LOCUS       NZ_CP071105             4265 bp    DNA     circular CON 06-JUN-2024
DEFINITION  Staphylococcus aureus strain PS/BAC/317/16/W plasmid unnamed1,
            complete sequence.
ACCESSION   NZ_CP071105
VERSION     NZ_CP071105.1
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 4265)
  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
            CP071105.1.
            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..4265
                     /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="unnamed1"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2016"
                     /collected_by="UK NHSBT-NHS (Contact: Carl McDonald)"
     gene            complement(join(4085..4265,1..158))
                     /gene="mobC"
                     /locus_tag="JYA73_RS12925"
                     /old_locus_tag="JYA73_002587"
     CDS             complement(join(4085..4265,1..158))
                     /gene="mobC"
                     /locus_tag="JYA73_RS12925"
                     /old_locus_tag="JYA73_002587"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_063125037.1"
                     /translation="MVTENRRESKQIKFRVTQEEYERLEQMAETLNTSVPMLAKDATQK
                     KRIKAPLIDRQGAIEIAKELRAIGTNINQITRAVNTKELIDYDIGNALLDELGDLRNEM
                     GKLWQLLK"
                     /name="mobC"
     gene            996..1484
                     /locus_tag="JYA73_RS12930"
                     /old_locus_tag="JYA73_002588"
     CDS             996..1484
                     /locus_tag="JYA73_RS12930"
                     /old_locus_tag="JYA73_002588"
                     /inference="COORDINATES: protein motif:HMM:NF017542.4"
                     /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_078270799.1"
                     /translation="MTKERYGTVYKGKEMYVNQETGEVLEVDKIYRQQVQGNFVKAYIK
                     GLVMMLDVVGGSKLKVVNYLLDNLRLSDNKLIATTREIADNTKTSPTTVTDTLKTLENG
                     NVIKRRTGVIMLNPEILLRGDDNKHRHLLVEFEEFDRANEEQHAKVEYDSFKNNSDTL"
                     /name="replication/maintenance protein RepL"
     gene            1759..2268
                     /locus_tag="JYA73_RS12935"
                     /old_locus_tag="JYA73_002589"
     CDS             1759..2268
                     /locus_tag="JYA73_RS12935"
                     /old_locus_tag="JYA73_002589"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002504405.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063125036.1"
                     /translation="MKKILSATIAGTLLATGVGSALNNPIAKAENVQKAETISQDVKSD
                     KQYQALSPESKESFRVIVESNNYNNQQQMQLLRDTGQTKGISENGTSDRGKIGITKKVV
                     KQAWKTLPPNIKKKIGTQSKFYGAVKTFDHFTDDIENGIYKKMKGFGLTNNEAWIATKA
                     ITLIIL"
                     /name="hypothetical protein"
     gene            complement(2994..4103)
                     /locus_tag="JYA73_RS12940"
                     /old_locus_tag="JYA73_002590"
     CDS             complement(2994..4103)
                     /locus_tag="JYA73_RS12940"
                     /old_locus_tag="JYA73_002590"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_063125038.1"
