LOCUS       NZ_CP094871             2458 bp    DNA     circular CON 20-APR-2024
DEFINITION  Staphylococcus epidermidis strain C100 plasmid pC100MK6, complete
            sequence.
ACCESSION   NZ_CP094871
VERSION     NZ_CP094871.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN27161489
            Assembly: GCF_022832915.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2458)
  AUTHORS   Kopczyk,M., Mulroney,K., Chakera,A., Ramsay,J.P., Colombi,E.,
            Coombs,G.W. and Mowlaboccus,S.
  TITLE     Sequencing of Staphylococcus epidermidis isolated from peritoneal
            cavity
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2458)
  AUTHORS   Kopczyk,M., Mulroney,K., Chakera,A., Ramsay,J.P., Colombi,E.,
            Coombs,G.W. and Mowlaboccus,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-MAR-2022) School of Pharmacy & Biomedical Sciences,
            Curtin University, Kent street, Bentley, WA 6102, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 10-MAR-2022
            Assembly Method :: Flye v. 2.9-b1774; Racon v. 1.4.15; Pilon v. 1.23
            Assembly Name                     :: C100MK-10-Mar-2022
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1841.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022832915.1-RS_2024_04_19
            Annotation Date                   :: 04/19/2024 10:05:55
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,423
            CDSs (total)                      :: 2,339
            Genes (coding)                    :: 2,273
            CDSs (with protein)               :: 2,273
            Genes (RNA)                       :: 84
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 66
            CDSs (without protein)            :: 66
            Pseudo Genes (ambiguous residues) :: 0 of 66
            Pseudo Genes (frameshifted)       :: 38 of 66
            Pseudo Genes (incomplete)         :: 37 of 66
            Pseudo Genes (internal stop)      :: 26 of 66
            Pseudo Genes (multiple problems)  :: 26 of 66
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP094871.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2458
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="C100"
                     /isolation_source="pertoneal cavity"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="pC100MK6"
                     /geo_loc_name="Australia: Perth"
                     /lat_lon="31.92851574 S 115.86399442 E"
                     /collection_date="2017-04-19"
                     /collected_by="Harry Perkins Institute of Medical Research"
     gene            1..477
                     /locus_tag="MUG64_RS12045"
                     /old_locus_tag="MUG64_12045"
     CDS             1..477
                     /locus_tag="MUG64_RS12045"
                     /old_locus_tag="MUG64_12045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000664727.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     gene            1172..1231
                     /gene="ermCL"
                     /locus_tag="MUG64_RS12050"
                     /old_locus_tag="MUG64_12050"
     CDS             1172..1231
                     /gene="ermCL"
                     /locus_tag="MUG64_RS12050"
                     /old_locus_tag="MUG64_12050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002497446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA methylase leader peptide ErmCL"
                     /protein_id="WP_002497446.1"
                     /translation="MGIFSIFVISTVHYQPNKK"
                     /name="ermCL"
     gene            1292..2011
                     /gene="erm(C)"
                     /locus_tag="MUG64_RS12055"
