LOCUS       CP127732                2473 bp    DNA     circular BCT 19-JUN-2023
DEFINITION  Staphylococcus aureus strain C24 plasmid pC24_1, complete sequence.
ACCESSION   CP127732
VERSION     CP127732.1
DBLINK      BioProject: PRJNA914892
            BioSample: SAMN32360859
KEYWORDS    .
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2473)
  AUTHORS   Bouras,G., Houtak,G., Nepal,R., Shaghayegh,G. and Vreugde,S.
  TITLE     Hybrid Oxford Nanopore Technologies Illumina Sequences of 174
            Staphylococcus Aureus Isolates from Chronic Rhinosinusitis Patients
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2473)
  AUTHORS   Bouras,G., Houtak,G., Nepal,R., Shaghayegh,G. and Vreugde,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-JUN-2023) Department of ENT Surgery at the Basil
            Hetzel Institute, Adelaide Medical School, The University of
            Adelaide, 37 Woodville Road, Woodville South, SA 5011, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 14-NOV-2022
            Assembly Method :: Flye for Genome, plassembler (Unicycler) for
            plasmids v. 2.9.1 (Flye) with short read polishing, 0.1.1
            (plassembler) with 0.5.0 (Unicycler)
            Assembly Name                     :: C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 27x
            Sequencing Technology :: Oxford Nanopore MiniION and Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/11/2023 03:47:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,851
            CDSs (total)                      :: 2,773
            Genes (coding)                    :: 2,686
            CDSs (with protein)               :: 2,686
            Genes (RNA)                       :: 78
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 87
            CDSs (without protein)            :: 87
            Pseudo Genes (ambiguous residues) :: 0 of 87
            Pseudo Genes (frameshifted)       :: 39 of 87
            Pseudo Genes (incomplete)         :: 45 of 87
            Pseudo Genes (internal stop)      :: 25 of 87
            Pseudo Genes (multiple problems)  :: 20 of 87
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..2473
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="C24"
                     /isolation_source="Patient Sinus Swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pC24_1"
                     /geo_loc_name="Australia: Adelaide"
                     /lat_lon="34.9285 S 138.6007 E"
                     /collection_date="2011-09-26"
                     /collected_by="ENT Surgery Department at the Queen
                     Elizabeth Hospital, Adelaide, Australia 60"
     gene            complement(join(2218..2473,1..221))
                     /locus_tag="PCL40_14245"
     CDS             complement(join(2218..2473,1..221))
                     /locus_tag="PCL40_14245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_process:
                     GO:0006260 - DNA replication [Evidence IEA]; GO_process:
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WJC02824.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     gene            complement(669..1403)
                     /gene="erm(C)"
                     /locus_tag="PCL40_14250"
     ARG             complement(673..1403)
                     /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(1464..1523)
                     /gene="ermCL"
                     /locus_tag="PCL40_14255"
     CDS             complement(1464..1523)
                     /gene="ermCL"
                     /locus_tag="PCL40_14255"
                     /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="WJC02826.1"
