Whole genome insights into hydrocarbon degradation and antimicrobial resistance in Staphylococcus epidermidis CSR1 isolated from oil-contaminated soil

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dc.contributor.authorAcer, Omer
dc.date.accessioned2026-10-23T18:14:12Z
dc.date.available2026-10-23T18:14:12Z
dc.date.issued2026
dc.departmentSiirt Üniversitesi
dc.description.abstractA crude oil-degrading bacterial strain, CSR1, was isolated from oil-contaminated soil collected in Diyarbak & imath;r, southeastern T & uuml;rkiye, for this study. The strain has been identified as Staphylococcus epidermidis using 16 S rRNA gene analysis and whole-genome sequencing. The entire genome of strain CSR1 was found to be 2,595,333 bp in length, exhibiting a GC content of 32.12% and comprising 2,396 protein-coding sequences, 61 tRNA genes, and 16 rRNA genes. Genome-based taxonomic investigation by digital DNA-DNA hybridization verified that the strain is classified as S. epidermidis. Analysis of the resistome utilizing the CARD and ResFinder databases identified several antimicrobial resistance determinants, including multidrug efflux pump genes (norA, sdrM, norC, mdeA, and sepA) and antibiotic inactivation genes (blaZ, FosBx1, and dfrC). Genome annotation identified a putative alkB-like alkane degradation-related gene, exhibiting significant similarities to an LLM class flavin-dependent oxidoreductase. A phylogenetic study indicated that this enzyme is part of the oxidoreductase family and may be involved in hydrocarbon degradation pathways. Gas chromatography study revealed that strain CSR1 degraded 91.7% of n-alkanes (C6-C29) in crude oil after seven days of incubation. These findings offer genetic and functional insights into the hydrocarbon-degrading capabilities of S. epidermidis CSR1 and underscore its potential significance in the bioremediation of petroleum-contaminated environments. To the best of our knowledge, this is the first genome-based characterization that integrates hydrocarbon degradation genes and antimicrobial resistance profile of a petroleum-degrading S. epidermidis strain that was isolated from oil-contaminated soil in southeast T & uuml;rkiye.
dc.description.sponsorshipScientific Research Commission of Siirt University [2020-SIUTIP-029] -- The Scientific Research Commission of Siirt University provided partial funding for the work (Projects 2020-SIUTIP-029).
dc.identifier.doi10.1007/s00203-026-05021-2
dc.identifier.issn0302-8933
dc.identifier.issn1432-072X
dc.identifier.issue9
dc.identifier.pmid42329392
dc.identifier.scopus2-s2.0-105042662799
dc.identifier.scopusqualityQ2
dc.identifier.urihttps://doi.org/10.1007/s00203-026-05021-2
dc.identifier.urihttps://hdl.handle.net/20.500.12604/12329
dc.identifier.volume208
dc.identifier.wosWOS:001799940700002
dc.identifier.wosqualityQ3
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.institutionauthorAcer, Omer
dc.language.isoen
dc.publisherSpringer Heidelberg
dc.relation.ispartofArchives of Microbiology
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/closedAccess
dc.snmzKA_WOS_20261017
dc.subjectStaphylococcus Epidermidis
dc.subjectWhole Genome Sequencing
dc.subjectAlkane Degradation
dc.subjectPetroleum-Contaminated Soil
dc.subjectAntimicrobial Resistance Genes
dc.titleWhole genome insights into hydrocarbon degradation and antimicrobial resistance in Staphylococcus epidermidis CSR1 isolated from oil-contaminated soil
dc.typeArticle

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