LOCUS       NZ_CP016399             4114 bp    DNA     circular CON 05-MAR-2024
DEFINITION  Staphylococcus aureus strain FORC_040 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP016399
VERSION     NZ_CP016399.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05292960
            Assembly: GCF_002214665.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4114)
  AUTHORS   Chung,H.Y., Na,E.J., Song,J.S., Kim,H., Lee,J.-H., Ryu,S. and
            Choi,S.H.
  CONSRTM   Food-borne Pathogen Omics Research Center
  TITLE     Complete Genome Sequence of Staphylococcus aureus FORC_040
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4114)
  AUTHORS   Chung,H.Y., Na,E.J., Song,J.S., Kim,H., Lee,J.-H., Ryu,S. and
            Choi,S.H.
  CONSRTM   Food-borne Pathogen Omics Research Center
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JUL-2016) Food Science and Biotechnology, Seoul
            National University, 1 Gwanak-ro, Gwanak-gu, Seoul, Gwanak-gu
            151-742, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: PacBio SMRT Analysis v. 2.3.0
            Genome Coverage                   :: 919.39x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/05/2024 02:30:43
            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)                     :: 2,735
            CDSs (total)                      :: 2,653
            Genes (coding)                    :: 2,581
            CDSs (with protein)               :: 2,581
            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)              :: 72
            CDSs (without protein)            :: 72
            Pseudo Genes (ambiguous residues) :: 0 of 72
            Pseudo Genes (frameshifted)       :: 39 of 72
            Pseudo Genes (incomplete)         :: 34 of 72
            Pseudo Genes (internal stop)      :: 14 of 72
            Pseudo Genes (multiple problems)  :: 14 of 72
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP016399.1.
            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..4114
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="FORC_040"
                     /isolation_source="Pork"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed1"
                     /geo_loc_name="South Korea"
                     /lat_lon="36.86590966 N 127.55281711 E"
                     /collection_date="2013-04-16"
                     /collected_by="Ministry of Food and Drug Safety"
     gene            150..767
                     /gene="cadD"
                     /locus_tag="FORC40_RS14170"
                     /old_locus_tag="FORC40_p001"
     CDS             150..767
                     /gene="cadD"
                     /locus_tag="FORC40_RS14170"
                     /old_locus_tag="FORC40_p001"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017465246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cadmium resistance transporter CadD"
                     /protein_id="WP_000616816.1"
                     /translation="MIQTVVAAAVLYIATAVDLLVILLIFFARAKTRKEYRDIYVGQYL
                     GSIILILVSLFLAFVLNYVPEKWILGLLGLIPIYLGIKVAIYDDCEGEKRAKKELNEKG
                     LSKLVGTVAIVTIASCGADNIGLFVPYFVTLSVTNLLLTLFVFLILIFFLVFTAQKLAN
                     IPGIGEIVEKFSRWIMAIIYIALGLFIIIENDTIQTILGFIF"
                     /name="cadD"
     gene            786..1109
                     /locus_tag="FORC40_RS14175"
                     /old_locus_tag="FORC40_p002"
     CDS             786..1109
                     /locus_tag="FORC40_RS14175"
