Selective isolation of eggerthella lenta from human faeces and characterisation of the species prophage diversity

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dc.contributor.authorButtimer, Colin
dc.contributor.authorBottacini, Francesca
dc.contributor.authorShkoporov, Andrey N.
dc.contributor.authorDraper, Lorraine A.
dc.contributor.authorRoss, R. Paul
dc.contributor.authorHill, Colin
dc.contributor.funderIrish Research Councilen
dc.date.accessioned2024-04-04T13:27:39Z
dc.date.available2024-04-04T13:27:39Z
dc.date.issued2022en
dc.description.abstractEggerthella lenta is an anaerobic, high GC, Gram-positive bacillus commonly found in the human digestive tract that belongs to the class Coriobacteriia of the phylum Actinobacteria. This species has been of increasing interest as an important player in the metabolism of xenobiotics and dietary compounds. However, little is known regarding its susceptibility to bacteriophage predation and how this may influence its fitness. Here, we report the isolation of seven novel E. lenta strains using cefotaxime and ceftriaxone as selective agents. We conducted comparative and pangenome analyses of these strains and those publicly available to investigate the diversity of prophages associated with this species. Prophage gene products represent a minimum of 5.8% of the E. lenta pangenome, comprising at least ten distantly related prophage clades that display limited homology to currently known bacteriophages. All clades possess genes implicated in virion structure, lysis, lysogeny and, to a limited extent, DNA replication. Some prophages utilise tyrosine recombinases and diversity generating retroelements to generate phase variation among targeted genes. The prophages have differing levels of sensitivity to the CRISPR/cas systems of their hosts, with spacers from 44 E. lenta isolates found to target only five out of the ten identified prophage clades. Furthermore, using a PCR-based approach targeting the prophage attP site, we were able to determine that several of these elements can excise from the host chromosome, thus supporting the notion that these are active prophages. The findings of this study provide further insights into the diversity of prophages infecting species of the phylum Actinobacteria.en
dc.description.sponsorshipIrish Research Council (Government of Ireland Postdoctoral Fellowship 2019, Project ID GOIPD/2019/1097)en
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.articleid195en
dc.identifier.citationButtimer, C., Bottacini, F., Shkoporov, A.N., Draper, L.A., Ross, P. and Hill, C. (2022) ‘Selective isolation of eggerthella lenta from human faeces and characterisation of the species prophage diversity’, Microorganisms, 10(1), 195 (25pp). doi: 10.3390/microorganisms10010195en
dc.identifier.doi10.3390/microorganisms10010195en
dc.identifier.eissn2076-2607en
dc.identifier.endpage25en
dc.identifier.issued1en
dc.identifier.journaltitleMicroorganismsen
dc.identifier.startpage1en
dc.identifier.urihttps://hdl.handle.net/10468/15767
dc.identifier.volume10en
dc.language.isoenen
dc.publisherMDPIen
dc.rights© 2022 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 (https:// creativecommons.org/licenses/by/ 4.0/).en
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectActinobacteriaen
dc.subjectEggerthella lentaen
dc.subjectBacterial isolationen
dc.subjectProphage diversityen
dc.subjectDiversity generating retroelementsen
dc.titleSelective isolation of eggerthella lenta from human faeces and characterisation of the species prophage diversityen
dc.typeArticle (peer-reviewed)en
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