                     /old_locus_tag="MUG64_12055"
     ARG             1293..2008
                     /name="erm(C)"
                     /gene="erm(C)"
                     /gene_name="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /tool="amrfinderplus"
                     /drug_class="LINCOSAMIDE/MACROLIDE/STREPTOGRAMIN"
                     /identity="97.54"
                     /coverage="100.0"
     ARG             1293..2011
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="97.13"
                     /coverage="97.95"
     Typing          2..487
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgaaagaaa gatatggaac agtctataaa ggctctcaga ggctcataga cgaagaaagt
       61 ggagaagtca tagaggtaga caagttatac cgtaaacaaa cgtctggtaa cttcgtaaag
      121 gcatatatag tgcaattaat aagtatgtta gatatgattg gcggaaaaaa acttaaaatc
      181 gttaactata tcctagataa tgtccactta agtaacaata caatgatagc tacaacaaga
      241 gaaatagcaa aagctacagg aacaagtcta caaacagtaa taacaacact taaaatctta
      301 gaagaaggaa atattataaa aagaaaaact ggagtattaa tgttaaaccc tgaactacta
      361 atgagaggcg acgaccaaaa acaaaaatac ctcttactcg aatttgggaa ctttgagcaa
      421 gaggcaaatg aaaaacaaga aaatgcatta tctgattatt attctttcaa ggactagtat
      481 aacataaaat cgtctacaaa tagacaaaaa acctgcacgc ttaatgtaga tcaaaagctt
      541 aacgcaaatg aaatagattg acctcccaat aacaccacgt agttattggg aggtcaatct
      601 atgaaatgcg attaagcttt ttctaattca cataagcgtg caggtttaaa gtacataaaa
      661 aatataatga aaaaaagcat cattatacta acgttatacc aacattatac tctcattata
      721 ctaattgctt attccaattt cctattggtt ggaaccaaca ggcgttagtg tgttgttgag
      781 ttggtacttt catgggatta atcccatgaa acccccaacc aactcgccaa agctttggct
      841 aacacacacg ccattccaac caatagtttt ctcggcataa agccatgctc tgacgcttaa
      901 atgcactaat gccttaaaaa aacattaaag tctaacacac tagacttatt tacttcgtaa
      961 ttaagtcgtt aaaccgtgtg ctctacgacc aaaagtataa aacctttaag aactttcttt
     1021 tttcttgtaa aaaaagaaac tagataaatc tctcatatct tttattcaat aatcgcatca
     1081 gattgcagta taaatttaac gatcactcat catgttcata tttatcagag ctcgtgctat
     1141 aattatacta attttataag gaggaaaaaa tatgggcatt tttagtattt ttgtaatcag
     1201 cacagttcat tatcaaccaa acaaaaaata agtggttata atgaatcgtt aataagcaaa
     1261 attcattata accaaattaa agagggttat aatgaacgag aaaaatataa aacacagtca
     1321 aaactttatt acttcaaaac ataatataga taaaataatg acaaatataa gattaaatga
     1381 acatgataat atctttgaaa tcggctcagg aaaagggcat tttacccttg aattagtaca
     1441 gaggtgtaat ttcgtaactg ccattgaaat agaccataaa ttatgcaaaa ctacagaaaa
     1501 taaacttgtt gatcacgata atttccaagt tttaaacaag gatatattgc agtttaaatt
     1561 tcctaaaaac caatcctata aaatatttgg taatatacct tataacataa gtacggatat
     1621 aatacgcaaa attgtttttg atagtatagc tgatgagatt tatttaatcg tggaatacgg
     1681 gtttgctaaa agattattaa atacaaaacg ctcattggca ttatttttaa tggcagaagt
     1741 tgatatttct atattaagta tggttccaag agaatatttt catcctaaac ctaaagtgaa
     1801 tataaataga aaaaaatcaa gaatatcaca caaagataaa cagaagtata attatttcgt
     1861 tatgaaatgg gttaacaaag aatacaagaa aatatttaca aaaaatcaat ttaacaattc
     1921 cttaaaacat gcaggaattg acgatttaaa caatattagc tttgaacaat tcttatctct
     1981 tttcaatagc tataaattat ttaataagta agttaaggga tgcagtttat gcatccctta
     2041 acttgttttt cgtgtaccta ttttttgtga atcgattatg tcttttgcgc attcacttct
     2101 tttctatata aatatgagcg aagcgaataa gcgtcggaaa agcagcaaaa agtttccttt
     2161 ttgctgttgg agcatggggg ttcagggggt gcagtatctg acgtcaatgc cgagcgaaag
     2221 cgagccgaag ggtagcattt acgttagata accccctgat atgctccgac gctttatata
     2281 gaaaagaaga ttcaactagg taaaatctta atataggttg agatgataag gtttataagg
     2341 aatttgtttg ttctaatttt tcactcattt tgttctaatt tcttttaaca aatgttcttt
     2401 tttttttaga acagttatga tatagttaga atagtttaaa ataaggagtg agaaaaag
//
