LOCUS       NZ_CP120092             3142 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog112 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120092
VERSION     NZ_CP120092.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696802
            Assembly: GCF_034028035.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3142)
  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  JOURNAL   Unpublished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 3142)
  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 submitter's request
REFERENCE   3  (bases 1 to 3142)
  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                   :: 316x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:50:31
            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)                     :: 2,769
            CDSs (total)                      :: 2,687
            Genes (coding)                    :: 2,600
            CDSs (with protein)               :: 2,600
            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)       :: 48 of 87
            Pseudo Genes (incomplete)         :: 33 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
            CP120092.1.
            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..3142
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog112"
                     /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(3070..3142,1..117)
                     /locus_tag="P3U52_RS13830"
                     /old_locus_tag="P3U52_13830"
                     /pseudo=""
     CDS             join(3070..3142,1..117)
                     /locus_tag="P3U52_RS13830"
                     /old_locus_tag="P3U52_13830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001031809.1"
                     /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            321..1316
                     /locus_tag="P3U52_RS13835"
                     /old_locus_tag="P3U52_13835"
     CDS             321..1316
                     /locus_tag="P3U52_RS13835"
                     /old_locus_tag="P3U52_13835"
                     /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            1900..2088
                     /locus_tag="P3U52_RS13840"
                     /old_locus_tag="P3U52_13840"
     CDS             1900..2088
                     /locus_tag="P3U52_RS13840"
                     /old_locus_tag="P3U52_13840"
                     /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(2414..2995)
                     /locus_tag="P3U52_RS13845"
                     /old_locus_tag="P3U52_13845"
     CDS             complement(2414..2995)
                     /locus_tag="P3U52_RS13845"
                     /old_locus_tag="P3U52_13845"
                     /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"
     Typing          1387..1551
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          322..1316
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttgttaatt cgattttatt tgataatcct tttgactttt tagaaagttt tatttattca
       61 ttggttttca cattaattta tttaggttta gagggtcata aaaagaagaa ggaataggtt
      121 gttttttgaa acgagtgtga acgagtttct tcttgtcttg atactatata gaaataactc
      181 gattttatat atatagctgt aactgttgat attacagtgt ttaaacgtgt ttttgtgcgt
      241 gaaaggaaaa tttgacaata aaaaacccca gttatattat taaggtgtcg aatcttaaat
      301 aatactgggg gtctttttat atgcaatata atactactag aagtataacc gaaaatcaag
      361 ataataaaac gttaaaagat atgacgaaaa gtgggaaaca acgcccatgg agagaaaaga
