LOCUS       NZ_CP133443             2276 bp    DNA     circular CON 08-SEP-2023
DEFINITION  Staphylococcus aureus strain SA191 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP133443
VERSION     NZ_CP133443.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37160977
            Assembly: GCF_031190615.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2276)
  AUTHORS   Kornienko,M.A., Bespiatykh,D.A., Veselovsky,V.A., Boldyreva,D.I. and
            Shitikov,E.A.
  TITLE     Multiomics analysis of Staphylococcus aureus sequencing-type 239
            strains resistant to virulent bacteriophages of the Herelleviridae
            family
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2276)
  AUTHORS   Kornienko,M.A., Bespiatykh,D.A., Veselovsky,V.A., Boldyreva,D.I. and
            Shitikov,E.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-AUG-2023) Biomedicine and genomics, Lopukhin Federal
            Research and Clinical Center of Physical-Chemical Medicine of FMBA,
            Malaja Pirogovskaja str. 1A, Moscow 119435, Russia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: trycycler v. 0.5.4; flye v. 2.9.2-b1786; canu v.
            2.2; reven v. 1.8.1; medaka v. 1.7.3; polypolish v. 0.5.0; polca v.
            4.1.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 249.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore PromethION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/07/2023 07:13:28
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,945
            CDSs (total)                      :: 2,865
            Genes (coding)                    :: 2,758
            CDSs (with protein)               :: 2,758
            Genes (RNA)                       :: 80
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 60
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 107
            CDSs (without protein)            :: 107
            Pseudo Genes (ambiguous residues) :: 0 of 107
            Pseudo Genes (frameshifted)       :: 67 of 107
            Pseudo Genes (incomplete)         :: 37 of 107
            Pseudo Genes (internal stop)      :: 23 of 107
            Pseudo Genes (multiple problems)  :: 19 of 107
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP133443.1.
            Bacteria and source DNA available from Lopukhin Federal Research
            and Clinical Center of Physical-Chemical Medicine of FMBA.
            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..2276
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="SA191"
                     /isolation_source="spinal fluid"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed1"
                     /geo_loc_name="Russia"
                     /lat_lon="55.7558 N 37.6173 E"
                     /collection_date="2019"
                     /collected_by="Lopukhin Federal Research and Clinical
                     Center of Physical-Chemical Medicine of FMBA"
     gene            complement(603..1607)
                     /locus_tag="RDJ18_RS14710"
                     /old_locus_tag="RDJ18_14710"
     CDS             complement(603..1607)
                     /locus_tag="RDJ18_RS14710"
                     /old_locus_tag="RDJ18_14710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020368559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199882.1"
                     /translation="MQYNTTRCIDENQDNETLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVVKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFLRST
                     EVTVNKNDGSYNQHMHVLLCVENSYFKNKANYITQEEWVNLWQKALQVNYRPVANIKAI
                     KPNQKGDKDIQAAIKETSKYSVKSSDFLTDDDERNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     gene            1929..2252