                     /translation="MGIFSIFVISTVHYQPNKK"
                     /name="ermCL"
     ARG             complement(670..1403)
                     /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(2..221)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.1000000000000002e-111"
     Typing          complement(2263..2473)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="98.0"
                     /evalue="1.95e-106"
ORIGIN
        1 gtattgttac ttaagtggac attatctagg atatagttaa cgattttaag tttttttccg
       61 ccaatcatat ctaacatact tattaattgc actatatatg cctttacgaa gttaccagac
      121 gtttgtttac ggtataactt gtctacctct atgacttctc cactttcttc gtctatgagc
      181 ctctgagagc ctttatagac tgttccatat ctttctttca tctttttctc actccttatt
      241 ttaaactatt ctaactatat cataactgtt ctaaaaaaaa aagaacattt gttaaaagaa
      301 attagaacaa aatgagtgaa aaattagaac aaacaaattc cttataaacc ttatcatctc
      361 aacctatatt aagattttac ctagttgaat cttcttttct atataaagcg tcggagcata
      421 tcagggggtt atctaacgta aatgctaccc ttcggctcgc tttcgctcgg cattgacgtc
      481 agatactgca ccccctgaac ccccatgctc caacagcaaa aaggaaactt tttgctgctt
      541 ttccgacgct tattcgcttc gctcatattt atatagaaaa gaagtgaatg cgcaaaagac
      601 ataatcgatt cacaaaaaat aggtacacga aaaacaagtt aagggatgca gtttatgcat
      661 cccttaactt acttattaaa taatttatag ctattgaaaa gagataagaa ttgttcaaag
      721 ctaatattgt ttaaatcgtc aattcctgca tgttttaagg aattgttaaa ttgatttttt
      781 gtaaatattt tcttgtattc tttgttaacc catttcataa cgaaataatt atacttctgt
      841 ttatctttgt gtgatattct tgattttttt ctatttaatc tgataagtga gctattcact
      901 ttaggtttag gatgaaaata ttctcttgga accatactta atatagaaat atcaacttct
      961 gccattaaaa ataatgccaa tgagcgtttt gtatttaata atcttttagc aaacccgtat
     1021 tccacgatta aataaatctc atcagctata ctatcaaaaa caattttgcg tattatatcc
     1081 gtacttatgt tataaggtat attaccaaat attttatagg attggttttt aggaaattta
     1141 aactgcaata tatccttgtt taaaacttgg aaattatcgt gatcaacaag tttattttct
     1201 gtagttttgc ataatttatg gtctatttca atggcagtta cgaaattaca cctctgtact
     1261 aattcaaggg taaaatgccc ttttcctgag ccgatttcaa agatattatc atgttcattt
     1321 aatcttatat ttgtcattat tttatctata ttatgttttg aagtaataaa gttttgactg
     1381 tgttttatat ttttctcgtt cattataacc ctctttaatt tggttataat gaattttgct
     1441 tattaacgat tcattataac cacttatttt ttgtttggtt gataatgaac tgtgctgatt
     1501 acaaaaatac taaaaatgcc catatttttt cctccttata aaattagtat aattatagca
     1561 cgagctctga taaatatgaa catgatgagt gatcgttaaa tttatactgc aatctgatgc
     1621 gattattgaa taaaagatat gagagattta tctagtttct ttttttacaa gaaaaaagaa
     1681 agttcttaaa ggttttatac ttttggtcgt agagcacacg gtttaacgac ttaattacga
     1741 agtaaataag tctagtgtgt tagactttaa tgttttttta aggcattagt gcatttaagc
     1801 gtcagagcat ggctttatgc cgagaaaact attggttgga atggcgtgtg tgttagccaa
     1861 agctttggcg agttggttgg gggtttcatg ggattaatcc catgaaagta ccaactcaac
     1921 aacacactaa cgcctgttgg ttccaaccaa taggaaattg gaataagcaa ttagtataat
     1981 gagagtataa tgttggtata acgttagtat aatgatgctt tttttcatta tattttttat
     2041 gtactttaaa cctgcacgct tatgtgaatt agaaaaagct taatcgcatt tcatagattg
     2101 acctcccaat aactacgtgg tgttattggg aggtcaatct atttcatttg cgttaagctt
     2161 ttgatctaca ttaagcgtgc aggttttttg tctatttgta gacgatttta tgttatacta
     2221 gtccttgaaa gaataataat cagataatgc attttcttgt ttttcatttg cctcttgctc
     2281 aaagttccca aattcgagta agaggtattt ttgtttttgg tcgtcgcctc tcattagtag
     2341 ttcagggttt aacattaata ctccagtttt tctttttata atatttcctt cttctaagat
     2401 tttaagtgtt gttattactg tttgtagact tgttcctgta gcttttgcta tttctcttgt
     2461 tgtagctatc att
//
