LOCUS       NZ_CP120013             4485 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog156 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120013
VERSION     NZ_CP120013.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696833
            Assembly: GCF_034043015.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4485)
  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  JOURNAL   Unpublished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 4485)
  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 (20-DEC-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
  REMARK    Annotation added by database at the submitter's request
REFERENCE   3  (bases 1 to 4485)
  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                   :: 600x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 11:09:18
            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)                     :: 2,737
            CDSs (total)                      :: 2,655
            Genes (coding)                    :: 2,587
            CDSs (with protein)               :: 2,587
            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
            CP120013.1.
            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..4485
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog156"
                     /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(4222..4485,1..1162)
                     /gene="tet"
                     /locus_tag="P3U67_RS13675"
                     /old_locus_tag="P3U67_13675"
                     /pseudo=""
     CDS             join(4222..4485,1..1162)
                     /gene="tet"
                     /locus_tag="P3U67_RS13675"
                     /old_locus_tag="P3U67_13675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000492283.1"
                     /GO_function="GO:0022857 - transmembrane transporter
                     activity [Evidence IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Tet(L)/Tet(K)/Tet(45) family tetracycline efflux
                     MFS transporter"
                     /name="tet"
     gene            1348..2589
                     /gene="mobV"
                     /locus_tag="P3U67_RS13680"
                     /old_locus_tag="P3U67_13680"
     CDS             1348..2589
                     /gene="mobV"
                     /locus_tag="P3U67_RS13680"
                     /old_locus_tag="P3U67_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"
     gene            3116..4060
                     /locus_tag="P3U67_RS13685"
                     /old_locus_tag="P3U67_13685"
     CDS             3116..4060
                     /locus_tag="P3U67_RS13685"
                     /old_locus_tag="P3U67_13685"
                     /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="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_000277654.1"
                     /translation="MYKNNHANHSNHLENHDLDNFSKTGYSNSRLDAHTVCISDPKLSF
                     DAMTIVGNLNRDNAQALSKFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADSWD
                     RRNMRIEFNPNKLTRDEMIWLKQNIISYMEDDGFTRLDLAFDFEDDLSDYYAMSDKAVK
                     KTIFYGRNGKPETKYFGVRDSNRFIRIYNKKQERKDNADAEVMSEHLWRVEIELKRDMV
                     DYWNDCFSDLHILQPDWKTIQRTADRAIVFMLLSDEEEWGKLHRNSRTKYKNLIKEISP
                     VDLTDLMKSTLKANEKQLQKQIDFWQHEFKFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     ARG             4223..4485
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="major facilitator superfamily (MFS) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="tetracycline antibiotic"
                     /identity="100.0"
                     /coverage="19.17"
     ARG             3..1162
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="major facilitator superfamily (MFS) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="tetracycline antibiotic"
                     /identity="100.0"
                     /coverage="84.1"
     Typing          3117..4060
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1349..2586
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgattatata aatataaaaa aattgttaat tattggtatt agtttgagct gtcttggttc
       61 attgattgct tttattggtc acaatcactt ttttattttg atttttggta ggttagtaca
      121 aggagtagga tctgctgcat tcccttcact gattatggtg gttgtagcta gaaatattac
      181 aagaaaaaaa caaggcaaag cctttggttt tataggatca attgtagctt taggtgaagg
      241 gttaggtcct tcaatagggg gaataatagc acattatatt cattggtctt acctacttat
      301 acttcctatg attacaatag taactatacc ttttcttatt aaagtaatgg tacctggtaa
      361 atcaacaaaa aatacattag atatcgtagg tattgtttta atgtctataa gtattatatg
      421 ttttatgtta tttacgacaa attataattg gactttttta atactcttca caatcttttt
      481 tgtgattttt attaaacata tttcaagagt ttctaaccct tttattaatc ctaaactagg
      541 gaaaaacatt ccgtttatgc ttggtttgtt ttctggtggg ctaatatttt ctatagtagc
