LOCUS       NZ_CP131673             2366 bp    DNA     circular CON 24-APR-2024
DEFINITION  Staphylococcus aureus strain 2004N07-109 plasmid p2004N07-109-3,
            complete sequence.
ACCESSION   NZ_CP131673
VERSION     NZ_CP131673.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36766256
            Assembly: GCF_038430115.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2366)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Rapid Diagnostics and Real-time Genomic Surveillance System for
            Pathogens from Culture
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2366)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JUL-2023) National Institute of Infectious Diseases
            and Vaccinology, National Health Research Institutes, No. 35, Keyan
            Road, Zhunan Town, Miaoli County 350, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 12-NOV-2018
            Assembly Method                   :: CCBGpipe v. 1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology :: Oxford Nanopore MinION and Illumina iSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038430115.1-RS_2024_04_24
            Annotation Date                   :: 04/24/2024 00:04:41
            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)                     :: 2,872
            CDSs (total)                      :: 2,790
            Genes (coding)                    :: 2,703
            CDSs (with protein)               :: 2,703
            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)              :: 87
            CDSs (without protein)            :: 87
            Pseudo Genes (ambiguous residues) :: 0 of 87
            Pseudo Genes (frameshifted)       :: 45 of 87
            Pseudo Genes (incomplete)         :: 38 of 87
            Pseudo Genes (internal stop)      :: 19 of 87
            Pseudo Genes (multiple problems)  :: 14 of 87
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP131673.1.
            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..2366
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="2004N07-109"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="p2004N07-109-3"
                     /geo_loc_name="Taiwan"
                     /collection_date="2004"
                     /collected_by="NHRI"
     gene            complement(join(1954..2366,1..322))
                     /gene="erm(C)"
                     /locus_tag="Q7635_RS14355"
                     /old_locus_tag="Q7635_14350"
     CDS             complement(join(1954..2366,1..322))
                     /gene="erm(C)"
                     /locus_tag="Q7635_RS14355"
                     /old_locus_tag="Q7635_14350"
                     /EC_number="2.1.1.184"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011282421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /protein_id="WP_001003263.1"
                     /translation="MNEKNIKHSQNFITSKHNIDKIMTNIRLNEHDNIFEIGSGKGHFT
                     LELVQRCNFVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQSYKIFGNIPY
                     NISTDIIRKIVFDSIADEIYLIVEYGFAKRLLNTKRSLALFLMAEVDISILSMVPREYF
                     HPKPKVNSSLIRLNRKKSRISHKDKQKYNYFVMKWVNKEYKKIFTKNQFNNSLKHAGID
                     DLNNISFEQFLSLFNSYKLFNK"
                     /name="erm(C)"
     gene            complement(1030..1506)
                     /locus_tag="Q7635_RS14360"
                     /old_locus_tag="Q7635_14355"
     CDS             complement(1030..1506)
                     /locus_tag="Q7635_RS14360"
                     /old_locus_tag="Q7635_14355"
                     /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(1955..2364)
                     /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="99.26"
                     /coverage="55.74"
     ARG             complement(3..322)
                     /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="100.0"
                     /coverage="43.85"
     Typing          complement(1021..1506)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tacttatgtt ataaggtata ttaccaaata ttttatagga ttggttttta ggaaatttaa
       61 actgcaatat atccttgttt aaaacttgga aattatcgtg atcaacaagt ttattttctg
      121 tagttttgca taatttatgg tctatttcaa tggcagttac gaaattacac ctctgtacta
      181 attcaagggt aaaatgccct tttcctgagc cgatttcaaa gatattatca tgttcattta
      241 atcttatatt tgtcattatt ttatctatat tatgttttga agtaataaag ttttgactgt
      301 gttttatatt tttctcgttc attataaccc tctttatttt ttcctcctta taaaattagt
      361 ataattatag cacgagctct gataaatatg aacatgatga gtgatcgtta aatttatact
      421 gcaatctgat gcgattattg aataaaagat atgagagatt tatctagttt ctttttttac
      481 aagaaaaaag aaagttctta aaggttttat acttttggtc gtagagcaca cggtttaacg
      541 acttaattac gaagtaaata agtctagtgt gttagacttt aatgtttttt taaggcatta
      601 gtgcatttaa gcgtcagagc atggctttat gccgagaaaa ctattggttg gaatggcgtg
      661 tgtgttagcc aaagctttgg cgagttggtt gggggtttca tgggattaat cccatgaaag
      721 taccaactca acaacacact aacgcctgtt ggttccaacc aataggaaat tggaataagc
      781 aattagtata atgagagtat aatgttggta taacgttagt ataatgatgc tttttttcat
      841 tatatttttt atgtacttta aacctgcacg cttatgtgaa ttagaaaaag cttaatcgca
      901 tttcatagat tgacctccca ataactacgt ggtgttattg ggaggtcaat ctatttcatt
      961 tgcgttaagc ttttgatcta cattaagcgt gcaggttttt tgtctatttg tagacgattt
     1021 tatgttatac tagtccttga aagaataata atcagataat gcattttctt gtttttcatt
     1081 tgcctcttgc tcaaagttcc caaattcgag taagaggtat ttttgttttt ggtcgtcgcc
     1141 tctcattagt agttcagggt ttaacattaa tactccagtt tttcttttta taatatttcc
     1201 ttcttctaag attttaagtg ttgttattac tgtttgtaga cttgttcctg tagcttttgc
     1261 tatttctctt gttgtagcta tcattgtatt gttacttaag tggacattat ctaggatata
     1321 gttaacgatt ttaagttttt ttccgccaat catatctaac atacttatta attgcactat
     1381 atatgccttt acgaagttac cagacgtttg tttacggtat aacttgtcta cctctatgac
     1441 ttctccactt tcttcgtcta tgagcctctg agagccttta tagactgttc catatctttc
     1501 tttcatcttt ttctcactcc ttattttaaa ctattctaac tatatcataa ctgttctaaa
     1561 aaaaaaagaa catttgttaa aagaaattag aacaaaatga gtgaaaaatt agaacaaaca
     1621 aattccttat aaaccttatc atctcaacct atattaagat tttacctagt tgaatcttct
     1681 tttctatata aagcgtcgga gcatatcagg gggttatcta acgtaaatgc tacccttcgg
     1741 ctcgctttcg ctcggcattg acgtcagata ctgcaccccc tgaaccccca tgctccaaca
     1801 gcaaaaagga aactttttgc tgcttttccg acgcttattc gcttcgctca tatttatata
     1861 gaaaagaagt gaatgcgcaa aagacataat cgattcacaa aaaataggta cacgaaaaac
     1921 aagttaaggg atgcagttta tgcatccctt aacttactta ttaaataatt tatagctatt
     1981 gaaaagagat aagaattgtt caaagctaat attgtttaaa tcgtcaattc ctgcatgttt
     2041 taaggaattg ttaaattgat tttttgtaaa tattttcttg tattctttgt taacccattt
     2101 cataacgaaa taattatact tctgtttatc tttgtgtgat attcttgatt tttttctatt
     2161 taatctgata agtgagctat tcactttagg tttaggatga aaatattctc ttggaaccat
     2221 acttaatata gaaatatcaa cttctgccat taaaaataat gccaatgagc gttttgtatt
     2281 taataatctt ttagcaaacc cgtattccac gattaaataa atctcatcag ctatactatc
     2341 aaaaacaatt ttgcgtatta tatccg
//
