LOCUS       NZ_CP120035             3126 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog139 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120035
VERSION     NZ_CP120035.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696824
            Assembly: GCF_034043195.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3126)
  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  JOURNAL   Unpublished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 3126)
  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 3126)
  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                   :: 226x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:59:41
            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)                     :: 2,824
            CDSs (total)                      :: 2,742
            Genes (coding)                    :: 2,654
            CDSs (with protein)               :: 2,654
            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)              :: 88
            CDSs (without protein)            :: 88
            Pseudo Genes (ambiguous residues) :: 0 of 88
            Pseudo Genes (frameshifted)       :: 46 of 88
            Pseudo Genes (incomplete)         :: 35 of 88
            Pseudo Genes (internal stop)      :: 22 of 88
            Pseudo Genes (multiple problems)  :: 15 of 88
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120035.1.
            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..3126
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog139"
                     /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            complement(join(3018..3126,1..473))
                     /locus_tag="P3U13_RS14110"
                     /old_locus_tag="P3U13_14110"
     CDS             complement(join(3018..3126,1..473))
                     /locus_tag="P3U13_RS14110"
                     /old_locus_tag="P3U13_14110"
                     /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            925..1920
                     /locus_tag="P3U13_RS14115"
                     /old_locus_tag="P3U13_14115"
     CDS             925..1920
                     /locus_tag="P3U13_RS14115"
                     /old_locus_tag="P3U13_14115"
                     /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            2504..2692
                     /locus_tag="P3U13_RS14120"
                     /old_locus_tag="P3U13_14120"
     CDS             2504..2692
                     /locus_tag="P3U13_RS14120"
                     /old_locus_tag="P3U13_14120"
                     /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"
     Typing          1991..2155
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          926..1920
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccctttaagt ttttggcttt aacatcttca aaaactgctg tgattatgtt tccagttaaa
       61 agttctccat atgagtttaa aacttcagaa tagaaacagt caccgctatt tttgtagttc
      121 ccaccaactg ctctaggtga tattgaacta gttttctttt tattctctat gtcgtttttt
      181 agtttttgga atccttcagg aacatatcca tatcgagatt tggcattttc tagattaaca
      241 tctttagctg ttccgtcttt atctaaaata ataattttgc catatatgta ttttagttct
      301 ttttcaattt ctttttcgtt taaagtttca acgtttttat ctgcaatgtt atttttgttt
      361 tgggcttgag cttctttgaa attaaaatcc aagaccattg aaagtatggt taaaatactt
      421 aaagatacta ctaaaatctt tcttagtgat atactgtttt gaattgcatt cattgtaaat
      481 gcccccttgt tttgttattt aaatgaattc aatataatat taacatataa aaacaaagga
      541 gtttaatatg aataagtttt tttacttttt gattatttta ttatctgtat ttttaatttt
      601 taattttgtt aattcgattt tatttgataa tccttttgac tttttagaaa gttttattta
      661 ttcattggtt ttcacattaa tttatttagg tttagagggt cataaaaaga agaaggaata
      721 ggttgttttt tgaaacgagt gtgaacgagt ttcttcttgt cttgatacta tatagaaata
      781 actcgatttt atatatatag ctgtaactgt tgatattaca gtgtttaaac gtgtttttgt
      841 gcgtgaaagg aaaatttgac aataaaaaac cccagttata ttattaaggt gtcgaatctt
      901 aaataatact gggggtcttt ttatatgcaa tataatacta ctagaagtat aaccgaaaat
      961 caagataata aaacgttaaa agatatgacg aaaagtggga aacaacgccc atggagagaa
     1021 aagaaaatag ataatgtaag ctatgcagat atactagaaa ttttaaaaat caaaaaggct
     1081 tttaatgtaa aacaatgtgg taatatttta gaatttaagc caactgatga aggctatttg
     1141 aagttacata agacatggtt ttgtaaatca aaattatgtc cggtttgtaa ttggagacgt
     1201 gctatgaaaa atagttatca agctcaaaaa gtgattgaaa aagtaattaa ggaaaagcca
     1261 aaagcacgtt ggttgttttt aacactttca acaaaaaatg cgatagatgg agatacttta
     1321 gaacaaagtt tgaagcatct aactaaagca tttgataggt tgagtagata taaaaaggtt
     1381 aaacaaaatc ttgttggatt tatgcgttca acagaagtta ccgttaataa aaatgacggt
     1441 agttataatc agcacatgca tgttttgtta tgtgttgaaa atgcatattt tagaaaaaaa
     1501 gagaattata taactcaaga agaatgggtt aatttatggc aaagagcatt acaagttgac
     1561 tatcgacctg ttgctaatgt taaagcgatc aaaccgaata gaaaaggcga taaagacatt
     1621 gaatcggcaa tcaaagagac ctcaaaatat tcggttaaat catctgattt tttaactgat
     1681 gatgatgaaa aaaatcaaga aattgtaagt gatttagaaa aaggtttgta tcgaaaacgt
     1741 atgttaagtt atggtggatt gcttaaacaa aaacataaaa ttttaaactt agacgatgtc
     1801 gaagatggta atttgattaa tgcaagtgat gaagataaaa caacagacga agaagaaaaa
     1861 gcacattcaa ttaccgcaat ttggaatttc gaaaagcaaa attattattt aagacattag
     1921 tgttgactaa tgtctttttt gttgattttt tataaaaaag tactgtctta tttttgtgac
     1981 aaatgctgta tgtagtgtca caaaaataag acaaacgcaa tatattgtgt cacaaaaata
     2041 agacagtaca gctttgtatg atatcacttt aaaatacctt aaaacccctg gaatgtctgg
     2101 ctttgccaga cctatcattt ttgaatgata gcaaattctc cttatgctct tacggagttt
     2161 ttagagaaaa attaaaaatt ctcgattttt gataaaaaac gccctgcagg aatttagaaa
     2221 aacatgtgga agttttaaag gattttatgc taatttttaa tttgcatgta aatgggcagt
     2281 gttaaaaaat tagtcactgg ttttgctgaa atttttgttt gtgaaattac catatattta
     2341 tttggctcat atttgcgttt taagagcttg tatatatttt taagttaaaa acctatatga
     2401 taccccccta aacctttaaa ataccccctt aaaactcaaa ataaaggtat ttataatttg
     2461 agtaagtctt gtgataaagt tttttaaaaa aggagtgttt attttgaata aaaacacagt
     2521 gttagatgaa ggttacgtta tagcaactat tttaaatgtt ttctttttac ttggattaat
     2581 ttttatatct catttggaaa atttatatat attaattccg tatgttattt tgatgggaat
     2641 aaatgctatt tatttggttg ttaaggttat gaatttcaaa aagaataatt agaatatttg
     2701 aggggatttt gaaacgagtt tcttcttgtt ttcacactgt ttttttattc ctattggtgt
     2761 tgttgcttac tttttgtttt tctataaaga tgatgctttt gacgagatgg aagaaaaata
     2821 tgattatcat gaagataata aaaaatagac gacgcattta tgccgagaaa atttattgat
     2881 gttgagaaga acccttaact aaacttgcag acgaatgtcg gcatagcgtg agctattaag
     2941 ccgaccatgc gacaagtttt gggattgtta agggttccga ggctcaacgt caataaagca
     3001 attggaataa atagtatcta aagtaacccg tatttaagat tacattgtac atccttcgaa
     3061 accatagtag ctgcgattcc agctaggttt ccttttatcc caattttagc taattttttt
     3121 gctacg
//
