LOCUS       NZ_CP120003             4451 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog165 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120003
VERSION     NZ_CP120003.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696837
            Assembly: GCF_034042935.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4451)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Canine Staphylococcaceae circulating in a Kenyan animal shelter
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4451)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-DEC-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
  REMARK    Annotation added by database at the request of the submitter
REFERENCE   3  (bases 1 to 4451)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2022
            Assembly Method                   :: Flye v. v2.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 909x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 11:12:47
            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)                     :: 2,736
            CDSs (total)                      :: 2,654
            Genes (coding)                    :: 2,586
            CDSs (with protein)               :: 2,586
            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)              :: 68
            CDSs (without protein)            :: 68
            Pseudo Genes (ambiguous residues) :: 0 of 68
            Pseudo Genes (frameshifted)       :: 34 of 68
            Pseudo Genes (incomplete)         :: 33 of 68
            Pseudo Genes (internal stop)      :: 20 of 68
            Pseudo Genes (multiple problems)  :: 18 of 68
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120003.1.
            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..4451
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog165"
                     /isolation_source="nasal swab"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="Kenya:Nairobi"
                     /lat_lon="1.3345 S 36.7331 E"
                     /collection_date="2015-06-27"
                     /collected_by="Joerg Jores, Anna Lacasta, Anne Liljander,
                     Paul Ssajjakambwe (International Livestock Research
                     Institute, ILRI)"
     gene            join(3844..4451,1..349)
                     /locus_tag="P3U47_RS13670"
                     /old_locus_tag="P3U47_13670"
                     /pseudo=""
     CDS             join(3844..4451,1..349)
                     /locus_tag="P3U47_RS13670"
                     /old_locus_tag="P3U47_13670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000277654.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            511..1890
                     /gene="tet(K)"
                     /locus_tag="P3U47_RS13675"
                     /old_locus_tag="P3U47_13675"
     ARG             512..1887
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="tetracycline efflux MFS transporter Tet(K)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2076..3317
                     /gene="mobV"
                     /locus_tag="P3U47_RS13680"
                     /old_locus_tag="P3U47_13680"
     CDS             2076..3317
                     /gene="mobV"
                     /locus_tag="P3U47_RS13680"
