LOCUS       NZ_CP125865             3567 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Staphylococcus aureus strain 19-00012 plasmid p19-00012_2, complete
            sequence.
ACCESSION   NZ_CP125865
VERSION     NZ_CP125865.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35074234
            Assembly: GCF_038789165.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3567)
  AUTHORS   Schuermann,J., Fischer,M.A., Reemtsma,T., Karte,J., Staerk,H.-J.,
            Strommenger,B., Werner,G., Layer-Nicolaou,F. and Schuster,C.F.
  TITLE     The genes mgtE and spoVG are involved in zinc tolerance of
            Staphylococcus aureus
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3567)
  AUTHORS   Schuermann,J., Layer-Nicolaou,F., Schuster,C.F., Fischer,M.A. and
            Werner,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-MAY-2023) Unit 13: Nosocomial Pathogens and Antibiotic
            Resistances, Robert Koch Institute, Burgstr. 37, Wernigerode 38855,
            Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 23-MAR-2023
            Assembly Method                   :: Unicycler v. 0.5.0
            Assembly Name                     :: 19-00012_RKI_Sau
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 160.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038789165.1-RS_2024_04_30
            Annotation Date                   :: 04/30/2024 23:57:33
            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)                     :: 2,775
            CDSs (total)                      :: 2,693
            Genes (coding)                    :: 2,605
            CDSs (with protein)               :: 2,605
            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)              :: 88
            CDSs (without protein)            :: 88
            Pseudo Genes (ambiguous residues) :: 0 of 88
            Pseudo Genes (frameshifted)       :: 41 of 88
            Pseudo Genes (incomplete)         :: 44 of 88
            Pseudo Genes (internal stop)      :: 24 of 88
            Pseudo Genes (multiple problems)  :: 18 of 88
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP125865.1.
            Bacteria and source DNA available from Robert Koch Institute, Unit
            13 Nosocomial Pathogens and Antibiotic Resistances, Burgstr. 37,
            Wernigerode 38855, Germany.
            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..3567
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="19-00012"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="p19-00012_2"
                     /geo_loc_name="Germany"
                     /collection_date="2019"
                     /collected_by="Robert Koch Institute"
                     /genotype="ST398"
     gene            complement(117..440)
                     /gene="qacC"
                     /locus_tag="QM319_RS13855"
                     /old_locus_tag="QM319_13840"
     ARG             complement(121..440)
                     /name="qacC"
                     /gene="qacC"
                     /gene_name="quaternary ammonium compound efflux SMR
                     transporter QacC"
                     /tool="amrfinderplus"
                     /drug_class="QUATERNARY AMMONIUM"
                     /identity="99.07"
                     /coverage="100.0"
     gene            1065..2003
                     /locus_tag="QM319_RS13860"
                     /old_locus_tag="QM319_13845"
     CDS             1065..2003
