LOCUS       NZ_CP047816             2473 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain UP_1484 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP047816
VERSION     NZ_CP047816.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11175636
            Assembly: GCF_009912415.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2473)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Increasing the efficiency of long-read sequencing for hybrid
            assembly with k-mer-based multiplexing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2473)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JAN-2020) Institute for Medical Microbiology and
            Hospital Hygene, University Hospital Duesseldorf, Moorenstrasse 5,
            Duesseldorf 40225, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler Hybrid Assembly v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 43x / 446x
            Sequencing Technology :: Illumina MiSeq / Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 03:59:48
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,661
            CDSs (total)                      :: 2,579
            Genes (coding)                    :: 2,510
            CDSs (with protein)               :: 2,510
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 69
            CDSs (without protein)            :: 69
            Pseudo Genes (ambiguous residues) :: 0 of 69
            Pseudo Genes (frameshifted)       :: 32 of 69
            Pseudo Genes (incomplete)         :: 36 of 69
            Pseudo Genes (internal stop)      :: 20 of 69
            Pseudo Genes (multiple problems)  :: 19 of 69
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047816.1.
            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..2473
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UP_1484"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed"
     gene            complement(35..769)
                     /gene="erm(C)"
                     /locus_tag="E3T08_RS13260"
                     /old_locus_tag="E3T08_13260"
     ARG             complement(39..769)
                     /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="100.0"
                     /coverage="100.0"
     gene            complement(830..889)
                     /gene="ermCL"
                     /locus_tag="E3T08_RS13265"
                     /old_locus_tag="E3T08_13265"
     CDS             complement(830..889)
                     /gene="ermCL"
                     /locus_tag="E3T08_RS13265"
                     /old_locus_tag="E3T08_13265"
                     /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            complement(1584..2060)
                     /locus_tag="E3T08_RS13270"
                     /old_locus_tag="E3T08_13270"
     CDS             complement(1584..2060)
                     /locus_tag="E3T08_RS13270"
                     /old_locus_tag="E3T08_13270"
                     /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"
     ARG             complement(36..769)
                     /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="99.59"
                     /coverage="100.0"
     Typing          complement(1575..2060)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caagttaagg gatgcataaa ctgcatccct taacttactt attaaataat ttatagctat
       61 tgaaaagaga taagaattgt tcaaagctaa tattgtttaa atcgtcaatt cctgcatgtt
      121 ttaaggaatt gttaaattga ttttttgtaa atattttctt gtattctttg ttaacccatt
      181 tcataacgaa ataattatac ttctgtttat ctttgtgtga tattcttgat ttttttctat
      241 ttaatctgat aagtgagcta ttcactttag gtttaggatg aaaatattct cttggaacca
      301 tacttaatat agaaatatca acttctgcca ttaaaaataa tgccaatgag cgttttgtat
      361 ttaataatct tttagcaaac ccgtattcca cgattaaata aatctcatca gctatactat
      421 caaaaacaat tttgcgtatt atatccgtac ttatgttata aggtatatta ccaaatattt
      481 tataggattg gtttttagga aatttaaact gcaatatatc cttgtttaaa acttggaaat
      541 tatcgtgatc aacaagttta ttttctgtag ttttgcataa tttatggtct atttcaatgg
      601 cagttacgaa attacacctc tgtactaatt caagggtaaa atgccctttt cctgagccga
      661 tttcaaagat attatcatgt tcatttaatc ttatatttgt cattatttta tctatattat
      721 gttttgaagt aataaagttt tgactgtgtt ttatattttt ctcgttcatt ataaccctct
      781 ttaatttggt tataatgaat tttgcttatt aacgattcat tataaccact tattttttgt
      841 ttggttgata atgaactgtg ctgattacaa aaatactaaa aatgcccata ttttttcctc
      901 cttataaaat tagtataatt atagcacgag ctctgataaa tatgaacatg atgagtgatc
      961 gttaaattta tactgcaatc tgatgcgatt attgaataaa agatatgaga gatttatcta
     1021 gtttcttttt ttacaagaaa aaagaaagtt cttaaaggtt ttatactttt ggtcgtagag
     1081 cacacggttt aacgacttaa ttacgaagta aataagtcta gtgtgttaga ctttaatgtt
     1141 tttttaaggc attagtgcat ttaagcgtca gagcatggct ttatgccgag aaaactattg
     1201 gttggaatgg cgtgtgtgtt agccaaagct ttggcgagtt ggttgggggt ttcatgggat
     1261 taatcccatg aaagtaccaa ctcaacaaca cactaacgcc tgttggttcc aaccaatagg
     1321 aaattggaat aagcaattag tataatgaga gtataatgtt ggtataacgt tagtataatg
     1381 atgctttttt tcattatatt ttttatgtac tttaaacctg cacgcttatg tgaattagaa
     1441 aaagcttaat cgcatttcat agattgacct cccaataact acgtggtgtt attgggaggt
     1501 caatctattt catttgcgtt aagcttttga tctacattaa gcgtgcaggt tttttgtcta
     1561 tttgtagacg attttatgtt atactagtcc ttgaaagaat aataatcaga taatgcattt
     1621 tcttgttttt catttgcctc ttgctcaaag ttcccaaatt cgagtaagag gtatttttgt
     1681 ttttggtcgt cgcctctcat tagtagttca gggtttaaca ttaatactcc agtttttctt
     1741 tttataatat ttccttcttc taagatttta agtgttgtta ttactgtttg tagacttgtt
     1801 cctgtagctt ttgctatttc tcttgttgta gctatcattg tattgttact taagtggaca
     1861 ttatctagga tatagttaac gattttaagt ttttttccgc caatcatatc taacatactt
     1921 attaattgca ctatatatgc ctttacgaag ttaccagacg tttgtttacg gtataacttg
     1981 tctacctcta tgacttctcc actttcttcg tctatgagcc tctgagagcc tttatagact
     2041 gttccatatc tttctttcat ctttttctca ctccttattt taaactattc taactatatc
     2101 ataactgttc taaaaaaaaa agaacatttg ttaaaagaaa ttagaacaaa atgagtgaaa
     2161 aattagaaca aacaaattcc ttataaacct tatcatctca acctatatta agattttacc
     2221 tagttgaatc ttcttttcta tataaagcgt cggagcatat cagggggtta tctaacgtaa
     2281 atgctaccct tcggctcgct ttcgctcggc attgacgtca gatactgcac cccctgaacc
     2341 cccatgctcc aacagcaaaa aggaaacttt ttgctgcttt tccgacgctt attcgcttcg
     2401 ctcatattta tatagaaaag aagtgaatgc gcaaaagaca taatcgattc acaaaaaata
     2461 ggtacacgaa aaa
//