                     /old_locus_tag="FORC40_p002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020366422.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003700 - DNA-binding transcription factor activity
                     [Evidence IEA]"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="metalloregulator ArsR/SmtB family transcription
                     factor"
                     /protein_id="WP_088867626.1"
                     /translation="MSYENTCDVICVHEDKVNNALSFLEDDKSKKLLNILEKICDEKKL
                     KIILSLIKEDELCVCDISLILKMSVASTSHHLRLLYKNEVLDFYKDGKMAYYFIKDDEI
                     ICF"
                     /name="metalloregulator ArsR/SmtB family transcription
                     factor"
     gene            <1097..1553
                     /gene="cadD"
                     /locus_tag="FORC40_RS14185"
                     /pseudo=""
     ARG             151..764
                     /name="cadD"
                     /gene="cadD"
                     /gene_name="cadmium resistance transporter CadD"
                     /tool="amrfinderplus"
                     /drug_class="CADMIUM"
                     /identity="100.0"
                     /coverage="100.0"
     gene            1572..1946
                     /locus_tag="FORC40_RS14190"
                     /pseudo=""
     CDS             1572..1946
                     /locus_tag="FORC40_RS14190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020366422.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            2106..3101
                     /locus_tag="FORC40_RS14195"
                     /old_locus_tag="FORC40_p007"
     CDS             2106..3101
                     /locus_tag="FORC40_RS14195"
                     /old_locus_tag="FORC40_p007"
                     /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_001199887.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANIKAI
                     KPNKKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     Typing          2107..3101
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgagctatta agccgaccat tcgacaagtt ttgggattgt taagggttcc gaggctcaac
       61 gtcaataaag caattggaat aaagcaccta tgattattta aaaatataag ttataataca
      121 ttcaaaaata tttttgaatg aggtgtatta tgattcaaac ggttgttgct gctgctgttc
      181 tttatattgc tacagcagtt gatttattag taattttatt aatatttttt gctagagcaa
      241 agactagaaa agaatataga gatatttatg ttggtcaata tttagggtct attattttaa
      301 tattagttag tttgttttta gcttttgtat taaattatgt tccagaaaag tggatattag
      361 gtttattggg tttaatacca atttatcttg gaattaaagt ggctatttat gatgattgtg
      421 aaggagaaaa gagagctaaa aaagaattga atgaaaaagg attgtctaaa ttagttggta
      481 cggttgcaat tgttacgata gcaagttgtg gcgccgataa tattggttta tttgttccgt
      541 attttgtgac attaagtgtt actaatttat tacttactct gtttgtcttt ttaattttaa
      601 ttttcttctt ggtgtttact gcacaaaaat tagctaatat cccaggaatt ggagaaattg
      661 ttgagaaatt tagtcgttgg attatggcta tcatttatat agctttaggt ttatttatta
      721 ttattgaaaa tgacactatt caaacaattt taggatttat attttaattt agggtgtgat
      781 tttatatgag ttatgaaaat acttgtgatg tgatctgtgt acatgaggat aaagttaaca
      841 atgctttaag ttttttagaa gatgataaat ctaagaaatt acttaacatt ttagaaaaaa
      901 tttgtgatga gaagaaattg aaaatcatat tatctttgat taaagaagat gagttgtgtg
      961 tttgtgatat ttctttgata ttgaaaatga gtgttgcttc aacttcacat catttaaggc
     1021 ttttatataa aaatgaggta cttgattttt ataaagatgg aaagatggca tattatttta
     1081 ttaaagacga tgaaataatt tgtttttagc ttttgtatta aattatgttc cagaaaagtg
     1141 gatattaggt ttattgggtt taataccaat ttatcttgga attaaagtgg ctatttatga
     1201 tgattgtgaa ggagaaaaga gagctaaaaa gaattgaatg aaaaaggatt gtctaaatta
