LOCUS       NZ_CP025482             3269 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Staphylococcus aureus strain 5118.N plasmid p5118.Na, complete
            sequence.
ACCESSION   NZ_CP025482
VERSION     NZ_CP025482.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04966150
            Assembly: GCF_001717645.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3269)
  AUTHORS   LaBreck,P.T., Rice,G.K., Paskey,A.C., Elassal,E.M., Cer,R.Z.,
            Law,N.N., Schlett,C.D., Bennett,J.W., Millar,E.V., Ellis,M.W.,
            Hamilton,T., Bishop-Lilly,K.A. and Merrell,D.S.
  TITLE     Conjugative Transfer of a Novel Staphylococcal Plasmid Encoding the
            Biocide Resistance Gene, qacA
  JOURNAL   Front Microbiol 9, 2664 (2018)
   PUBMED   30510541
  REMARK    Erratum:[Front Microbiol. 2020 May 14;11:877. doi:
            10.3389/fmicb.2020.00877. PMID: 32477301] Publication Status:
            Online-Only
REFERENCE   2  (bases 1 to 3269)
  AUTHORS   LaBreck,P.T., Rice,G.K., Paskey,A.C., Elassal,E.M., Cer,R.Z.,
            Law,N., Schlett,C.D., Bennett,J.W., Millar,E.V., Ellis,M.W.,
            Hamilton,T., Bishop-Lilly,K.A. and Merrell,D.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-DEC-2017) Microbiology and Immunology, Uniformed
            Services University, 4301 Jones Bridge Road, Bethesda, MD 20814, USA
  REMARK    Nucleotide sequence updated by submitter
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.9.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 67.0x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001717645.1-RS_2024_06_17
            Annotation Date                   :: 06/17/2024 00:57:18
            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)                     :: 2,950
            CDSs (total)                      :: 2,868
            Genes (coding)                    :: 2,783
            CDSs (with protein)               :: 2,783
            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)              :: 85
            CDSs (without protein)            :: 85
            Pseudo Genes (ambiguous residues) :: 0 of 85
            Pseudo Genes (frameshifted)       :: 43 of 85
            Pseudo Genes (incomplete)         :: 41 of 85
            Pseudo Genes (internal stop)      :: 23 of 85
            Pseudo Genes (multiple problems)  :: 21 of 85
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP025482.1.
            Bacteria and source DNA available from D.S. Merrell.
            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..3269
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="5118.N"
                     /isolation_source="Nose from military trainee"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="p5118.Na"
                     /geo_loc_name="USA: Ft. Benning, Georgia"
                     /lat_lon="32.3913 N 84.8229 W"
                     /collection_date="2010-07-26"
                     /collected_by="Uniformed Services University"
     gene            1..996
                     /locus_tag="A7U51_RS15350"
                     /old_locus_tag="A7U51_05410"
     CDS             1..996
                     /locus_tag="A7U51_RS15350"
                     /old_locus_tag="A7U51_05410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199892.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            1579..1767
                     /locus_tag="A7U51_RS15360"
                     /old_locus_tag="A7U51_05420"
     CDS             1579..1767
                     /locus_tag="A7U51_RS15360"
                     /old_locus_tag="A7U51_05420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001039248.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     gene            complement(2237..2818)
                     /locus_tag="A7U51_RS15365"
                     /old_locus_tag="A7U51_05425"
     CDS             complement(2237..2818)
                     /locus_tag="A7U51_RS15365"
                     /old_locus_tag="A7U51_05425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991705.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000991705.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     Typing          1067..1231