      601 tggttttata tcaatggtgc cttatatgat gaaaactatt tatcatgtaa atgtagcgac
      661 aataggtaat agtgttattt ttcctggaac catgagtgtt attgtttttg gttattttgg
      721 tggtttttta gtggatagaa aaggatcatt atttgttttt attttaggat cattgtctat
      781 ctctataagt tttttaacta ttgcattttt tgttgagttt agtatgtggt tgactacttt
      841 tatgtttata tttgttatgg gcggattatc ttttactaaa acagttatat caaaaatagt
      901 atcaagtagt ctttctgaag aagaagttgc ttctggaatg agtttgctaa atttcacaag
      961 ttttttatca gagggaacag gtatagcaat tgtaggaggt ttattgtcac tacaattgat
     1021 taatcgtaaa ctagttctgg aatttataaa ttattcttct ggagtgtata gtaatattct
     1081 tgtagccatg gctatcctta ttattttatg ttgtcttttg acgattattg tatttaaacg
     1141 ttctgaaaag cagtttgaat agttatatta tattttggtt tagaactatg agtggctagc
     1201 attttgccac tcattttttg cgttagcaaa aacaggttta agcctcgcag agcacacgta
     1261 ttaacgactt attaaaaata agtctagtct gttagactta aactattaaa tacacatgaa
     1321 acctttgtgc ttaggagtga tttttatatg tcttattcca ttgttagagt ttcaaaagtt
     1381 aaatctggaa caaatacaac gggcatacaa aaacatgttc aaagagaaaa taataattat
     1441 gaaaatgaag atatagacca tagtaaaact tacttaaatt atgatttggt aaatgctaat
     1501 aaacagaatt ttaataactt gattgatgaa aaaatcgaac agaattatac aggcaaaaga
     1561 aaaattagaa cagacgcgat taaacacatt gatggtttaa ttacatcaga caatgatttc
     1621 tttgataatc aaacgccaga agatacaaag cagttttttg aatatgctaa agagttttta
     1681 gaacaagaat acggtaaaga taatttatta tatgcaacag ttcacatgga cgaaaaaaca
     1741 ccacatatgc attatggcgt tgttccaata actgatgatg gtcgtttaag tgctaaagaa
     1801 gttgtaggta ataaaaaagc tttaacagcg tttcaagata gatttaatga gcatgttaaa
     1861 caacgaggat atgatttaga acgtgggcaa tcaagacaag taacaaatgc taaacatgag
     1921 caaataagtc agtataaaca aaaaacagaa tatcataagc aagaatatga acgtgagagc
     1981 caaaaaacag accatataaa gcaaaagaac gataaattaa tgcaagagta ccaaaaatcg
     2041 ttaaatacgc ttaaaaagcc tataaatgtt ccgtatgagc aagaaactga aaaagtaggt
     2101 ggtttattta gcaaagaaat acaagaaact ggaaatgttg taataagcca aaaagatttc
     2161 aatgaatttc agaaacagat aaaagctgct caagatattt cggaagatta cgagtatata
     2221 aagtctggta gagccttaga tgataaagat aaggaaatac gagagaaaga tgatttatta
     2281 aataaagcag ttgagcgtat tgaaaacgca gacgataatt ttaaccaact ttacgaaaat
     2341 gcaaagccac ttaaagagaa tatagaaata gcgttaaagc ttttaaaaat cttactaaaa
     2401 gagttagaac gagttttagg aagaaatacc tttgcggaaa gagttaataa gttaacagaa
     2461 gatgaaccaa aactaaatgg tttagcagga aacttagata aaaaaatgaa tccagaatta
     2521 tattcagaac aggaacagca acaagaacaa caaaagaatc aaaaacgaga tagaggtatg
     2581 cacttataga acatgcattt atgccgagaa aacttattgg ttggaatggg ctatgtgtta
     2641 gctaacttgt tagcgagttg gttggacttg aattgggatt aatcccaaga aagtaccaac
     2701 tcaacaacac ataaagccct gtaggttccg accaataagg aaattggaat aaagcaataa
     2761 aaggagttga agaaatgaaa ttcagagaag cctttgagaa ttttataaca agtaagtatg
     2821 tacttggtgt tttagtagtt ttaactgttt accagataat acaaatgctt aaataaaaaa
     2881 agacttgatc tgattagacc aagtcttttg atagtgttat attaataaca aaataaaaag
     2941 gagtcgctca cgccctgacc aaagtttgtg aacgacatca ttcaaagaaa aaaacactga
     3001 gttattttta taatcttgta tatttagata ttaaacgata tttaaatata catcaagata
     3061 tatatttggg tgagcgattc cttaaacgaa attgagatta aggagtcgat tttttatgta
     3121 taaaaacaat catgcaaatc attcaaatca tttggaaaat cacgatttag acaatttttc
     3181 taaaaccggc tactctaata gccggttgga cgcacatact gtgtgcatat ctgatccaaa
     3241 attaagtttt gatgcaatga cgatcgttgg aaatctcaac cgagacaacg ctcaagccct
     3301 ttctaaattt atgagtgtag agccccaaat aagactttgg gatattcttc aaacaaagtt
     3361 taaagctaaa gcacttcaag aaaaagttta tattgaatat gacaaagtga aagcagatag
     3421 ttgggataga cgtaatatgc gtattgaatt taatccaaac aaacttacac gagatgaaat
     3481 gatttggtta aaacaaaata taataagcta catggaagat gacggtttta caagattaga
     3541 tttagccttt gattttgaag atgatttgag tgactactat gcaatgtctg ataaagcagt
     3601 taagaaaact attttttatg gtcgtaatgg taagccagaa acaaaatatt ttggcgtgag
     3661 agatagtaat agatttatta gaatttataa taaaaagcaa gaacgtaaag ataatgcaga
     3721 tgctgaagtt atgtctgaac atttatggcg tgtagaaatc gaacttaaaa gagatatggt
     3781 ggattactgg aatgattgct ttagtgattt acatatcttg caaccagatt ggaaaactat
     3841 ccaacgcact gcggatagag caatagtttt tatgttattg agtgatgaag aagaatgggg
     3901 aaagcttcac agaaattcta gaacaaaata taagaatttg ataaaagaaa tttcgccagt
     3961 cgatttaacg gacttaatga aatcgacttt aaaagcgaac gaaaaacaat tgcaaaaaca
     4021 aatcgatttt tggcaacatg aatttaaatt ttggaaatag tgtacatatt aatattactg
     4081 aacaaaaatg atatatttaa actattctaa tttaggagga tttttttatg aagtgtctat
     4141 ttaaaaattt ggggaattta tatgaggtga aagaataatt tacccctata aactttagtc
     4201 acctcaagta aagaggtaaa attgtttagt ttatataaaa aatttaaagg tttgttttat
     4261 agcgttttat tttggctttg tattctttca ttttttagtg tattaaatga aatggtttta
     4321 aatgtttctt tacctgatat tgcaaatcat tttaatacta ctcctggaat tacaaactgg
     4381 gtaaacactg catatatgtt aactttttcg ataggaacag cagtatatgg aaaattatct
     4441 gattatataa atataaaaaa attgttaatt attggtatta gtttg
//