     1261 gttggtacgg ttgcaattgt tacgatagca agttgtggcg ccgataatat tggtttattt
     1321 gttccgtatt ttgtgacatt aagtgttact aatttattac ttactctgtt tgtcttttaa
     1381 ttttaatttt cttcttggtg tttactgcac aaaaattagc taatatccca ggaattggag
     1441 aaattgttga gaaatttagt cgttggatta tggctatcat ttatatagct ttaggtttat
     1501 ttattattat tgaaaatgac actattcaaa caattttagg atttatattt taatttaggg
     1561 tgtgatttta tatgagttat gaaaatactt gtgatgtgat ctgtgtacat gaggataaag
     1621 ttaacaatgc tttaagtttt ttagaagatg ataaatctaa gaaattactt aacattttag
     1681 aaaaaatttg tgatgagaag aaattgaaaa tcatattatc tttgattaaa gaagatgagt
     1741 tgtgtgttgt gatatttctt tgatattgaa aatgagtgtt gcttcaactt cacatcattt
     1801 aaggctttta tataaaaatg aggtacttga tttttataaa gatggaaaga tggcatatta
     1861 ttttattaag acgatgaaat aagagagttt tctctaaaaa tcatgagggt tttgaaacga
     1921 gtgaaacgag tttcttcttg tcttgatact atatagaaat aactcgattt tatatataca
     1981 gctgtaactg ttgatattac agcgtttaaa cgtgtttttg tgcgtgaaag gaaaatttga
     2041 caataaaaaa ccccagttat attattaagg tgtcgaatct taaataatac tgggggtctt
     2101 tttatatgca atataatact actagaagta taaccgaaaa tcaagataat aaaacgttaa
     2161 aagatatgac gaaaagtggg aaacaacgcc catggagaga aaagaaaata gataatgtaa
     2221 gctatgcaga tatactagaa attttaaaaa tcaaaaaggc ttttaatgta aaacaatgtg
     2281 gtaatatttt agaatttaag ccaactgatg aaggttattt gaagttacat aagacatggt
     2341 tttgtaaatc aaaattatgt ccggtttgta attggagacg tgctatgaaa aatagttatc
     2401 aagctcaaaa agtgattgaa gaagtaatta aggaaaagcc aaaagcacgt tggttgtttt
     2461 taacactttc aacaaaaaat gcgatagatg gagatacttt agaacaaagt ttgaagcatc
     2521 taactaaagc atttgatagg ttgagtagat ataaaaaggt taaacaaaat cttgttggat
     2581 ttatgcgttc aacagaagtt accgttaata aaaatgacgg tagttataat cagcatatgc
     2641 acgttttgtt atgtgttgaa aatgcatatt ttagaaaaaa agagaattat ataactcaag
     2701 aagaatgggt taatttatgg caaagagcat tgcaagttga ttatcgacct gttgctaata
     2761 ttaaagcgat caaaccaaat aaaaaaggcg ataaagatat tgaatctgca atcaaagaga
     2821 cctcaaaata ttcggttaaa tcatctgatt ttttaactga tgatgatgaa aaaaatcaag
     2881 aaattgtaag tgatttagaa aaaggtttgt atcgaaagcg tatgttaagt tatggtggat
     2941 tgctgaaaca aaagcataaa attttaaact tagacgatgc tgaagatgga aatttgatta
     3001 atacaagtga tgaagataaa acaacagatg aagaagaaaa ggcacattcg attacggcaa
     3061 tttggaattt tgaaaagcaa aattattatt taaggcatta gtgataactg atgtcttttt
     3121 ttattacttt tttgtaaaaa agtgctgtct tatttttgtg acaaattctg tatgtagtgt
     3181 cacaaaactg tgacaaacgc aatatattgt gtcacaaaag tgtgacattt cgtcttttta
     3241 tgcccccatg caaaaagatc gacgaagtct tgaaatatct ggctttgcca gatacctcat
     3301 ctatagatgg ggtcatattt tccttatgct cttacggagt tcttagagaa aaattgaaat
     3361 ttctcgattt ttgataaaaa cgccctgcag gaatttagaa aaacatgggg aagttttaaa
     3421 gaattttatg ctcattttta atttgcatgt aaatgggcag tgtctaaaaa actcgacact
     3481 ggttttactc gaattttagt ttgtgaaatt aagatatatt tatttggctc atatttgcgt
     3541 tttaaaagtt tatgtaggtt tttaggtata aaactatatg atttacccat aaatctttaa
     3601 aatgacctct taaaattcaa aataaaggca tttaaaaatt aacaaaataa aaaagctact
     3661 agcaaaaaac tagtagcttt tgtcttgatg tagtattaat ttttatatct gcgccacaac
     3721 gccgatttct taaaacgaat ataaaaaatc gacgaaggtc gattatggtt tttgcacgcg
     3781 ttcttttaga acgcataagt gcgcccttac gggatttaac tagattataa cgacgaaaaa
     3841 cagacctgta aagcaataac aattaggtct accaggtaga taaagtgtac aaagtagaac
     3901 cgaaaaagtt atttattttg aagatttttc gtagatataa tttgctaata aacttcctaa
     3961 aactgaataa agaaaaatag ttaaactcat gtaatcactc cataattctg aagtgtctcc
     4021 atgtctacgc atagacacgc atttatgccg agaaaattta ttgtgcgttg agaagaaccc
     4081 ttaactaaac ttgcagacga atgtcggcat agcg
//