                     /gene="qacC"
                     /locus_tag="RDJ18_RS14715"
                     /old_locus_tag="RDJ18_14715"
     ARG             1930..2249
                     /name="qacC"
                     /gene="qacC"
                     /gene_name="quaternary ammonium compound efflux SMR
                     transporter QacC"
                     /tool="amrfinderplus"
                     /drug_class="QUATERNARY AMMONIUM"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             1930..2252
                     /name="qacJ"
                     /gene="qacJ"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="71.96"
                     /coverage="100.0"
     Typing          complement(604..1607)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gacgttgagc ctcggaaccc ttaacaatcc caaaacttgt cgaatggtcg gcttaatagc
       61 tcacgctatg ccgacattcg tctgcaagtt tagttaaggg ttcttctcaa cgcacaataa
      121 attttctcgg cataaatgcg tgttcttgtt ataatataga catcacattt agggtgctta
      181 ttaaaagtag ttttttataa tctacttcgc aaaagcaaat aaaaagccaa tccattttat
      241 ctgggttggc tttttatttt tatatgcctt tatttgaatt ttaagggggc attttaaaga
      301 ttcaggggta aatcatatag ttttatacct aaaagtctat atacgctttt aaaacgcaaa
      361 tatgagccaa ataaatatat cttaatttca caaacaaaaa tttgagcaaa accagtgact
      421 aattttttag acactgccca gttatatgca aattaaaaat ttagcaaact gggcagaaaa
      481 aaataaacac tgcccattta catgcaaact taaaagttaa catgaaaact ggtcaaccat
      541 gccggttgaa cgctatagtt cccgcagggg caaaaagaca taaaaaaacg ctagcttttt
      601 agctaacgtt tcaaatcttt taaataataa ttttgttttt caaaattcca aattgccgta
      661 attgaatgtg ctttttcttc ttcgtctgtt gttttatctt cgtcacttgt attaatcaaa
      721 ttgccatctt cggcatcatc taaatttaaa atcttatgtt tttgtttaag caaaccacca
      781 taactcaaca tacgttttcg atataaacct ttttctaaat cattcacgat ttcttgattt
      841 ctttcatcat catcagttaa aaaatcagat gacttaaccg aatatttaga ggtttctttg
      901 atagctgctt gaatatcttt atcgcctttt tgatttggtt tgatcgcttt aatatttgct
      961 acgggtcgat aatttacttg taatgctttt tgccataaat taacccattc ttcttgagtt
     1021 atataattag ctttattctt aaaataacta ttttcaacac ataataaaac atgcatatgt
     1081 tgattataac taccatcatt tttattaact gttacttccg ttgaacgcaa aaacccaaca
     1141 agattttgct tcactttttt atatctactt aacctatcaa atgctttcgt taaatgtttc
     1201 aaactttgtt ctaaagtatc cccatctatc gcatttttcg ttgaaagtgt taaaaataac
     1261 caacgcgctt ttggtttttc tttaacaact tcttcaatca ctttttgagc ttgataacta
     1321 tttttcatag cacgcctcca attacaaact gggcagagtt tcgacttaca aaaccatgtc
     1381 ttatgtaact tcaaataacc ttcatcagtc ggcttgaact ctaagacgtt accacattgt
     1441 tttacattaa aagccttttt tatttttaaa atttccagta tatctgcata acttacatta
     1501 tctatcttct tttctctcca tgggcgttgt ttcccacttt tcgtcatatc tttaagtgtt
     1561 tcgttatctt gattttcgtc tatacatcta gtagtattat attgcatata aagagacctc
     1621 cagtagttgt ttattgagta gacgctttaa tcatactact gggttttttt tatgtcaaaa
     1681 attcctttca acaagaaaaa tagctataat cccttacata ccaaggatta cagctataat
     1741 tttaaaatcg agttatttct atatagtatc aagacaagaa gaaactcgtt ttcaactcgt
     1801 ttcaaaaacc tttcaaaaac catcaatcca caaaaatacc acgcgaatga cactcaaaat
     1861 acaagactac aattaaaaaa tacttagaat aaaattaaat aaaatacgaa aattaaaagg
     1921 agttaaaaat gccttatatt tatttaataa tagccataag tactgaagtt attggaagtg
     1981 catttcttaa atcttcagaa ggcttttcaa aatttatacc atccttagga acaataattt
     2041 catttggaat ttgtttctat tttttaagta aaacaatgca acacctacca ctaaatataa
     2101 cttatgcaac ttgggcggga ctaggtttag tcttaacaac cgtagtctca ataattattt
     2161 tcaaagaaca aataaatcta ataactatag tatctatagt tttaatcata gtcggcgtag
     2221 tttcgttaaa cattttcgga acatcgcatt aattgcttta ttccaattgc tttatt
//
