LOCUS       NZ_CP120113             3121 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog103 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120113
VERSION     NZ_CP120113.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696795
            Assembly: GCF_034033475.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3121)
  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  JOURNAL   Unpublished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 3121)
  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 3121)
  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                   :: 331x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:52:44
            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)                     :: 2,829
            CDSs (total)                      :: 2,747
            Genes (coding)                    :: 2,658
            CDSs (with protein)               :: 2,658
            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)              :: 89
            CDSs (without protein)            :: 89
            Pseudo Genes (ambiguous residues) :: 0 of 89
            Pseudo Genes (frameshifted)       :: 48 of 89
            Pseudo Genes (incomplete)         :: 35 of 89
            Pseudo Genes (internal stop)      :: 21 of 89
            Pseudo Genes (multiple problems)  :: 15 of 89
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120113.1.
            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..3121
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog103"
                     /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(3057..3121,1..926)
                     /locus_tag="P3U21_RS14135"
                     /old_locus_tag="P3U21_14135"
                     /pseudo=""
     CDS             join(3057..3121,1..926)
                     /locus_tag="P3U21_RS14135"
                     /old_locus_tag="P3U21_14135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /name="protein rep"
     gene            1510..1698
                     /locus_tag="P3U21_RS14140"
                     /old_locus_tag="P3U21_14140"
     CDS             1510..1698
                     /locus_tag="P3U21_RS14140"
                     /old_locus_tag="P3U21_14140"
                     /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(2024..2605)
                     /locus_tag="P3U21_RS14145"
                     /old_locus_tag="P3U21_14145"
     CDS             complement(2024..2605)
                     /locus_tag="P3U21_RS14145"
                     /old_locus_tag="P3U21_14145"
                     /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          997..1161
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          2..926
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.892"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtgggaaaca acgcccatgg agagaaaaga aaatagataa tgtaagctat gcagatatac
       61 tagaaatttt aaaaatcaaa aaggctttta atgtaaaaca atgtggtaat attttagaat
      121 ttaagccaac tgatgaaggc tatttgaagt tacataagac atggttttgt aaatcaaaat
      181 tatgtccggt ttgtaattgg agacgtgcta tgaaaaatag ttatcaagct caaaaagtga
      241 ttgaaaaagt aattaaggaa aagccaaaag cacgttggtt gtttttaaca ctttcaacaa
      301 aaaatgcgat agatggagat actttagaac aaagtttgaa gcatctaact aaagcatttg
      361 ataggttgag tagatataaa aaggttaaac aaaatcttgt tggatttatg cgttcaacag
      421 aagttaccgt taataaaaat gacggtagtt ataatcagca catgcatgtt ttgttatgtg
      481 ttgaaaatgc atattttaga aaaaaagaga attatataac tcaagaagaa tgggttaatt
      541 tatggcaaag agcattacaa gttgactatc gacctgttgc taatgttaaa gcgatcaaac
      601 cgaatagaaa aggcgataaa gacattgaat cggcaatcaa agagacctca aaatattcgg
      661 ttaaatcatc tgatttttta actgatgatg atgaaaaaaa tcaagaaatt gtaagtgatt
      721 tagaaaaagg tttgtatcga aaacgtatgt taagttatgg tggattgctt aaacaaaaac
      781 ataaaatttt aaacttagac gatgtcgaag atggtaattt gattaatgca agtgatgaag
      841 ataaaacaac agacgaagaa gaaaaagcac attcaattac cgcaatttgg aatttcgaaa
      901 agcaaaatta ttatttaaga cattagtgtt gactaatgtc ttttttgttg attttttata
      961 aaaaagtact gtcttatttt tgtgacaaat gctgtatgta gtgtcacaaa aataagacaa
     1021 acgcaatata ttgtgtcaca aaaataagac agtacagctt tgtatgatat cactttaaaa
     1081 taccttaaaa cccctggaat gtctggcttt gccagaccta tcatttttga atgatagcaa
     1141 attctcctta tgctcttacg gagtttttag agaaaaatta aaaattctcg atttttgata
     1201 aaaaacgccc tgcaggaatt tagaaaaaca tgtggaagtt ttaaaggatt ttatgctaat
     1261 ttttaatttg catgtaaatg ggcagtgtta aaaaattagt cactggtttt gctgaaattt
     1321 ttgtttgtga aattaccata tatttatttg gctcatattt gcgttttaag agcttgtata
     1381 tatttttaag ttaaaaacct atatgatacc cccctaaacc tttaaaatac ccccttaaaa
     1441 ctcaaaataa aggtatttat aatttgagta agtcttgtga taaagttttt taaaaaagga
     1501 gtgtttattt tgaataaaaa cacagtgtta gatgaaggtt acgttatagc aactatttta
     1561 aatgttttct ttttacttgg attaattttt atatctcatt tggaaaattt atatatatta
     1621 attccgtatg ttattttgat gggaataaat gctatttatt tggttgttaa ggttatgaat
     1681 ttcaaaaaga ataattagaa tatttgaggg gattttgaaa cgagtttctt cttgttttca
     1741 cactgttttt ttattcctat tggtgttgtt gcttactttt tgtttttcta taaagatgat
     1801 gcttttgacg agatggaaga aaaatatgat tatcatgaag ataataaaaa atagacgacg
     1861 catttatgcc gagaaaattt attgatgttg agaagaaccc ttaactaaac ttgcagacga
     1921 atgtcggcat agcgtgagct attaagccga ccatgcgaca agttttggga ttgttaaggg
     1981 ttccgaggct caacgtcaat aaagcaattg gaataaatag tatctaaagt aacccgtatt
     2041 taagattaca ttgtacatcc ttcgaaacca tagtagctgc gattccagct aggtttcctt
     2101 ttatcccaat tttagctaat ttttttgcta cgccctttaa gtttttggct ttaacatctt
     2161 caaaaactgc tgtgattatg tttccagtta aaagttctcc atatgagttt aaaacttcag
     2221 aatagaaaca gtcaccgcta tttttgtagt tcccaccaac tgctctaggt gatattgaac
     2281 tagttttctt tttattctct atgtcgtttt ttagtttttg gaatccttca ggaacatatc
     2341 catatcgaga tttggcattt tctagattaa catctttagc tgttccgtct ttatctaaaa
     2401 taataatttt gccatatatg tattttagtt ctttttcaat ttctttttcg tttaaagttt
     2461 caacgttttt atctgcaatg ttatttttgt tttgggcttg agcttctttg aaattaaaat
     2521 ccaagaccat tgaaagtatg gttaaaatac ttaaagatac tactaaaatc tttcttagtg
     2581 atatactgtt ttgaattgca ttcattgtaa atgccccctt gttttgttat ttaaatgaat
     2641 tcaatataat attaacatat aaaaacaaag gagtttaata tgaataagtt tttttacttt
     2701 ttgattattt tattatctgt atttttaatt tttaattttg ttaattcgat tttatttgat
     2761 aatccttttg actttttaga aagttttatt tattcattgg ttttcacatt aatttattta
     2821 ggtttagagg gtcataaaaa gaagaaggaa taggttgttt tttgaaacga gtgtgaacga
     2881 gtttcttctt gtcttgatac tatatagaaa taactcgatt ttatatatat agctgtaact
     2941 gttgatatta cagtgtttaa acgtgttttt gtgcgtgaaa ggaaaatttg acaataaaaa
     3001 accccagtta tattattaag gtgtcgaatc ttaaataata ctgggggtct ttttatatgc
     3061 aatataatac tactagaagt ataaccgaaa atcaagataa taaaacgtta aaagatatga
     3121 c
//