                     /old_locus_tag="P3U47_13680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010889940.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000122374.1"
                     /translation="MSYSIVRVSKVKSGTNTTGIQKHVQRENNNYENEDIDHSKTYLNY
                     DLVNANKQNFNNLIDEKIEQNYTGKRKIRTDAIKHIDGLITSDNDFFDNQTPEDTKQFF
                     EYAKEFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITDDGRLSAKEVVGNKKALTAFQ
                     DRFNEHVKQRGYDLERGQSRQVTNAKHEQISQYKQKTEYHKQEYERESQKTDHIKQKND
                     KLMQEYQKSLNTLKKPINVPYEQETEKVGGLFSKEIQETGNVVISQKDFNEFQKQIKAA
                     QDISEDYEYIKSGRALDDKDKEIREKDDLLNKAVERIENADDNFNQLYENAKPLKENIE
                     IALKLLKILLKELERVLGRNTFAERVNKLTEDEPKLNGLAGNLDKKMNPELYSEQEQQQ
                     EQQKNQKRDRGMHL"
                     /name="mobV"
     Typing          2..349
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3845..4382
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2077..3314
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taatgcagat gctgaagtta tgtctgaaca tttatggcgt gtagaaatcg aacttaaaag
       61 agatatggtg gattactgga atgattgctt tagtgattta catatcttgc aaccagattg
      121 gaaaactatc caacgcactg cggatagagc aatagttttt atgttattga gtgatgaaga
      181 agaatgggga aagcttcaca gaaattctag aacaaaatat aagaatttga taaaagaaat
      241 ttcgccagtc gatttaacgg acttaatgaa atcgacttta aaagcgaacg aaaaacaatt
      301 gcaaaaacaa atcgattttt ggcaacatga atttaaattt tggaaatagt gtacatatta
      361 atattactga acaaaaatga tatatttaaa ctattctaat ttaggaggat ttttttatga
      421 agtgtctatt taaaaatttg gggaatttat atgaggtgaa agaataattt acccctataa
      481 actttagtca cctcaagtaa agaggtaaaa ttgtttagtt tatataaaaa atttaaaggt
      541 ttgttttata gcgttttatt ttggctttgt attctttcat tttttagtgt attaaatgaa
      601 atggttttaa atgtttcttt acctgatatt gcaaatcatt ttaatactac tcctggaatt
      661 acaaactggg taaacactgc atatatgtta actttttcga taggaacagc agtatatgga
      721 aaattatctg attatataaa tataaaaaaa ttgttaatta ttggtattag tttgagctgt
      781 cttggttcat tgattgcttt tattggtcac aatcactttt ttattttgat ttttggtagg
      841 ttagtacaag gagtaggatc tgctgcattc ccttcactga ttatggtggt tgtagctaga
      901 aatattacaa gaaaaaaaca aggcaaagcc tttggtttta taggatcaat tgtagcttta
      961 ggtgaagggt taggtccttc aataggggga ataatagcac attatattca ttggtcttac
     1021 ctacttatac ttcctatgat tacaatagta actatacctt ttcttattaa agtaatggta
     1081 cctggtaaat caacaaaaaa tacattagat atcgtaggta ttgttttaat gtctataagt
     1141 attatatgtt ttatgttatt tacgacaaat tataattgga cttttttaat actcttcaca
     1201 atcttttttg tgatttttat taaacatatt tcaagagttt ctaacccttt tattaatcct
     1261 aaactaggga aaaacattcc gtttatgctt ggtttgtttt ctggtgggct aatattttct
     1321 atagtagctg gttttatatc aatggtgcct tatatgatga aaactattta tcatgtaaat
     1381 gtagcgacaa taggtaatag tgttattttt cctggaacca tgagtgttat tgtttttggt
     1441 tattttggtg gttttttagt ggatagaaaa ggatcattat ttgtttttat tttaggatca
     1501 ttgtctatct ctataagttt tttaactatt gcattttttg ttgagtttag tatgtggttg
     1561 actactttta tgtttatatt tgttatgggc ggattatctt ttactaaaac agttatatca
     1621 aaaatagtat caagtagtct ttctgaagaa gaagttgctt ctggaatgag tttgctaaat
     1681 ttcacaagtt ttttatcaga gggaacaggt atagcaattg taggaggttt attgtcacta
     1741 caattgatta atcgtaaact agttctggaa tttataaatt attcttctgg agtgtatagt
     1801 aatattcttg tagccatggc tatccttatt attttatgtt gtcttttgac gattattgta
