LOCUS       NZ_CP120059             3169 bp    DNA     circular CON 07-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog128 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120059
VERSION     NZ_CP120059.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696815
            Assembly: GCF_034357665.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3169)
  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  JOURNAL   Unpublished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 3169)
  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 3169)
  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                   :: 247x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 22:33:26
            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)                     :: 2,834
            CDSs (total)                      :: 2,752
            Genes (coding)                    :: 2,666
            CDSs (with protein)               :: 2,666
            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)              :: 86
            CDSs (without protein)            :: 86
            Pseudo Genes (ambiguous residues) :: 0 of 86
            Pseudo Genes (frameshifted)       :: 45 of 86
            Pseudo Genes (incomplete)         :: 34 of 86
            Pseudo Genes (internal stop)      :: 21 of 86
            Pseudo Genes (multiple problems)  :: 14 of 86
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120059.1.
            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..3169
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog128"
                     /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            433..1014
                     /locus_tag="P3U64_RS14160"
                     /old_locus_tag="P3U64_14160"
     CDS             433..1014
                     /locus_tag="P3U64_RS14160"
                     /old_locus_tag="P3U64_14160"
                     /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"
     gene            complement(1340..1527)
                     /locus_tag="P3U64_RS14165"
                     /old_locus_tag="P3U64_14165"
                     /pseudo=""
     CDS             complement(1340..1527)
                     /locus_tag="P3U64_RS14165"
                     /old_locus_tag="P3U64_14165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(2111..3106)
                     /locus_tag="P3U64_RS14170"
                     /old_locus_tag="P3U64_14170"
     CDS             complement(2111..3106)
                     /locus_tag="P3U64_RS14170"
                     /old_locus_tag="P3U64_14170"
                     /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"
     Typing          complement(1877..2041)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(2112..3106)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tatttaagat tcgacacctt aataatataa ctggggtttt ttattgtcaa attttccttt
       61 cacgcacaaa aacacgttta aacactgtaa tatcaacagt tacagctata tatataaaat
      121 cgagttattt ctatatagta tcaagacaag aagaaactcg ttcacactcg tttcaaaaaa
      181 caacctattc cttcttcttt ttatgaccct ctaaacctaa ataaattaat gtgaaaacca
      241 atgaataaat aaaactttct aaaaagtcaa aaggattatc aaataaaatc gaattaacaa
      301 aattaaaaat taaaaataca gataataaaa taatcaaaaa gtaaaaaaac ttattcatat
      361 taaactcctt tgtttttata tgttaatatt atattgaatt catttaaata acaaaacaag
      421 ggggcattta caatgaatgc aattcaaaac agtatatcac taagaaagat tttagtagta
      481 tctttaagta ttttaaccat actttcaatg gtcttggatt ttaatttcaa agaagctcaa
      541 gcccaaaaca aaaataacat tgcagataaa aacgttgaaa ctttaaacga aaaagaaatt
      601 gaaaaagaac taaaatacat atatggcaaa attattattt tagataaaga cggaacagct
      661 aaagatgtta atctagaaaa tgccaaatct cgatatggat atgttcctga aggattccaa
      721 aaactaaaaa acgacataga gaataaaaag aaaactagtt caatatcacc tagagcagtt
      781 ggtgggaact acaaaaatag cggtgactgt ttctattctg aagttttaaa ctcatatgga
      841 gaacttttaa ctggaaacat aatcacagca gtttttgaag atgttaaagc caaaaactta
      901 aagggcgtag caaaaaaatt agctaaaatt gggataaaag gaaacctagc tggaatcgca
      961 gctactatgg tttcgaagga tgtacaatgt aatcttaaat acgggttact ttagatacta
     1021 tttattccaa ttgctttatt gacgttgagc ctcggaaccc ttaacaatcc caaaacttgt
     1081 cgcatggtcg gcttaatagc tcacgctatg ccgacattcg tctgcaagtt tagttaaggg
     1141 ttcttctcaa catcaataaa ttttctcggc ataaatgcgt cgtctatttt ttattatctt
     1201 catgataatc atatttttct tccatctcgt caaaagcatc atctttatag aaaaacaaaa
     1261 agtaagcaac aacaccaata ggaataaaaa aacagtgtga aaacaagaag aaactcgttt
     1321 caaaatcccc tcaaatattc taattattct ttttgaaatt cataacctta acaaccaaat
     1381 aaatagcatt tattcccatc aaaataacat acggaattaa tatatataaa ttttccaaat
     1441 gagatataaa aattaatcca agtaaaaaga aaacatttaa aatagttgct atacgtaacc
     1501 ttcatctaac actgtgtttt tattcaaaat aaacactcct tttttaaaaa actttatcac
     1561 aagacttact caaattataa atacctttat tttgagtttt aagggggtat tttaaaggtt
     1621 taggggggta tcatataggt ttttaactta aaaatatata caagctctta aaacgcaaat
     1681 atgagccaaa taaatatatg gtaatttcac aaacaaaaat ttcagcaaaa ccagtgacta
     1741 attttttaac actgcccatt tacatgcaaa ttaaaaatta gcataaaatc ctttaaaact
     1801 tccacatgtt tttctaaatt cctgcagggc gttttttatc aaaaatcgag aatttttaat
     1861 ttttctctaa aaactccgta agagcataag gagaatttgc tatcattcaa aaatgatagg
     1921 tctggcaaag ccagacattc caggggtttt aaggtatttt aaagtgatat catacaaagc
     1981 tgtactgtct tatttttgtg acacaatata ttgcgtttgt cttatttttg tgacactaca
     2041 tacagcattt gtcacaaaaa taagacagta cttttttata aaaaatcaac aaaaaagaca
     2101 ttagtcaaca ctaatgtctt aaataataat tttgcttttc gaaattccaa attgcggtaa
     2161 ttgaatgtgc tttttcttct tcgtctgttg ttttatcttc atcacttgca ttaatcaaat
     2221 taccatcttc gacatcgtct aagtttaaaa ttttatgttt ttgtttaagc aatccaccat
     2281 aacttaacat acgttttcga tacaaacctt tttctaaatc acttacaatt tcttgatttt
     2341 tttcatcatc atcagttaaa aaatcagatg atttaaccga atattttgag gtctctttga
     2401 ttgccgattc aatgtcttta tcgccttttc tattcggttt gatcgcttta acattagcaa
     2461 caggtcgata gtcaacttgt aatgctcttt gccataaatt aacccattct tcttgagtta
     2521 tataattctc tttttttcta aaatatgcat tttcaacaca taacaaaaca tgcatgtgct
     2581 gattataact accgtcattt ttattaacgg taacttctgt tgaacgcata aatccaacaa
     2641 gattttgttt aaccttttta tatctactca acctatcaaa tgctttagtt agatgcttca
     2701 aactttgttc taaagtatct ccatctatcg cattttttgt tgaaagtgtt aaaaacaacc
     2761 aacgtgcttt tggcttttcc ttaattactt tttcaatcac tttttgagct tgataactat
     2821 ttttcatagc acgtctccaa ttacaaaccg gacataattt tgatttacaa aaccatgtct
     2881 tatgtaactt caaatagcct tcatcagttg gcttaaattc taaaatatta ccacattgtt
     2941 ttacattaaa agcctttttg atttttaaaa tttctagtat atctgcatag cttacattat
     3001 ctattttctt ttctctccat gggcgttgtt tcccactttt cgtcatatct tttaacgttt
     3061 tattatcttg attttcggtt atacttctag tagtattata ttgcatataa aaagaccccc
     3121 agtattattt aagattcgac accttaataa tataactggg gttttttat
//
