LOCUS       NZ_CP129359             3262 bp    DNA     circular CON 24-DEC-2023
DEFINITION  Staphylococcus aureus strain Dog002 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP129359
VERSION     NZ_CP129359.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696748
            Assembly: GCF_034022875.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3262)
  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  JOURNAL   Unpublished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 3262)
  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 the database at the request of the submitter
REFERENCE   3  (bases 1 to 3262)
  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 (05-JUL-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                   :: 395x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/24/2023 14:15:09
            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)         :: 35 of 86
            Pseudo Genes (internal stop)      :: 21 of 86
            Pseudo Genes (multiple problems)  :: 15 of 86
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129359.1.
            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..3262
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog002"
                     /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(3223..3262,1..542))
                     /locus_tag="P3U15_RS14160"
                     /old_locus_tag="P3U15_14160"
     CDS             complement(join(3223..3262,1..542))
                     /locus_tag="P3U15_RS14160"
                     /old_locus_tag="P3U15_14160"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_320409779.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSRTFNWKHNHSSF"
                     /name="hypothetical protein"
     gene            994..1989
                     /locus_tag="P3U15_RS14165"
                     /old_locus_tag="P3U15_14165"
     CDS             994..1989
                     /locus_tag="P3U15_RS14165"
                     /old_locus_tag="P3U15_14165"
                     /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            2573..2761
                     /locus_tag="P3U15_RS14170"
                     /old_locus_tag="P3U15_14170"
     CDS             2573..2761
                     /locus_tag="P3U15_RS14170"
                     /old_locus_tag="P3U15_14170"
                     /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          2060..2224
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          995..1989
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaaaccatag tagctgcgat tccagctagg tttcctttta tcccaatttt agctaatttt
       61 tttgctacgc cctttaagtt tttggcttta acatcttcaa aaactgctgt gattatgttt
      121 ccagttaaaa gttctccata tgagtttaaa acttcagaat agaaacagtc accgctattt
      181 ttgtagttcc caccaactgc tctaggtgat attgaactag ttttcttttt attctctatg
      241 tcgtttttta gtttttggaa tccttcagga acatatccat atcgagattt ggcattttct
      301 agattaacat ctttagctgt tccgtcttta tctaaaataa taattttgcc atatatgtat
      361 tttagttctt tttcaatttc tttttcgttt aaagtttcaa cgtttttatc tgcaatgtta
      421 tttttgtttt gggcttgagc ttctttgaaa ttaaaatcca agaccattga aagtatggtt
      481 aaaatactta aagatactac taaaatcttt cttagtgata tactgttttg aattgcattc
      541 attgtaaatg cccccttgtt ttgttattta aatgaattca atataatatt aacatataaa