      421 aaatagataa tgtaagctat gcagatatac tagaaatttt aaaaatcaaa aaggctttta
      481 atgtaaaaca atgtggtaat attttagaat ttaagccaac tgatgaaggc tatttgaagt
      541 tacataagac atggttttgt aaatcaaaat tatgtccggt ttgtaattgg agacgtgcta
      601 tgaaaaatag ttatcaagct caaaaagtga ttgaaaaagt aattaaggaa aagccaaaag
      661 cacgttggtt gtttttaaca ctttcaacaa aaaatgcgat agatggagat actttagaac
      721 aaagtttgaa gcatctaact aaagcatttg ataggttgag tagatataaa aaggttaaac
      781 aaaatcttgt tggatttatg cgttcaacag aagttaccgt taataaaaat gacggtagtt
      841 ataatcagca catgcatgtt ttgttatgtg ttgaaaatgc atattttaga aaaaaagaga
      901 attatataac tcaagaagaa tgggttaatt tatggcaaag agcattacaa gttgactatc
      961 gacctgttgc taatgttaaa gcgatcaaac cgaatagaaa aggcgataaa gacattgaat
     1021 cggcaatcaa agagacctca aaatattcgg ttaaatcatc tgatttttta actgatgatg
     1081 atgaaaaaaa tcaagaaatt gtaagtgatt tagaaaaagg tttgtatcga aaacgtatgt
     1141 taagttatgg tggattgctt aaacaaaaac ataaaatttt aaacttagac gatgtcgaag
     1201 atggtaattt gattaatgca agtgatgaag ataaaacaac agacgaagaa gaaaaagcac
     1261 attcaattac cgcaatttgg aatttcgaaa agcaaaatta ttatttaaga cattagtgtt
     1321 gactaatgtc ttttttgttg attttttata aaaaagtact gtcttatttt tgtgacaaat
     1381 gctgtatgta gtgtcacaaa aataagacaa acgcaatata ttgtgtcaca aaaataagac
     1441 agtacagctt tgtatgatat cactttaaaa taccttaaaa cccctggaat gtctggcttt
     1501 gccagaccta tcatttttga atgatagcaa attctcctta tgctcttacg gagtttttag
     1561 agaaaaatta aaaattctcg atttttgata aaaaacgccc tgcaggaatt tagaaaaaca
     1621 tgtggaagtt ttaaaggatt ttatgctaat ttttaatttg catgtaaatg ggcagtgtta
     1681 aaaaattagt cactggtttt gctgaaattt ttgtttgtga aattaccata tatttatttg
     1741 gctcatattt gcgttttaag agcttgtata tatttttaag ttaaaaacct atatgatacc
     1801 cccctaaacc tttaaaatac ccccttaaaa ctcaaaataa aggtatttat aatttgagta
     1861 agtcttgtga taaagttttt taaaaaagga gtgtttattt tgaataaaaa cacagtgtta
     1921 gatgaaggtt acgttatagc aactatttta aatgttttct ttttacttgg attaattttt
     1981 atatctcatt tggaaaattt atatatatta attccgtatg ttattttgat gggaataaat
     2041 gctatttatt tggttgttaa ggttatgaat ttcaaaaaga ataattagaa tatttgaggg
     2101 gattttgaaa cgagtttctt cttgttttca cactgttttt ttattcctat tggtgttgtt
     2161 gcttactttt tgtttttcta taaagatgat gcttttgacg agatggaaga aaaatatgat
     2221 tatcatgaag ataataaaaa atagacgacg catttatgcc gagaaaattt attgatgttg
     2281 agaagaaccc ttaactaaac ttgcagacga atgtcggcat agcgtgagct attaagccga
     2341 ccatgcgaca agttttggga ttgttaaggg ttccgaggct caacgtcaat aaagcaattg
     2401 gaataaatag tatctaaagt aacccgtatt taagattaca ttgtacatcc ttcgaaacca
     2461 tagtagctgc gattccagct aggtttcctt ttatcccaat tttagctaat ttttttgcta
     2521 cgccctttaa gtttttggct ttaacatctt caaaaactgc tgtgattatg tttccagtta
     2581 aaagttctcc atatgagttt aaaacttcag aatagaaaca gtcaccgcta tttttgtagt
     2641 tcccaccaac tgctctaggt gatattgaac tagttttctt tttattctct atgtcgtttt
     2701 ttagtttttg gaatccttca ggaacatatc catatcgaga tttggcattt tctagattaa
     2761 catctttagc tgttccgtct ttatctaaaa taataatttt gccatatatg tattttagtt
     2821 ctttttcaat ttctttttcg tttaaagttt caacgttttt atctgcaatg ttatttttgt
     2881 tttgggcttg agcttctttg aaattaaaat ccaagaccat tgaaagtatg gttaaaatac
     2941 ttaaagatac tactaaaatc tttcttagtg atatactgtt ttgaattgca ttcattgtaa
     3001 atgccccctt gttttgttat ttaaatgaat tcaatataat attaacatat aaaaacaaag
     3061 gagtttaata tgaataagtt tttttacttt ttgattattt tattatctgt atttttaatt
     3121 tttaattttg ttaattcgat tt
//
