LOCUS       NZ_CP014417             2415 bp    DNA     circular CON 17-MAY-2024
DEFINITION  Staphylococcus aureus strain USA300-SUR15 plasmid pUSA05-1-SUR15,
            complete sequence.
ACCESSION   NZ_CP014417
VERSION     NZ_CP014417.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04497609
            Assembly: GCF_002000685.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2415)
  AUTHORS   Sabat,A.J., Hermelijn,S.M., Akkerboom,V., Juliana,A., Degener,J.E.,
            Grundmann,H. and Friedrich,A.W.
  TITLE     Complete-genome sequencing elucidates outbreak dynamics of CA-MRSA
            USA300 (ST8-spa t008) in an academic hospital of Paramaribo,
            Republic of Suriname
  JOURNAL   Sci Rep 7, 41050 (2017)
   PUBMED   28106148
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2415)
  AUTHORS   Sabat,A.J., Hermelijn,S., Akkerboom,V., Degener,J.E., Grundmann,H.
            and Friedrich,A.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-FEB-2016) Medical Microbiology, University Medical
            Center Groningen, Hanzeplein 1, Groningen 9700 RB, The Netherlands
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SeqMan NGen v. 12.1.0
            Genome Coverage                   :: missing
            Sequencing Technology             :: Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002000685.1-RS_2024_05_17
            Annotation Date                   :: 05/17/2024 01:29:08
            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)                     :: 3,036
            CDSs (total)                      :: 2,955
            Genes (coding)                    :: 2,865
            CDSs (with protein)               :: 2,865
            Genes (RNA)                       :: 81
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 90
            CDSs (without protein)            :: 90
            Pseudo Genes (ambiguous residues) :: 0 of 90
            Pseudo Genes (frameshifted)       :: 49 of 90
            Pseudo Genes (incomplete)         :: 43 of 90
            Pseudo Genes (internal stop)      :: 18 of 90
            Pseudo Genes (multiple problems)  :: 19 of 90
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP014417.1.
            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..2415
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="USA300-SUR15"
                     /isolation_source="Nose"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pUSA05-1-SUR15"
                     /geo_loc_name="Suriname: Paramaribo"
                     /lat_lon="5.866667 N 55.166667 W"
                     /collection_date="2013-05-17"
                     /collected_by="Sandra Hermelijn"
     gene            1..477
                     /locus_tag="AYM28_RS15640"
                     /old_locus_tag="AYM28_15260"
     CDS             1..477
                     /locus_tag="AYM28_RS15640"
                     /old_locus_tag="AYM28_15260"
                     /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            1234..1968
                     /gene="erm(C)"
                     /locus_tag="AYM28_RS15645"
                     /old_locus_tag="AYM28_15265"
     ARG             1235..1965
                     /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"
     ARG             1235..1968
                     /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          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 taagtggtta taatgaatcg ttaataagca
     1201 aaattcatta taaccaaatt aaagagggtt ataatgaacg agaaaaatat aaaacacagt
     1261 caaaacttta ttacttcaaa acataatata gataaaataa tgacaaatat aagattaaat
     1321 gaacatgata atatctttga aatcggctca ggaaaagggc attttaccct tgaattagta
     1381 cagaggtgta atttcgtaac tgccattgaa atagaccata aattatgcaa aactacagaa
     1441 aataaacttg ttgatcacga taattttcaa gttttaaaca aggatatatt gcagtttaaa
     1501 tttcctaaaa accaatccta taaaatattt ggtaatatac cttataacat aagtacggat
     1561 ataatacgca aaattgtttt tgatagtata gctgatgaga tttatttaat cgtggaatac
     1621 gggtttgcta aaagattatt aaatacaaaa cgctcattgg cattattttt aatggcagaa
     1681 gttgatattt ctatattaag tatggttcca agagaatatt ttcatcctaa acctaaagtg
     1741 aatagctcac ttatcagatt aaatagaaaa aaatcaagaa tatcacacaa agataaacag
     1801 aagtataatt atttcgttat gaaatgggtt aacaaagaat acaagaaaat atttacaaaa
     1861 aatcaattta acaattcctt aaaacatgca ggaattgacg atttaaacaa tattagcttt
     1921 gaacaattct tatctctttt caatagctat aaattattta ataagtaagt taagggatgc
     1981 ataaactgca tcccttaact tgtttttcgt gtacctattt tttgtaaatc gattatgtct
     2041 tttgcgcatt cacttctttt ctatataaat atgagcgaag cgaataagcg tcggaaaagc
     2101 agcaaaaagt ttcctttttg ctgttggagc atgggggttc agggggtgca gtatctgacg
     2161 tcaatgccga gcgaaagcga gccgaagggt agcatttacg ttagataacc ccctgatatg
     2221 ctccgacgct ttatatagaa aagaagattc aactaggtaa aatcttaata taggttgaga
     2281 tgataaggtt tataaggaat ttgtttgttc taatttttca ctcattttgt tctaatttct
     2341 tttaacaaat gttctttttt ttttagaaca gttatgatat agttagaata gtttaaaata
     2401 aggagtgaga aaaag
//