     1861 tttaaacgtt ctgaaaagca gtttgaatag ttatattata ttttggttta gaactatgag
     1921 tggctagcat tttgccactc attttttgcg ttagcaaaaa caggtttaag cctcgcagag
     1981 cacacgtatt aacgacttat taaaaataag tctagtctgt tagacttaaa ctattaaata
     2041 cacatgaaac ctttgtgctt aggagtgatt tttatatgtc ttattccatt gttagagttt
     2101 caaaagttaa atctggaaca aatacaacgg gcatacaaaa acatgttcaa agagaaaata
     2161 ataattatga aaatgaagat atagaccata gtaaaactta cttaaattat gatttggtaa
     2221 atgctaataa acagaatttt aataacttga ttgatgaaaa aatcgaacag aattatacag
     2281 gcaaaagaaa aattagaaca gacgcgatta aacacattga tggtttaatt acatcagaca
     2341 atgatttctt tgataatcaa acgccagaag atacaaagca gttttttgaa tatgctaaag
     2401 agtttttaga acaagaatac ggtaaagata atttattata tgcaacagtt cacatggacg
     2461 aaaaaacacc acatatgcat tatggcgttg ttccaataac tgatgatggt cgtttaagtg
     2521 ctaaagaagt tgtaggtaat aaaaaagctt taacagcgtt tcaagataga tttaatgagc
     2581 atgttaaaca acgaggatat gatttagaac gtgggcaatc aagacaagta acaaatgcta
     2641 aacatgagca aataagtcag tataaacaaa aaacagaata tcataagcaa gaatatgaac
     2701 gtgagagcca aaaaacagac catataaagc aaaagaacga taaattaatg caagagtacc
     2761 aaaaatcgtt aaatacgctt aaaaagccta taaatgttcc gtatgagcaa gaaactgaaa
     2821 aagtaggtgg tttatttagc aaagaaatac aagaaactgg aaatgttgta ataagccaaa
     2881 aagatttcaa tgaatttcag aaacagataa aagctgctca agatatttcg gaagattacg
     2941 agtatataaa gtctggtaga gccttagatg ataaagataa ggaaatacga gagaaagatg
     3001 atttattaaa taaagcagtt gagcgtattg aaaacgcaga cgataatttt aaccaacttt
     3061 acgaaaatgc aaagccactt aaagagaata tagaaatagc gttaaagctt ttaaaaatct
     3121 tactaaaaga gttagaacga gttttaggaa gaaatacctt tgcggaaaga gttaataagt
     3181 taacagaaga tgaaccaaaa ctaaatggtt tagcaggaaa cttagataaa aaaatgaatc
     3241 cagaattata ttcagaacag gaacagcaac aagaacaaca aaagaatcaa aaacgagata
     3301 gaggtatgca cttatagaac atgcatttat gccgagaaaa cttattggtt ggaatgggct
     3361 atgtgttagc taacttgtta gcgagttggt tggacttgaa ttgggattaa tcccaagaaa
     3421 gtaccaactc aacaacacat aaagccctgt aggttccgac caataaggaa attggaataa
     3481 agcaataaaa ggagttgaag aaatgaaatt cagagaagcc tttgagaatt ttataacaag
     3541 taagtatgta cttggtgttt tagtagtttt aactgtttac cagataatac aaatgcttaa
     3601 ataaaaaaag acttgatctg attagaccaa gtcttttgat agtgttatat taataacaaa
     3661 ataaaaagga gtcgctcacg ccctgaccaa agtttgtgaa cgacatcatt caaagaaaaa
     3721 aacactgagt tatttttata atcttgtata tttagatatt aaacgatatt taaatataca
     3781 tcaagatata tatttgggtg agcgattcct taaacgaaat tgagattaag gagtcgattt
     3841 tttatgtata aaaacaatca tgcaaatcat tcaaatcatt tggaaaatca cgatttagac
     3901 aatttttcta aaaccggcta ctctaatagc cggttggacg cacatactgt gtgcatatct
     3961 gatccaaaat taagttttga tgcaatgacg atcgttggaa atctcaaccg agacaacgct
     4021 caagcccttt ctaaatttat gagtgtagag ccccaaataa gactttggga tattcttcaa
     4081 acaaagttta aagctaaagc acttcaagaa aaagtttata ttgaatatga caaagtgaaa
     4141 gcagatagtt gggatagacg taatatgcgt attgaattta atccaaacaa acttacacga
     4201 gatgaaatga tttggttaaa acaaaatata ataagctaca tggaagatga cggttttaca
     4261 agattagatt tagcctttga ttttgaagat gatttgagtg actactatgc aatgtctgat
     4321 aaagcagtta agaaaactat tttttatggt cgtaatggta agccagaaac aaaatatttt
     4381 ggcgtgagag atagtaatag atttattaga atttataata aaaagcaaga acgtaaagat
     4441 aatgcagatg c
//
