Broad time‐dependent transcriptional activity of metabolic genes of E. coli O104:H4 strain C227/11Φcu in a soil microenvironment at low temperature

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dc.contributor.authorDetert, Katharina
dc.contributor.authorWährer, Jonathan
dc.contributor.authorNieselt, Kay
dc.contributor.authorSchmidt, Herbert
dc.date.accessioned2024-07-05T13:35:41Z
dc.date.available2024-07-05T13:35:41Z
dc.date.issued2023
dc.date.updated2024-06-27T03:44:56Z
dc.description.abstractIn the current study, metabolic genes and networks that influence the persistence of pathogenic Escherichia coli O104:H4 strain C227/11Φcu in agricultural soil microenvironments at low temperature were investigated. The strain was incubated in alluvial loam (AL) and total RNA was prepared from samples at time point 0, and after 1 and 4 weeks. Differential transcriptomic analysis was performed by RNA sequencing analysis and values obtained at weeks 1 and 4 were compared to those of time point 0. We found differential expression of more than 1500 genes for either time point comparison. The two lists of differentially expressed genes were then subjected to gene set enrichment of Gene Ontology terms. In total, 17 GO gene sets and 3 Pfam domains were found to be enriched after 1 week. After 4 weeks, 17 GO gene sets and 7 Pfam domains were statistically enriched. Especially stress response genes and genes of the primary metabolism were particularly affected at both time points. Genes and gene sets for uptake of carbohydrates, amino acids were strongly upregulated, indicating adjustment to a low nutrient environment. The results of this transcriptome analysis show that persistence of C227/11Φcu in soils is associated with a complex interplay of metabolic networks.en
dc.identifier10.1111/1758-2229.13198en
dc.identifierEMI413198en
dc.identifier.urihttps://doi.org/10.1111/1758-2229.13198
dc.identifier.urihttps://hohpublica.uni-hohenheim.de/handle/123456789/15905
dc.language.isoeng
dc.relation.ispartofEnvironmental Microbiology Reportsen
dc.rights.licensecc_by
dc.subjectEscherichia coli O104
dc.subjectMetabolic genes
dc.subjectPersistence in soil
dc.subjectLow temperature
dc.subjectTranscriptomic analysis
dc.subjectGene expression
dc.subjectStress response
dc.subjectPrimary metabolism
dc.subject.ddc570
dc.titleBroad time‐dependent transcriptional activity of metabolic genes of E. coli O104:H4 strain C227/11Φcu in a soil microenvironment at low temperatureen
dc.type.diniArticle
dcterms.bibliographicCitationEnvironmental microbiology, 15 (2023), 6, 582-596. https://doi.org/10.1111/1758-2229.13198. ISSN: 1462-2920
dcterms.bibliographicCitation.issn1462-2920
dcterms.bibliographicCitation.issue6
dcterms.bibliographicCitation.journaltitleEnvironmental microbiology
dcterms.bibliographicCitation.originalpublishernameBlackwell
dcterms.bibliographicCitation.originalpublisherplaceOxford [u.a.]
dcterms.bibliographicCitation.pageend596
dcterms.bibliographicCitation.pagestart582
dcterms.bibliographicCitation.volume15
local.export.bibtex@article{Detert2023, doi = {10.1111/1758-2229.13198}, author = {Detert, Katharina and Währer, Jonathan and Nieselt, Kay et al.}, title = {Broad time‐dependent transcriptional activity of metabolic genes of E. coli O104:H4 strain C227/11Φcu in a soil microenvironment at low temperature}, journal = {Environmental microbiology}, year = {2023}, volume = {15}, number = {6}, pages = {582--596}, }
local.export.bibtexAuthorDetert, Katharina and Währer, Jonathan and Nieselt, Kay et al.
local.export.bibtexKeyDetert2023
local.export.bibtexPages582--596
local.export.bibtexType@article

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