseases, including asthma and allergies. Despite growing recognition of the importance of indoor microbial exposures, research in this field is slowed by differences in methods. These inconsistencies make it difficult to compare results and draw conclusions. This systematic review analyses 106 studies published between 2000 and 2025 that investigated indoor microbiomes in dust, air, and other matrices across homes, schools, and other built environments. We assessed sampling strategies, DNA extraction protocols, sequencing technologies, and bioinformatic pipelines, identifying trends, inconsistencies, and areas requiring harmonisation. Passive sampling, particularly dust collection, was the most common approach, while Illumina-based 16S rRNA and ITS amplicon sequencing dominated molecular analyses. However, variations in targeted gene regions, extraction kits, and analytical tools limited cross-study comparability. Ecological findings revealed consistent detection of bacterial taxa such as Staphylococcus, Streptococcus, and Corynebacterium, and fungal taxa including Cladosporium, Aspergillus, and Penicillium, with diversity shaped by building characteristics, ventilation, humidity, occupancy, and presence of pets. This review highlights the need for standardised protocols in indoor microbiome research to facilitate reproducibility, enable meta-analyses, and inform health-related guidelines for indoor environments.eng
dc.identifier.citationŠunić I, Šarac J, Auguštin DH, Pozdniakova S, Ferguson RM, Viegas C, et al. The indoor microbiome: sampling, analysis and emerging trends. Environ Microbiol Rep. 2026;18(2):e70272.
dc.identifier.doi10.1111/1758-2229.70272
dc.identifier.issn1758-2229
dc.identifier.issn1758-2229
dc.identifier.urihttp://hdl.handle.net/10400.21/22778
dc.language.isoeng
dc.peerreviewedyes
dc.publisherWiley
dc.relationEuropean Union's Horizon Europe research and innovation programme, Grant agreement No. 101057497
dc.relationEuropean Union's Horizon Europe research and innovation programme, Grant Agreement No. 101057779
dc.relationThe European Union, Grant agreement: 101056883
dc.relationEuropean Union's Call on Environment and Health (HORIZON-HLTH-2021-ENVHLTH-02), 101057693
dc.relation.hasversionhttps://enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/1758-2229.70272
dc.relation.ispartofEnvironmental Microbiology Reports
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/
dc.subjectDust microbiome
dc.subjectIndoor air
dc.subjectAir quality
dc.subjectMethodological harmonisation
dc.subjectSampling methods
dc.subjectSequencing methods
dc.titleThe indoor microbiome: sampling, analysis and emerging trendseng
dc.typejournal article
dspace.entity.typePublication
oaire.citation.issue2
oaire.citation.startPagee70272
oaire.citation.titleEnvironmental Microbiology Reports
oaire.citation.volume18
oaire.versionhttp://purl.org/coar/version/c_970fb48d4fbd8a85
person.familyNameViegas
person.givenNameCarla
person.identifier.ciencia-idEE1E-C639-D70F
person.identifier.orcid0000-0002-1545-6479
person.identifier.ridB-7217-2013
person.identifier.scopus-author-id55443609700
relation.isAuthorOfPublicationb5fa5da4-50c3-4b88-ae20-1bc63cb485f7
relation.isAuthorOfPublication.latestForDiscoveryb5fa5da4-50c3-4b88-ae20-1bc63cb485f7

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