LOCUS       NZ_CP071106             2921 bp    DNA     circular CON 06-JUN-2024
DEFINITION  Staphylococcus aureus strain PS/BAC/317/16/W plasmid unnamed2,
            complete sequence.
ACCESSION   NZ_CP071106
VERSION     NZ_CP071106.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17983077
            Sequence Read Archive: SRR13745242, SRR13745248
            Assembly: GCF_018093225.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2921)
  AUTHORS   Yousuf,B., Flint,A., Weedmark,K., McDonald,C., Bearne,J., Pagotto,F.
            and Ramirez-Arcos,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-FEB-2021) Process and Products Development, Canadian
            Blood Services, 1575 Carling Ave, Ottawa, ON K1Z 7M3, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Trycycler v. v0.3.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 576.51x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_018093225.1-RS_2024_06_06
            Annotation Date                   :: 06/06/2024 02:10:56
            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)                     :: 2,609
            CDSs (total)                      :: 2,528
            Genes (coding)                    :: 2,400
            CDSs (with protein)               :: 2,400
            Genes (RNA)                       :: 81
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 86 of 128
            Pseudo Genes (incomplete)         :: 30 of 128
            Pseudo Genes (internal stop)      :: 27 of 128
            Pseudo Genes (multiple problems)  :: 15 of 128
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071106.1.
            Bacteria and source DNA available from Bacteria and source DNA
            available from Dr. Sandra Ramirez-Arcos, 1575 Carling Ave, Ottawa,
            ON.
            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..2921
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="PS/BAC/317/16/W"
                     /isolation_source="isolated from contaminated platelets"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2016"
                     /collected_by="UK NHSBT-NHS (Contact: Carl McDonald)"
     gene            complement(243..566)
                     /gene="qacC"
                     /locus_tag="JYA73_RS12945"
                     /old_locus_tag="JYA73_002591"
     ARG             complement(247..566)
                     /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            929..1852
                     /locus_tag="JYA73_RS12950"
                     /old_locus_tag="JYA73_002592"
     CDS             929..1852
                     /locus_tag="JYA73_RS12950"
                     /old_locus_tag="JYA73_002592"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002499696.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_211022135.1"
                     /translation="MDKYTEKKQRNQVFQKFIERHVKEGQMDLIRECNTFLSFVADRTL
                     EKQKLHKSNLCKNRFCPVCAWRKARKDALGLSLMMQYIKQREDKQFIFLTLTTPNVTSE
                     HLENEIKNYNHAFQKMFKRKKVISATKGYVRKLEITYNEKRDDYNPHFHVLIAVNKSYF
                     TDKRYYISQKEWLNLWRDVTGISEITQVHVQKIKQNSNKELYEMAKYSGKDSDYLINQK
                     VFDAFYKSLKGKQILVYSGLFKEARKKLKNGDLDYLKDVDPTEYIYQIFYIWNQKEYLA
                     SEIYDLTEQEKREINHRMIDEIEEEN"
                     /name="protein rep"
     ARG             complement(244..566)
                     /name="qacJ"
                     /gene="qacJ"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="72.9"
                     /coverage="100.0"
     Typing          930..1850
                     /name="rep_cluster_1281"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.749"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttgtggttta ttttgtattt tttattttat atggctattg ttttattttg gaaaccttcg