                     /locus_tag="QM319_RS13860"
                     /old_locus_tag="QM319_13845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167206.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_029264623.1"
                     /translation="MIKKAEEIQAKQSLENENLNFSKTGYSNSRLSVQTLGQSQPKLSF
                     DAMTIVGNLNKNNAQKLSEFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADTWD
                     RRNMRVEFNPNKLTHDEMLWLKKNVIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKTVK
                     KTVLYGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADVEVMSEHLWRVEVELKRDMV
                     DYWNDCFNDLHILKPAWTTLEKINEQAMVYTLLHEESMWGKLSRNTKYKFKNLIKEISP
                     VDLTELMKSTLKANEKQLQKQIDFWLSDFEF"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            2245..3513
                     /gene="mobV"
                     /locus_tag="QM319_RS13865"
                     /old_locus_tag="QM319_13850"
     CDS             2245..3513
                     /gene="mobV"
                     /locus_tag="QM319_RS13865"
                     /old_locus_tag="QM319_13850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000331753.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_031766525.1"
                     /translation="MPYSIIRVAKVKSKTNTKGIQKHVQRQNKNYENMDIDLEKSYLNY
                     DLVNDSPIDYNQKIDEKIEQNYNGKRKIRKDAVKHIDGLITSGNEFFKNQTLEETKQFF
                     EHAKTFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITEDGRLSAKEVLGNKKALTEFQ
                     DRFNEHINSCGYDLSRGITRGVTPRRHEQISRYKNLTDYHKEEYEHESRKLDRIKQESE
                     EVMEQYQNALDVLKKPINVPYELETEKVGGLFNKETQETGNVVIDKNEFDLLQEQVKAS
                     QLITDDYEYIKSGKALKDFEEKNKRLEDRLLDEQIKNGKVIDEYNDLADSYNNLLEQNQ
                     EKEKELNRSYKLFNNVFKLIKGVMKEETYHSLINHIDNHLESSKMRETMIVDDNDEQFF
                     KKKYQRHEPEIIFEDERDDGYTL"
                     /name="mobV"
     ARG             complement(118..440)
                     /name="qacJ"
                     /gene="qacJ"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="71.03"
                     /coverage="100.0"
     Typing          1114..1983
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.317"
                     /coverage="93.0"
                     /evalue="0.0"
     Typing          2186..3510
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.774"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaacttgca gacgaaagtc ggcatagcgt gagctattaa gccgaccatt cgacaagttt
       61 tgggtttgtt aagggttcgg aggctcaacg tcaataaagc aattggaata aagcaattaa
      121 tgcgatgttc cgaaaatgtt taacgaaact acgccgacta tgattaaaac tatagatact
      181 atagttatta gatttatttg ttctttgaaa ataattattg agactacggt tgttaagact
      241 aaacctagtc ccgcccaagt tgcataagtt atatttagtg gtaggtgttg cattgtttta
      301 cttaaaaaat agaaacaaat tccaaatgaa attattgttc ctaaggatgg tataaatttt
      361 gaaaagcctt ctgaagattt aagaaatgca cttccaataa cttcagtact tatggatatt
      421 attaaataaa tataaggcat ttttaactcc ttttaatttt cgtattttat ttaattttat
      481 tctaagtatt tttcatttgc aacgatcctt ttatttttta tttgtatcag tatcaatttt
      541 acagtaaaca tgcatttatg ccgagaaaat ttattgatgt tgagaagaac ccttaactaa
      601 acttggagac gaatgtcggc atagcgtgag ctattaagcc gaccattcga caagttttgg
      661 gattgttaag ggttccgagg ctcaacgtca ataaagcaat tggaataaag caataaaagg
      721 agttgaagaa atgaaattta gagaagcttt tgagaatttt atagcaagta agtatgtact
      781 tggtgtttta gtagttttaa ctgtttacca gataatacaa atgcttaaat aaaaaaagac