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          2..996
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgcaatata atactactag aagtataacc gaaaatcaag ataataaaac gttaaaagat
       61 atgacgaaaa gtgggaaaca acgcccatgg agagaaaaga aaatagataa tgtaagctat
      121 gcagatatac tagaaatttt aaaaatcaaa aaggctttta atgtaaaaca atgtggtaat
      181 attttagaat ttaagccaac tgatgaaggc tatttgaagt tacataagac atggttttgt
      241 aaatcaaaat tatgtccggt ttgtaattgg agacgtgcta tgaaaaatag ttatcaagct
      301 caaaaagtga ttgaaaaagt aattaaggaa aagccaaaag cacgttggtt gtttttaaca
      361 ctttcaacaa aaaatgcgat agatggagat actttagaac aaagtttgaa gcatctaact
      421 aaagcatttg ataggttgag tagatataaa aaggttaaac aaaatcttgt tggatttatg
      481 cgttcaacag aagttaccgt taataaaaat gacggtagtt ataatcagca catgcatgtt
      541 ttgttatgtg ttgaaaatgc atattttaga aaaaaagaga attatataac tcaagaagaa
      601 tgggttaatt tatggcaaag agcattacaa gttgactatc gacctgttgc taatgttaaa
      661 gcgatcaaac cgaatagaaa aggcgataaa gacattgaat cggcaatcaa agagacctca
      721 aaatattcgg ttaaatcatc tgatttttta actgatgatg atgaaaaaaa tcaagaaatt
      781 gtaagtgatt tagaaaaagg tttgtatcga aaacgtatgt taagttatgg tggattgctt
      841 aaacaaaaac ataaaatttt aaacttagac gatgtcgaag atggtaattt gattaatgca
      901 agtgatgaag ataaaacaac agacgaagaa gaaaaagcac attcaattac cgcaatttgg
      961 aatttcgaaa agcaaaatta ttatttaaga cattagtgtt gactaatgtc ttttttgttg
     1021 attttttata aaaaagtact gtcttatttt tgtgacaaat gctgtatgta gtgtcacaaa
     1081 aataagacaa acgcaatata ttgtgtcaca aaaataagac agtacagctt tgtatgatat
     1141 cactttaaaa taccttaaaa cccctggaat ttctggcttt gccagaccta tcatttttga
     1201 atgatagcaa attctcctta tgctcttacg gagtttttag agaaaaatta aaaattctcg
     1261 atttttgata aaaaacgccc tgcaggaatt tagaaaaaca tgtggaagtt ttaaaggatt
     1321 ttatgctaat ttttaatttg catgtaaatg ggcagtgtta aaaaattagt cactggtttt
     1381 gctgaaattt ttgtttgtga aattaccata tatttatttg gctcatattt gcgttttaag
     1441 agcttgtata tatttttaag ttaaaaacct atatgatacc ccctaaacct ttaaaatacc
     1501 cccttaaaac tcaaaataaa ggtatttata atttgagtaa gtcttgtgat aaagtttttt
     1561 aaaaaaggag tgtttatttt gaataaaaac acagtgttag atgaaggtta cgttatagca
     1621 actattttaa atgttttctt tttacttgga ttaattttta tatctcattt ggaaaattta
     1681 tatatattaa ttccgtatgt tattttgatg ggaataaatg ctatttattt ggttgttaag
     1741 gttatgaatt tcaaaaagaa taattagaat atttgagggg attttgaaac gagtttcttc
     1801 ttgttttcac actgtttttt tattcctatt ggtgttgttg cttacttttt gtttttctat
     1861 aaagatgatg cttttgacga gatggaagaa aaatatgatt atcatgaaga taataaaaaa
     1921 tagacgacgc atttatgccg agaaaattta ttgatgttga gaagaaccct taactaaact
     1981 tgcagacgaa tgtcggcata gcgtgagcta ttaagccgac cattcgacaa gttttgggat
     2041 tgttaagggt tccgaggctc aacgtcaata aagcaattgg aataaaaaaa tttattgatg
     2101 ttgagaagaa cccttaacta aacttgcaga cgaatgtcgg catagcgtga gctattaagc
     2161 cgaccattcg acaagttttg ggattgttaa gggttccgag gctcaacgtc aataaagcaa
     2221 ttggaataaa tagtatctaa agtaacccgt atttaagatt acattgtaca tccttcgaaa
     2281 ccatagtagc tgcgattcca gctaggtttc cttttatccc aattttagct aatttttttg
     2341 ctacgccctt taagtttttg gctttaacat cttcaaaaac tgctgtgatt atgtttccag
     2401 ttaaaagttc tccatatgag tttaaaactt cagaatagaa acagtcaccg ctatttttgt
     2461 agttcccacc aactgctcta ggtgatattg aactagtttt ctttttattc tctatgtcgt
     2521 tttttagttt ttggaatcct tcaggaacat atccatatcg agatttggca ttttctagat
     2581 taacatcttt agctgttccg tctttatcta aaataataat tttgccatat atgtatttta
     2641 gttctttttc aatttctttt tcgtttaaag tttcaacgtt tttatctgca atgttatttt
     2701 tgttttgggc ttgagcttct ttgaaattaa aatccaagac cattgaaagt atggttaaaa
     2761 tacttaaaga tactactaaa atctttctta gtgatatact gttttgaatt gcattcattg
     2821 taaatgcccc cttgttttgt tatttaaatg aattcaatat aatattaaca tataaaaaca
     2881 aaggagttta atatgaataa gtttttttac tttttgatta ttttattatc tgtattttta
     2941 atttttaatt ttgttaattc gattttattt gataatcctt ttgacttttt agaaagtttt
     3001 atttattcat tggttttcac attaatttat ttaggtttag agggtcataa aaagaagaag
     3061 gaataggttg ttttttgaaa cgagtgtgaa cgagtttctt cttgtcttga tactatatag
     3121 aaataactcg attttatata tatagctgta actgttgata ttacagtgtt taaacgtgtt
     3181 tttgtgcgtg aaaggaaaat ttgacaataa aaaaccccag ttatattatt aaggtgtcga
     3241 atcttaaata atactggggg tctttttat
//
