LOCUS       NZ_CP120164             3245 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog025 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120164
VERSION     NZ_CP120164.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696771
            Assembly: GCF_034042835.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3245)
  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  JOURNAL   Unpublished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 3245)
  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 3245)
  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                   :: 753x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:53:30
            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)                     :: 2,835
            CDSs (total)                      :: 2,753
            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)              :: 87
            CDSs (without protein)            :: 87
            Pseudo Genes (ambiguous residues) :: 0 of 87
            Pseudo Genes (frameshifted)       :: 45 of 87
            Pseudo Genes (incomplete)         :: 36 of 87
            Pseudo Genes (internal stop)      :: 21 of 87
            Pseudo Genes (multiple problems)  :: 15 of 87
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120164.1.
            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..3245
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog025"
                     /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            17..952
                     /locus_tag="P3U12_RS14160"
                     /old_locus_tag="P3U12_14160"
     CDS             17..952
                     /locus_tag="P3U12_RS14160"
                     /old_locus_tag="P3U12_14160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014533071.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_078097929.1"
                     /translation="MTKSGKQRPWREKKIDNVSYADILEILKIKKAFNVKQCGNILEFK
                     PTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVIEKVIKEKPKARWLFLTLSTK
                     NAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRSTEVTVNKNDGSYNQHMHVLLC
                     VENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAIKPNRKGDKDIESAIKETSKY
                     SVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLKQKHKILNLDDVEDGNLINAS
                     DEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            1536..1724
                     /locus_tag="P3U12_RS14165"
                     /old_locus_tag="P3U12_14165"
     CDS             1536..1724
                     /locus_tag="P3U12_RS14165"
                     /old_locus_tag="P3U12_14165"
                     /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"
     gene            complement(2050..2631)
                     /locus_tag="P3U12_RS14170"
                     /old_locus_tag="P3U12_14170"
     CDS             complement(2050..2631)
                     /locus_tag="P3U12_RS14170"
                     /old_locus_tag="P3U12_14170"
                     /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_323709698.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGIAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     gene            3083..>3244
                     /locus_tag="P3U12_RS14175"
                     /old_locus_tag="P3U12_14175"
                     /pseudo=""
     CDS             3083..>3244
                     /locus_tag="P3U12_RS14175"
                     /old_locus_tag="P3U12_14175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /name="replication protein"
     Typing          1023..1187
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          2..952
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.895"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaaacgtta aaagatatga cgaaaagtgg gaaacaacgc ccatggagag aaaagaaaat
       61 agataatgta agctatgcag atatactaga aattttaaaa atcaaaaagg cttttaatgt
