LOCUS       NZ_CP120178             3132 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog019 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP120178
VERSION     NZ_CP120178.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696764
            Assembly: GCF_034015615.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3132)
  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  JOURNAL   Unpublished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 3132)
  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 3132)
  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                   :: 515x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:40:31
            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)                     :: 2,787
            CDSs (total)                      :: 2,705
            Genes (coding)                    :: 2,619
            CDSs (with protein)               :: 2,619
            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)       :: 44 of 86
            Pseudo Genes (incomplete)         :: 35 of 86
            Pseudo Genes (internal stop)      :: 22 of 86
            Pseudo Genes (multiple problems)  :: 15 of 86
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120178.1.
            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..3132
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog019"
                     /isolation_source="nasal swab"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed1"
                     /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(<21..200)
                     /locus_tag="P3U70_RS13925"
                     /old_locus_tag="P3U70_13925"
                     /pseudo=""
     CDS             complement(<21..200)
                     /locus_tag="P3U70_RS13925"
                     /old_locus_tag="P3U70_13925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /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="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(784..1779)
                     /locus_tag="P3U70_RS13930"
                     /old_locus_tag="P3U70_13930"
     CDS             complement(784..1779)
                     /locus_tag="P3U70_RS13930"
                     /old_locus_tag="P3U70_13930"
                     /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            2231..2812
                     /locus_tag="P3U70_RS13935"
                     /old_locus_tag="P3U70_13935"
     CDS             2231..2812
                     /locus_tag="P3U70_RS13935"
                     /old_locus_tag="P3U70_13935"
                     /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          complement(550..714)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(785..1779)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccctcaaata ttctaattat tcttttgaaa ttcataacct taacaaccaa ataaatagca
       61 tttattccca tcaaaataac atacggaatt aatatatata aattttccaa atgagatata
      121 aaaattaatc caagtaaaaa gaaaacattt aaaatagttg ctataacgta accttcatct
      181 aacactgtgt ttttattcaa aataaacact ccttttttaa aaaactttat cacaagactt
      241 actcaaatta taaatacctt tattttgagt tttaaggggg tattttaaag gtttaggggg
      301 gtatcatata ggtttttaac ttaaaaatat atacaagctc ttaaaacgca aatatgagcc
      361 aaataaatat atggtaattt cacaaacaaa aatttcagca aaaccagtga ctaatttttt
      421 aacactgccc atttacatgc aaattaaaaa ttagcataaa atcctttaaa acttccacat
      481 gtttttctaa attcctgcag ggcgtttttt atcaaaaatc gagaattttt aatttttctc
      541 taaaaactcc gtaagagcat aaggagaatt tgctatcatt caaaaatgat aggtctggca
      601 aagccagaca ttccaggggt tttaaggtat tttaaagtga tatcatacaa agctgtactg
      661 tcttattttt gtgacacaat atattgcgtt tgtcttattt ttgtgacact acatacagca
      721 tttgtcacaa aaataagaca gtactttttt ataaaaaatc aacaaaaaag acattagtca
      781 acactaatgt cttaaataat aattttgctt ttcgaaattc caaattgcgg taattgaatg
      841 tgctttttct tcttcgtctg ttgttttatc ttcatcactt gcattaatca aattaccatc
      901 ttcgacatcg tctaagttta aaattttatg tttttgttta agcaatccac cataacttaa
      961 catacgtttt cgatacaaac ctttttctaa atcacttaca atttcttgat ttttttcatc
     1021 atcatcagtt aaaaaatcag atgatttaac cgaatatttt gaggtctctt tgattgccga
     1081 ttcaatgtct ttatcgcctt ttctattcgg tttgatcgct ttaacattag caacaggtcg
     1141 atagtcaact tgtaatgctc tttgccataa attaacccat tcttcttgag ttatataatt
     1201 ctcttttttt ctaaaatatg cattttcaac acataacaaa acatgcatgt gctgattata
     1261 actaccgtca tttttattaa cggtaacttc tgttgaacgc ataaatccaa caagattttg
     1321 tttaaccttt ttatatctac tcaacctatc aaatgcttta gttagatgct tcaaactttg
     1381 ttctaaagta tctccatcta tcgcattttt tgttgaaagt gttaaaaaca accaacgtgc
     1441 ttttggcttt tccttaatta ctttttcaat cactttttga gcttgataac tatttttcat
     1501 agcacgtctc caattacaaa ccggacataa ttttgattta caaaaccatg tcttatgtaa
     1561 cttcaaatag ccttcatcag ttggcttaaa ttctaaaata ttaccacatt gttttacatt
     1621 aaaagccttt ttgattttta aaatttctag tatatctgca tagcttacat tatctatttt
     1681 cttttctctc catgggcgtt gtttcccact tttcgtcata tcttttaacg ttttattatc
     1741 ttgattttcg gttatacttc tagtagtatt atattgcata taaaaagacc cccagtatta
     1801 tttaagattc gacaccttaa taatataact ggggtttttt attgtcaaat tttcctttca
     1861 cgcacaaaaa cacgtttaaa cactgtaata tcaacagtta cagctatata tataaaatcg
     1921 agttatttct atatagtatc aagacaagaa gaaactcgtt cacactcgtt tcaaaaaaca
     1981 acctattcct tcttcttttt atgaccctct aaacctaaat aaattaatgt gaaaaccaat
     2041 gaataaataa aactttctaa aaagtcaaaa ggattatcaa ataaaatcga attaacaaaa
     2101 ttaaaaatta aaaatacaga taataaaata atcaaaaagt aaaaaaactt attcatatta
     2161 aactcctttg tttttatatg ttaatattat attgaattca tttaaataac aaaacaaggg
     2221 ggcatttaca atgaatgcaa ttcaaaacag tatatcacta agaaagattt tagtagtatc
     2281 tttaagtatt ttaaccatac tttcaatggt cttggatttt aatttcaaag aagctcaagc
     2341 ccaaaacaaa aataacattg cagataaaaa cgttgaaact ttaaacgaaa aagaaattga
     2401 aaaagaacta aaatacatat atggcaaaat tattatttta gataaagacg gaacagctaa
     2461 agatgttaat ctagaaaatg ccaaatctcg atatggatat gttcctgaag gattccaaaa
     2521 actaaaaaac gacatagaga ataaaaagaa aactagttca atatcaccta gagcagttgg
     2581 tgggaactac aaaaatagcg gtgactgttt ctattctgaa gttttaaact catatggaga
     2641 acttttaact ggaaacataa tcacagcagt ttttgaagat gttaaagcca aaaacttaaa
     2701 gggcgtagca aaaaaattag ctaaaattgg gataaaagga aacctagctg gaatcgcagc
     2761 tactatggtt tcgaaggatg tacaatgtaa tcttaaatac gggttacttt agatactatt
     2821 tattccaatt gctttattga cgttgagcct cggaaccctt aacaatccca aaacttgtcg
     2881 catggtcggc ttaatagctc acgctatgcc gacattcgtc tgcaagttta gttaagggtt
     2941 cttctcaaca tcaataaatt ttctcggcat aaatgcgtcg tctatttttt attatcttca
     3001 tgataatcat atttttcttc catctcgtca aaagcatcat ctttatagaa aaacaaaaag
     3061 taagcaacaa caccaatagg aataaaaaaa cagtgtgaaa acaagaagaa actcgtttca
     3121 aaatccctca aa
//