      601 aacaaaggag tttaatatga ataagttttt ttactttttg attattttat tatctgtatt
      661 tttaattttt aattttgtta attcgatttt atttgataat ccttttgact ttttagaaag
      721 ttttatttat tcattggttt tcacattaat ttatttaggt ttagagggtc ataaaaagaa
      781 gaaggaatag gttgtttttt gaaacgagtg tgaacgagtt tcttcttgtc ttgatactat
      841 atagaaataa ctcgatttta tatatatagc tgtaactgtt gatattacag tgtttaaacg
      901 tgtttttgtg cgtgaaagga aaatttgaca ataaaaaacc ccagttatat tattaaggtg
      961 tcgaatctta aataatactg ggggtctttt tatatgcaat ataatactac tagaagtata
     1021 accgaaaatc aagataataa aacgttaaaa gatatgacga aaagtgggaa acaacgccca
     1081 tggagagaaa agaaaataga taatgtaagc tatgcagata tactagaaat tttaaaaatc
     1141 aaaaaggctt ttaatgtaaa acaatgtggt aatattttag aatttaagcc aactgatgaa
     1201 ggctatttga agttacataa gacatggttt tgtaaatcaa aattatgtcc ggtttgtaat
     1261 tggagacgtg ctatgaaaaa tagttatcaa gctcaaaaag tgattgaaaa agtaattaag
     1321 gaaaagccaa aagcacgttg gttgttttta acactttcaa caaaaaatgc gatagatgga
     1381 gatactttag aacaaagttt gaagcatcta actaaagcat ttgataggtt gagtagatat
     1441 aaaaaggtta aacaaaatct tgttggattt atgcgttcaa cagaagttac cgttaataaa
     1501 aatgacggta gttataatca gcacatgcat gttttgttat gtgttgaaaa tgcatatttt
     1561 agaaaaaaag agaattatat aactcaagaa gaatgggtta atttatggca aagagcatta
     1621 caagttgact atcgacctgt tgctaatgtt aaagcgatca aaccgaatag aaaaggcgat
     1681 aaagacattg aatcggcaat caaagagacc tcaaaatatt cggttaaatc atctgatttt
     1741 ttaactgatg atgatgaaaa aaatcaagaa attgtaagtg atttagaaaa aggtttgtat
     1801 cgaaaacgta tgttaagtta tggtggattg cttaaacaaa aacataaaat tttaaactta
     1861 gacgatgtcg aagatggtaa tttgattaat gcaagtgatg aagataaaac aacagacgaa
     1921 gaagaaaaag cacattcaat taccgcaatt tggaatttcg aaaagcaaaa ttattattta
     1981 agacattagt gttgactaat gtcttttttg ttgatttttt ataaaaaagt actgtcttat
     2041 ttttgtgaca aatgctgtat gtagtgtcac aaaaataaga caaacgcaat atattgtgtc
     2101 acaaaaataa gacagtacag ctttgtatga tatcacttta aaatacctta aaacccctgg
     2161 aatgtctggc tttgccagac ctatcatttt tgaatgatag caaattctcc ttatgctctt
     2221 acggagtttt tagagaaaaa ttaaaaattc tcgatttttg ataaaaaacg ccctgcagga
     2281 atttagaaaa acatgtggaa gttttaaagg attttatgct aatttttaat ttgcatgtaa
     2341 atgggcagtg ttaaaaaatt agtcactggt tttgctgaaa tttttgtttg tgaaattacc
     2401 atatatttat ttggctcata tttgcgtttt aagagcttgt atatattttt aagttaaaaa
     2461 cctatatgat acccccctaa acctttaaaa taccccctta aaactcaaaa taaaggtatt
     2521 tataatttga gtaagtcttg tgataaagtt ttttaaaaaa ggagtgttta ttttgaataa
     2581 aaacacagtg ttagatgaag gttacgttat agcaactatt ttaaatgttt tctttttact
     2641 tggattaatt tttatatctc atttggaaaa tttatatata ttaattccgt atgttatttt
     2701 gatgggaata aatgctattt atttggttgt taaggttatg aatttcaaaa agaataatta
     2761 gaatatttga ggggattttg aaacgagttt cttcttgttt tcacactgtt tttttattcc
     2821 tattggtgtt gttgcttact ttttgttttt ctataaagat gatgcttttg acgagatgga
     2881 agaaaaatat gattatcatg aagataataa aaaatagacg acgcatttat gccgagaaaa
     2941 tttattgatg ttgagaagaa cccttaacta aacttgcaga cgaatgtcgg catagcgtga
     3001 gctattaagc cgaccatgcg acaagttttg ggattgttaa gggttccgag gctcaacgtc
     3061 aataaagcaa ttggaataaa tagtatctaa agtaacccgt atttaagatt acattgtaca
     3121 tccttcgaaa ccatagtagc tgcgattcca gctaggtttc cttttatccc aattttagct
     3181 aatttttttg ctacgccctt taagtttttg gctttaacat cttcaaaaac tgctgtgatt
     3241 atgtttccag ttaaaagttc tc
//