                     /translation="MAVIKISATKSLNRLISYAEKKAEVQSGVNVDDEFAKEQMKTTQM
                     IFNKNDGRQGYHLIQSFDPEDNITPEEANEIGQELAKEVAPDHEITIYTHTDRDHIHNH
                     ICINSVNMNTGKKFVNDRNKLYEMRNKSNELCQRYNLVNSSNKQAQIRYTQAERAIIEK
                     GQISWKDEIRQAIDKEKLNANSFDEFKDNMQENYGIEVKERGKNISFKHPDKKAFVRGK
                     TLGNAYEKGTINNELNRESERTEQQTQSDRPKQVVRTNERPRGTDKNVEKRADVTRIEH
                     YSRDNGDTQSVGQDTKPNHKGTKRNSKRERDFRRAFEKHNERTAELNGRADEELPDREQ
                     ENVRDNQADIGEDRAEPQLEIELDGPELQ"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          997..1484
                     /name="rep_cluster_1944"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2998..4103)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atcaatggtg cttttatacg ttttttctgc gttgcatctt tcgcaagcat tggaacagat
       61 gtatttaacg tttctgccat ttgttctaat cgctcgtatt cttcttgcgt cactctgaac
      121 tttatttgct tgctttctcg tctattctcc gtaaccaaca atcgcacctc tcttcatcaa
      181 gtttaggggg cgacggcaaa aatgtgccgt caaatttgcc ccctaaagct atcatgtttt
      241 tagtctggcg cttaatattt gcgccaccct aaaaaacgcc cgtatgttga attatttaat
      301 tgtcggcaac aattaaataa acaactttac ggtctcatca tagcattgat gagagagctt
      361 tggcaagata cgtgtatggt acccatacac ctaattgttg gggcgctccc caatccccct
      421 gtttttgctg acgcaaaaag gaagtgtcaa aatgacactt ccaaaaacca aaacccaagc
      481 aaccaaaaat gtggttgcta tgtccgttta ctgaaatacc gtaaacggcg ttcatatata
      541 ttttatgatc tgctcgttaa cactcacagt ataaaatatt attcactcaa aaatgcatta
      601 acgcattcac ttcttttcta tatgaatatg aacgaagtga ataagcgtcg gacgagcagc
      661 aaaaagtttc ctttttgctg tcggagcatg ggggttcagg gggtgcagta tctgacgtca
      721 atgccgagcg aaagcgagcc gaagggtagc atttacgtta gataaccccc tgatatgctc
      781 cgacgcttta tatagaaaag aagattcaac tacttaaatt cttaatatag gttgatataa
      841 caatgtttat aaggaatttg tttgtaacag ttttctggta tatttgtaac agttttctgt
      901 aacaaaatcg attttataac tatttttttg gtatttatgt tactatattt ttgtaacgtt
      961 tgtttcaatt tataacaaca ggaggttaga tttaaatgac taaagaaaga tatggaactg
     1021 tatacaaagg taaagaaatg tatgttaatc aagaaacagg agaggtatta gaagtagata
     1081 agatatacag gcaacaagta cagggaaact ttgttaaagc gtatattaaa ggactagtaa
     1141 tgatgttaga tgtagtaggt ggtagtaagc taaaagtcgt taattactta ttagataatt
     1201 tacgactatc agacaataaa cttatagcca cgactagaga aattgcagac aatacaaaaa
     1261 ccagtcctac aactgtaaca gacacattaa aaactcttga aaacggtaat gtcattaagc
     1321 gtagaactgg tgtaattatg ctaaatcctg aaatactttt acgtggagat gataataagc
     1381 atagacattt gcttgtagaa tttgaggagt tcgacagagc aaatgaagaa caacacgcaa
     1441 aagttgaata tgatagcttt aaaaataact cagatacatt ataacatgtc gtgacatgtt
     1501 agtaacaaaa cttaattctg gttggggagt gggcgacttc tttttttatt ttgttattaa
     1561 tataacacta acaaaaagct tggtctatta tggctaagct ttttgtatat caaaactcat
     1621 cttattttaa ttttgataca catttataaa aattcttaat cattttttta caataaacta
     1681 taaaaagcgt tgtttttttg ttattttata tttgggaatg tttttgggag aatatcttga
     1741 taaaggagtt tctacacaat gaaaaaaatt ttatctgcta caatagctgg aacattatta
