LOCUS       NZ_CP098730             2473 bp    DNA     circular CON 26-JUN-2023
DEFINITION  Staphylococcus aureus strain SauR3 plasmid pSauR3-3, complete
            sequence.
ACCESSION   NZ_CP098730
VERSION     NZ_CP098730.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21591357
            Assembly: GCF_020177155.3
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2473)
  AUTHORS   Chew,C.H., Yeo,C.C., Al-Trad,E.I. and Che Hamzah,A.M.
  TITLE     Staphylococcus aureus SauR3 strain genome sequence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2473)
  AUTHORS   Chew,C.H., Yeo,C.C., Al-Trad,E.I. and Che Hamzah,A.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUN-2022) Faculty of Medicine, University Sultan
            Zainal Abidin, Jalan Sultan Mahmud, Kuala Terengganu 20400, Malaysia
REFERENCE   3  (bases 1 to 2473)
  AUTHORS   Al-Trad,E.I., Che Hamzah,A.M., Chew,C.H. and Yeo,C.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAR-2022) Faculty of Medicine, University Sultan
            Zainal Abidin, Jalan Sultan Mahmud, Kuala Terengganu 20400, Malaysia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8.
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30.0x
            Sequencing Technology             :: Illumina hiseq and MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/26/2023 02:07:23
            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)                     :: 2,808
            CDSs (total)                      :: 2,726
            Genes (coding)                    :: 2,646
            CDSs (with protein)               :: 2,646
            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)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 45 of 80
            Pseudo Genes (incomplete)         :: 32 of 80
            Pseudo Genes (internal stop)      :: 19 of 80
            Pseudo Genes (multiple problems)  :: 15 of 80
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP098730.1.
            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="SauR3"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pSauR3-3"
                     /geo_loc_name="Malaysia"
                     /lat_lon="5.325464 N 103.151674 E"
                     /collection_date="2016"
                     /collected_by="UniSZA"
     gene            116..592
                     /locus_tag="LC189_RS14005"
                     /old_locus_tag="LC189_014005"
     CDS             116..592
                     /locus_tag="LC189_RS14005"
                     /old_locus_tag="LC189_014005"
                     /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            1287..1346
                     /gene="ermCL"
                     /locus_tag="LC189_RS14010"
                     /old_locus_tag="LC189_014010"
     CDS             1287..1346
                     /gene="ermCL"
                     /locus_tag="LC189_RS14010"
                     /old_locus_tag="LC189_014010"
                     /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            1407..2141
                     /gene="erm(C)"
                     /locus_tag="LC189_RS14015"
                     /old_locus_tag="LC189_014015"
     ARG             1408..2138
                     /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             1408..2141
                     /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          117..602
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgtttgttc taatttttca ctcattttgt tctaatttct tttaacaaat gttctttttt
       61 ttttagaaca gttatgatat agttagaata gtttaaaata aggagtgaga aaaagatgaa
      121 agaaagatat ggaacagtct ataaaggctc tcagaggctc atagacgaag aaagtggaga
      181 agtcatagag gtagacaagt tataccgtaa acaaacgtct ggtaacttcg taaaggcata
      241 tatagtgcaa ttaataagta tgttagatat gattggcgga aaaaaactta aaatcgttaa
      301 ctatatccta gataatgtcc acttaagtaa caatacaatg atagctacaa caagagaaat
      361 agcaaaagct acaggaacaa gtctacaaac agtaataaca acacttaaaa tcttagaaga
      421 aggaaatatt ataaaaagaa aaactggagt attaatgtta aaccctgaac tactaatgag
      481 aggcgacgac caaaaacaaa aatacctctt actcgaattt gggaactttg agcaagaggc
      541 aaatgaaaaa caagaaaatg cattatctga ttattattct ttcaaggact agtataacat
      601 aaaatcgtct acaaatagac aaaaaacctg cacgcttaat gtagatcaaa agcttaacgc
      661 aaatgaaata gattgacctc ccaataacac cacgtagtta ttgggaggtc aatctatgaa
      721 atgcgattaa gctttttcta attcacataa gcgtgcaggt ttaaagtaca taaaaaatat
      781 aatgaaaaaa agcatcatta tactaacgtt ataccaacat tatactctca ttatactaat
      841 tgcttattcc aatttcctat tggttggaac caacaggcgt tagtgtgttg ttgagttggt
      901 actttcatgg gattaatccc atgaaacccc caaccaactc gccaaagctt tggctaacac
      961 acacgccatt ccaaccaata gttttctcgg cataaagcca tgctctgacg cttaaatgca
     1021 ctaatgcctt aaaaaaacat taaagtctaa cacactagac ttatttactt cgtaattaag
     1081 tcgttaaacc gtgtgctcta cgaccaaaag tataaaacct ttaagaactt tcttttttct
     1141 tgtaaaaaaa gaaactagat aaatctctca tatcttttat tcaataatcg catcagattg
     1201 cagtataaat ttaacgatca ctcatcatgt tcatatttat cagagctcgt gctataatta
     1261 tactaatttt ataaggagga aaaaatatgg gcatttttag tatttttgta atcagcacag
     1321 ttcattatca accaaacaaa aaataagtgg ttataatgaa tcgttaataa gcaaaattca
     1381 ttataaccaa attaaagagg gttataatga acgagaaaaa tataaaacac agtcaaaact
     1441 ttattacttc aaaacataat atagataaaa taatgacaaa tataagatta aatgaacatg
     1501 ataatatctt tgaaatcggc tcaggaaaag ggcattttac ccttgaatta gtacagaggt
     1561 gtaatttcgt aactgccatt gaaatagacc ataaattatg caaaactaca gaaaataaac
     1621 ttgttgatca cgataatttc caagttttaa acaaggatat attgcagttt aaatttccta
     1681 aaaaccaatc ctataaaata tttggtaata taccttataa cataagtacg gatataatac
     1741 gcaaaattgt ttttgatagt atagctgatg agatttattt aatcgtggaa tacgggtttg
     1801 ctaaaagatt attaaataca aaacgctcat tggcattatt tttaatggca gaagttgata
     1861 tttctatatt aagtatggtt ccaagagaat attttcatcc taaacctaaa gtgaatagct
     1921 cacttatcag attaaataga aaaaaatcaa gaatatcaca caaagataaa cagaagtata
     1981 attatttcgt tatgaaatgg gttaacaaag aatacaagaa aatatttaca aaaaatcaat
     2041 ttaacaattc cttaaaacat gcaggaattg acgatttaaa caatattagc tttgaacaat
     2101 tcttatctct tttcaatagc tataaattat ttaataagta agttaaggga tgcataaact
     2161 gcatccctta acttgttttt cgtgtaccta ttttttgtga atcgattatg tcttttgcgc
     2221 attcacttct tttctatata aatatgagcg aagcgaataa gcgtcggaaa agcagcaaaa
     2281 agtttccttt ttgctgttgg agcatggggg ttcagggggt gcagtatctg acgtcaatgc
     2341 cgagcgaaag cgagccgaag ggtagcattt acgttagata accccctgat atgctccgac
     2401 gctttatata gaaaagaaga ttcaactagg taaaatctta atataggttg agatgataag
     2461 gtttataagg aat
//
