Biases in viral metagenomics-based detection, cataloguing and quantification of bacteriophage genomes in human faeces, a review

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dc.contributor.authorCallanan, Julieen
dc.contributor.authorStockdale, Stephen R.en
dc.contributor.authorShkoporov, Andrey N.en
dc.contributor.authorDraper, Lorraine A.en
dc.contributor.authorRoss, R. Paulen
dc.contributor.authorHill, Colinen
dc.contributor.funderScience Foundation Irelanden
dc.date.accessioned2024-04-02T14:50:30Z
dc.date.available2024-04-02T14:50:30Z
dc.date.issued2021en
dc.description.abstractThe human gut is colonised by a vast array of microbes that include bacteria, viruses, fungi, and archaea. While interest in these microbial entities has largely focused on the bacterial constituents, recently the viral component has attracted more attention. Metagenomic advances, compared to classical isolation procedures, have greatly enhanced our understanding of the composition, diversity, and function of viruses in the human microbiome (virome). We highlight that viral extraction methodologies are crucial in terms of identifying and characterising communities of viruses infecting eukaryotes and bacteria. Different viral extraction protocols, including those used in some of the most significant human virome publications to date, have introduced biases affecting their a overall conclusions. It is important that protocol variations should be clearly highlighted across studies, with the ultimate goal of identifying and acknowledging biases associated with different protocols and, perhaps, the generation of an unbiased and standardised method for examining this portion of the human microbiome.en
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.articleid524en
dc.identifier.citationCallanan, J., Stockdale, S.R., Shkoporov, A., Draper, L.A., Ross, R.P. and Hill, C. (2021) ‘Biases in viral metagenomics-based detection, cataloguing and quantification of bacteriophage genomes in human faeces, a review’, Microorganisms, 9(3), 524 (15pp). doi: 10.3390/microorganisms9030524en
dc.identifier.doi10.3390/microorganisms9030524en
dc.identifier.eissn2076-2607en
dc.identifier.endpage15en
dc.identifier.issued3en
dc.identifier.journaltitleMicroorganismsen
dc.identifier.startpage1en
dc.identifier.urihttps://hdl.handle.net/10468/15731
dc.identifier.volume9en
dc.language.isoenen
dc.publisherMDPIen
dc.relation.projectinfo:eu-repo/grantAgreement/SFI/SFI Research Centres/12/RC/2273/IE/Alimentary Pharmabiotic Centre (APC) - Interfacing Food & Medicine/en
dc.rights© 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).en
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectBacteriophageen
dc.subjectViral metagenomicsen
dc.subjectPhageomeen
dc.subjectViral extractionen
dc.titleBiases in viral metagenomics-based detection, cataloguing and quantification of bacteriophage genomes in human faeces, a reviewen
dc.typeArticle (peer-reviewed)en
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