       61 aaaaacaaaa agtagaacag gcatttatgc cgagaaaatt tattgatgtt gagaagaacc
      121 cttaactaaa cttgcagacg aatgtcggca tagcgtgagc tattaagccg accattcgac
      181 aagttttggg attgttaagg gttccgaggc tcaacgtcaa taaagcaatt ggaataaagc
      241 aattaatgcg atgttccgaa aatgtttaac aaaactacgc cgactatgat taaaactata
      301 gatactatag ttattagatt tatttgttct ttgaaaataa ttattgagac tacggttgtt
      361 aagactaaac ctagtcccgc ccaagttgca taagttatat ttagtggtag gtgttgcatt
      421 gttttactta aaaaatagaa acaaattcca aatgaaatta ttgttcctaa ggatggtata
      481 aattttgaaa agccttctga agatttaaga aatgcacttc caataacttc agtacttatg
      541 gctattatta aataaatata aggcattttt aactcctttt aattttcgta ttttatttaa
      601 ttttattcta agtatttttt aattgtagtc ttgtattttg agtgtcattc gcgtggtatt
      661 tttgtggatt gatggttttt gaaaggtttt tgaaacgagt tgaaaacgag tttcttcttg
      721 tcttgatact ataggtaact attcccgtcc ggaagaatat cgcttgaata gttgatatga
      781 ctgtgttcaa acacaaaaaa attgcttttt cttacctagt atagtaaggt tttaattgtc
      841 cagaaaaaaa ctttactaga aaggagaaaa agcaactttt ttataacatt agtttgtgta
      901 aaactaagtt gtttttaggt tatataacat ggataagtat actgagaaga aacaaagaaa
      961 tcaagtattt caaaaattta ttgaaagaca tgtaaaagaa ggacaaatgg atttgataag
     1021 ggagtgcaat acattcttga gttttgtagc agatagaacg ttagagaaac agaaattgca
     1081 taaatctaat ttgtgtaaaa atcgattttg tcctgtatgt gcatggagaa aagcgagaaa
     1141 agatgcctta ggtttatcgt tgatgatgca atatattaaa caaagagaag ataagcaatt
     1201 catcttttta acacttacga cgccaaatgt aacaagtgag catttggaga atgaaattaa
     1261 aaattataat catgcttttc aaaagatgtt taagcgtaaa aaagtgattt ctgctacgaa
     1321 aggttatgta agaaaattag aaattactta taacgaaaaa cgtgatgact ataatccgca
     1381 ttttcatgtt ttgattgccg ttaataaatc atattttaca gataaacgat attatattag
     1441 tcaaaaagaa tggctaaatt tatggcgaga tgtaacggga atttctgaaa ttacacaagt
     1501 tcatgttcaa aaaattaaac aaaatagcaa taaagaatta tacgaaatgg ctaaatattc
     1561 tggtaaggat agcgactatt taattaatca aaaagtgttt gacgcatttt ataaatcgct
     1621 taaaggaaaa caaattcttg tttattctgg attgtttaaa gaggcaagaa agaaattaaa
     1681 aaacggcgat ttagattatc taaaagatgt ggatccaact gaatatattt atcaaatttt
     1741 ttatatttgg aatcaaaaag aatacttagc aagtgaaatt tatgatttaa ctgaacaaga
     1801 aaaacgagaa attaatcatc gaatgattga tgaaatcgaa gaagaaaatt aaaaataaaa
     1861 tgtgatattt tttcttaaac gttagcaaaa aagctagcgt ttttttgttg aaaatacctt
     1921 aaaaatgttt ggtgcacaaa tgggatacaa gcacaatttg ttgggtgcac aaacgggata
     1981 cagacacaat atatagggtg tacaaacggg atacatcgaa acaaatatgc atgcattata
     2041 taaagtgatg gatttcttga aatgtctggc tttgccagac catacatttt taaatgtatg
     2101 caaatttccc ttatgctctt acaaagaatt tggagccaat tcaaaatttg gtgtttttta
     2161 aaagaaattg tccctgcagg aactaaaaaa gttgatgaat tttcgagcta ttttatgcca
     2221 aattttaatt tgcatgtaac tgggcagtgt ctaaaaattc gtcactggtt ttgctaaaaa
     2281 aatgtacgtg taattaaaat atatttattt ggctcatatt ttaattttaa gagcgtatat
     2341 gtgtttttga gtataaatct aaataaaata tcttaaaacg tctaaaaacc accttaaaat
     2401 taaaaataag ggtattctaa ttttgtaata aatcatcata caaaaaaata aaagccacct
     2461 aaaaaattag gaggcttttt gttgttctca gaaatatatt agacaagaga aaaacaacaa
     2521 agaaaagact aaaaaataca atgtatggct taccaaactc agcattgcat taacagtttt
     2581 acatatcatc aaagaattaa atatagttta acatatggtt atatctttaa gaaaaatttg
     2641 ctaaaaaagg agtttatatt ttttatgtgg ttacgttttt cagtgttatt actcatggca
     2701 gttttaatgt ttattttcat atgtcatgaa ataaatcaaa gttatttaga cttttggttt
     2761 attttgtatt ttttatttta tatggctatt gttttatttt ggaaaccttc gaaaaacaaa
     2821 aagtagaaca ggcatttatg ccgagaaaat ttattgatgt tgagaagaac ccttaactaa
     2881 acttgcagac gaatgtcggc atagcgtgag ctattaagcc g
//