      121 aaaacaatgt ggtaatattt tagaatttaa gccaactgat gaaggctatt tgaagttaca
      181 taagacatgg ttttgtaaat caaaattatg tccggtttgt aattggagac gtgctatgaa
      241 aaatagttat caagctcaaa aagtgattga aaaagtaatt aaggaaaagc caaaagcacg
      301 ttggttgttt ttaacacttt caacaaaaaa tgcgatagat ggagatactt tagaacaaag
      361 tttgaagcat ctaactaaag catttgatag gttgagtaga tataaaaagg ttaaacaaaa
      421 tcttgttgga tttatgcgtt caacagaagt taccgttaat aaaaatgacg gtagttataa
      481 tcagcacatg catgttttgt tatgtgttga aaatgcatat tttagaaaaa aagagaatta
      541 tataactcaa gaagaatggg ttaatttatg gcaaagagca ttacaagttg actatcgacc
      601 tgttgctaat gttaaagcga tcaaaccgaa tagaaaaggc gataaagaca ttgaatcggc
      661 aatcaaagag acctcaaaat attcggttaa atcatctgat tttttaactg atgatgatga
      721 aaaaaatcaa gaaattgtaa gtgatttaga aaaaggtttg tatcgaaaac gtatgttaag
      781 ttatggtgga ttgcttaaac aaaaacataa aattttaaac ttagacgatg tcgaagatgg
      841 taatttgatt aatgcaagtg atgaagataa aacaacagac gaagaagaaa aagcacattc
      901 aattaccgca atttggaatt tcgaaaagca aaattattat ttaagacatt agtgttgact
      961 aatgtctttt ttgttgattt tttataaaaa agtactgtct tatttttgtg acaaatgctg
     1021 tatgtagtgt cacaaaaata agacaaacgc aatatattgt gtcacaaaaa taagacagta
     1081 cagctttgta tgatatcact ttaaaatacc ttaaaacccc tggaatgtct ggctttgcca
     1141 gacctatcat ttttgaatga tagcaaattc tccttatgct cttacggagt ttttagagaa
     1201 aaattaaaaa ttctcgattt ttgataaaaa acgccctgca ggaatttaga aaaacatgtg
     1261 gaagttttaa aggattttat gctaattttt aatttgcatg taaatgggca gtgttaaaaa
     1321 attagtcact ggttttgctg aaatttttgt ttgtgaaatt accatatatt tatttggctc
     1381 atatttgcgt tttaagagct tgtatatatt tttaagttaa aaacctatat gatacccccc
     1441 taaaccttta aaataccccc ttaaaactca aaataaaggt atttataatt tgagtaagtc
     1501 ttgtgataaa gttttttaaa aaaggagtgt ttattttgaa taaaaacaca gtgttagatg
     1561 aaggttacgt tatagcaact attttaaatg ttttcttttt acttggatta atttttatat
     1621 ctcatttgga aaatttatat atattaattc cgtatgttat tttgatggga ataaatgcta
     1681 tttatttggt tgttaaggtt atgaatttca aaaagaataa ttagaatatt tgaggggatt
     1741 ttgaaacgag tttcttcttg ttttcacact gtttttttat tcctattggt gttgttgctt
     1801 actttttgtt tttctataaa gatgatgctt ttgacgagat ggaagaaaaa tatgattatc
     1861 atgaagataa taaaaaatag acgacgcatt tatgccgaga aaatttattg atgttgagaa
     1921 gaacccttaa ctaaacttgc agacgaatgt cggcatagcg tgagctatta agccgaccat
     1981 gcgacaagtt ttgggattgt taagggttcc gaggctcaac gtcaataaag caattggaat
     2041 aaatagtatc taaagtaacc cgtatttaag attacattgt acatccttcg aaaccatagt
     2101 agctgcgatt ccagctaggt ttccttttat cccaatttta gctaattttt ttgctatgcc
     2161 ctttaagttt ttggctttaa catcttcaaa aactgctgtg attatgtttc cagttaaaag
     2221 ttctccatat gagtttaaaa cttcagaata gaaacagtca ccgctatttt tgtagttccc
     2281 accaactgct ctaggtgata ttgaactagt tttcttttta ttctctatgt cgttttttag
     2341 tttttggaat ccttcaggaa catatccata tcgagatttg gcattttcta gattaacatc
     2401 tttagctgtt ccgtctttat ctaaaataat aattttgcca tatatgtatt ttagttcttt
     2461 ttcaatttct ttttcgttta aagtttcaac gtttttatct gcaatgttat ttttgttttg
     2521 ggcttgagct tctttgaaat taaaatccaa gaccattgaa agtatggtta aaatacttaa
     2581 agatactact aaaatctttc ttagtgatat actgttttga attgcattca ttgtaaatgc
     2641 ccccttgttt tgttatttaa atgaattcaa tataatatta acatataaaa acaaaggagt
     2701 ttaatatgaa taagtttttt tactttttga ttattttatt atctgtattt ttaattttta
     2761 attttgttaa ttcgatttta tttgataatc cttttgactt tttagaaagt tttatttatt
     2821 cattggtttt cacattaatt tatttaggtt tagagggtca taaaaagaag aaggaatagg
     2881 ttgttttttg aaacgagtgt gaacgagttt cttcttgtct tgatactata tagaaataac
     2941 tcgattttat atatatagct gtaactgttg atattacagt gtttaaacgt gtttttgtgc
     3001 gtgaaaggaa aatttgacaa taaaaaaccc cagttatatt attaaggtgt cgaatcttaa
     3061 ataatactgg gggtcttttt atatgcaata taatactact agaagtataa ccgaaaatca
     3121 agataataaa acgttaaaag atatgacgaa aagtgggaaa caacgcccat ggagagaaaa
     3181 gaaaatagat aatgtaagct atgcagatat actagaaatt ttaaaaatca aaaaggcttt
     3241 taatg
//