      841 ctgatctgat tagaccaagt cttttgatag tgttatatta ataacaaaat aaaaagaagt
      901 cgctcactcc ctcgccaaag tttgtgatag cgacttacct agaaaaaaca ctaagttgtt
      961 tttttatatc ttgtatatct agatattaaa cgatataagt ttattcttca agatatatat
     1021 tcgggtgagc gacttcttaa attaaattaa ggagttgttt ttttatgatt aaaaaagcag
     1081 aagaaattca ggcaaaacaa agcttagaaa acgaaaactt aaatttttct aaaaccggat
     1141 actctaatag ccggttaagt gttcaaactt tgggacaatc tcaaccaaaa ttaagttttg
     1201 atgctatgac tattgttgga aatcttaata aaaataatgc tcaaaaacta tctgaattta
     1261 tgagtgttga gccacaaatt agactttggg atatattaca aacaaaattt aaagctaaag
     1321 cacttcaaga aaaagtttat attgaatatg acaaagtaaa agcagataca tgggatagac
     1381 gtaatatgcg ggttgaattt aatccgaata aattaacaca cgatgaaatg ctatggttaa
     1441 agaaaaatgt tatcgactac atggaagatg acggttttac aagattagat ttggcttttg
     1501 attttgaaga tgatttaagc gattactatg caatgactga taaaacagtt aaaaaaactg
     1561 ttttatatgg tcgtaatggc aagccagaaa caaaatattt tggagttcgt gatagtgata
     1621 gatttattag aatttataat aaaaaacaag aacgtaaaga taacgcagat gttgaagtta
     1681 tgtctgaaca tctgtggcgt gtagaagttg aattgaaaag agatatggtt gattactgga
     1741 atgattgttt taatgactta cacattttga aacctgcgtg gactacttta gaaaaaatta
     1801 atgagcaagc tatggtttat actttgctgc atgaagaaag tatgtgggga aaattaagta
     1861 ggaatactaa gtataaattt aaaaatttaa ttaaagaaat atctccagtt gatttaacgg
     1921 aattaatgaa atcgacttta aaagcaaacg aaaaacaatt gcaaaagcag attgattttt
     1981 ggctatcaga ttttgaattt tgagtgcatt aaattttata cacgaagtga tcataaaatt
     2041 taaaaacgaa tttgcgacca ccatttttgg tcgcaggttt tgaacttatg gactgacttg
     2101 ttcagtccat tttttgtgct tgcacaaaaa ctagcctcgc agagcacacg gtttaacgac
     2161 ttaattacga agtaaataag tctagtgtgt tatactttaa taaataaagc tacgcaaaaa
     2221 catgtgcagt ggagggattt taatatgccg tattctatta tcagagttgc taaagtaaaa
     2281 tcaaaaacga atacaaaagg tattcaaaaa catgtacaaa gacaaaataa aaattatgaa
     2341 aatatggata ttgatttaga aaaatcatac ttaaattatg atttagtcaa tgatagtccg
     2401 attgattata atcaaaaaat cgatgagaaa attgaacaaa attataatgg gaaacgcaaa
     2461 attagaaaag acgcagtaaa acatattgat ggtttaatta catctggtaa tgaatttttt
     2521 aaaaatcaaa cacttgaaga aacaaagcag ttttttgaac atgctaaaac gtttttagaa
     2581 caagagtatg gaaaagataa tttattatat gcaacagtgc atatggacga aaaaacacct
     2641 catatgcatt atggggtagt tccgattaca gaagatggtc gattgagtgc gaaagaggtt
     2701 ttaggtaata aaaaggcact aactgaattt caagatagat ttaacgaaca tatcaatagt
     2761 tgtggttatg acttgagtag aggtataaca aggggcgtta caccgagacg acatgagcag
     2821 ataagtcgtt ataaaaattt aacagattat cacaaagaag aatatgagca tgagagccga
     2881 aaattagacc gtataaagca agaaagcgaa gaagtaatgg aacagtatca aaatgcttta
     2941 gatgttctaa aaaagcctat aaatgtccca tatgagcttg aaactgaaaa agttggtgga
     3001 ctgttcaaca aagaaacaca ggaaacaggt aacgtcgtta ttgataaaaa tgaatttgat
     3061 ttattgcagg aacaagtaaa agcttctcaa ctcattactg atgattatga atatattaaa
     3121 agcggaaagg ctttaaaaga ttttgaggaa aaaaacaaaa gattagaaga tagattatta
     3181 gacgaacaga ttaaaaatgg aaaagtaata gatgaataca atgatttagc ggatagttat
     3241 aataatttat tggaacaaaa tcaagaaaaa gaaaaagagt taaaccgttc gtataaacta
     3301 tttaacaatg tgtttaagtt gattaaaggt gtgatgaaag aagaaacata tcattcgttg
     3361 attaaccata ttgataatca cttagaaagc tcaaaaatgc gagaaacaat gattgtagat
     3421 gataacgatg aacaattctt taagaaaaaa tatcaaaggc atgaaccaga aattattttt
     3481 gaagatgaac gagatgatgg ctacacttta taaagacgac gcatttatgc cgagaaaatt
     3541 tattgtgcgt tgagaagaac ccttaac
//