     1801 gctacaggtg ttggaagtgc tttaaataat cctattgcta aagccgaaaa tgtacagaaa
     1861 gcagaaacta tttctcaaga tgtaaaatct gacaagcaat atcaagcttt atcaccagaa
     1921 tctaaagaaa gtttcagagt cattgttgaa agtaataact ataataatca acaacagatg
     1981 caactactca gagatacagg tcaaacaaaa ggtatttctg aaaatggaac ttctgatcgt
     2041 gggaaaattg gtattacaaa aaaagttgta aaacaagctt ggaaaacatt acctcctaat
     2101 ataaaaaaga aaatcggaac acaaagtaaa ttctatggtg ctgtaaaaac tttcgaccac
     2161 tttactgatg atatagaaaa tggtatatac aaaaaaatga aaggttttgg tttaactaac
     2221 aacgaagctt ggatagctac taaagccatt acactaatca ttttataatt aagggaggcc
     2281 tttaatggca ccacatatat ttatgttcct aataactatt tcagttattt cctacattgt
     2341 ttataatttt ataaaggata aacctgttat taatgtcttt atagcagtaa tcatacaatc
     2401 atttttatta tttataataa gatttctttg gttaaaacaa tcatttagtg atgcatttgc
     2461 tctgtctttt gatttattaa ccataattat agttatcgtt tattgtattt ataagttcaa
     2521 taaaagaaat aaacaagcac agtgaaattg acgtaattat cctttattaa tccagaatat
     2581 attaaaggag ctagtctatt ttagattagc tcctttcttc atgtctatta tcttttttct
     2641 aatcattatt taaaatcttt aattaaaatt taacctcatt aaaaaattgc attattccaa
     2701 ttcctctatt tgtcgacgat tctgcgctcc ttaataatcc taaagctgtc catcggtcga
     2761 tttgatagct gacgctatcc gaccgctggc gcttttagtc taattaaggg ctctcatcga
     2821 caaatagatt ttctcggcat aaaacgtgct taatcattta tatggctcat ataaccccta
     2881 taaaatgcaa aataaggact aatatcgttg ttaggatact tgaaccccca atattgatta
     2941 aatggtttct aaggttattc atattgcttg tatgtcgaat atgagaaacc atgctattga
     3001 agttctggtc catcgagttc aatttcgagt tgtggctctg ctctatcttc tccaatgtcg
     3061 gcttgattgt ctctaacatt ttcttgttct ctgtctggaa gttcttcatc tgctcgtcca
     3121 ttaagttctg cagtgcgctc attatgcttt tcaaatgctc tacggaagtc tcgttctcgc
     3181 ttgctatttc tttttgtgcc tttgtgattt ggtttagtat cttgtccgac gctttgtgta
     3241 tcgccgttat ctcttgagta atgctcgatt ctagtaacat cggctcgttt ctcaacgttc
     3301 ttatctgtgc ctctaggtct ttcatttgtt ctaacaactt gttttggtct atctgattgc
     3361 gtctgttgtt ctgttcgttc actctctctg ttaagctcat tgtttatcgt tcctttctcg
     3421 taagcattgc ctaaagtttt acctctcaca aatgcttttt tatcgggatg tttgaaactg
     3481 atattctttc cacgttcctt aacttcaata ccgtagttct cttgcatatt atctttaaat
     3541 tcatcaaagc tattcgcatt taatttttct ttatcaatcg cttgtctaat ttcatctttc
     3601 caactgattt gacctttttc tatgattgct ctttctgcct gtgtgtacct aatttgtgcc
     3661 tgtttgttgc tagaattaac taaattgtat ctttggcata actcattact tttattacgc
     3721 atttcataaa gcttatttct atcattcaca aattttttcc ctgtattcat attcacacta
     3781 tttatgcata tatgattatg aatatggtct ctatctgtat gcgtataaat cgttatttca
     3841 tggtctggtg caacttcttt tgctaattct tgacctatct cattggcttc ttctggtgtg
     3901 atattatctt ctggatcgaa tgactgaatt aaatgataac cctgtcgtcc gtcgttttta
     3961 ttaaatatca tttgtgttgt tttcatctgc tctttcgcaa attcatcatc gacatttaca
     4021 cctgattgca cttctgcttt cttttctgca tacgatataa gcctatttaa agactttgta
     4081 gcgcttattt taataactgc catagtttcc ccatctcgtt tcttaaatcg cctaattcgt
     4141 ccaatagtgc gtttcctatg tcataatcaa ttaattcttt tgtattcact gctcttgtaa
     4201 tctgattaat attcgttcca attgctctta actctttagc aatttcaatt gcaccttgtc
     4261 tatca
//
