LOCUS       NZ_CP120142             3130 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog035_1 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP120142
VERSION     NZ_CP120142.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696779
            Assembly: GCF_034042675.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3130)
  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  JOURNAL   Unpublished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 3130)
  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 3130)
  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                   :: 191x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:50:41
            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)                     :: 2,797
            CDSs (total)                      :: 2,715
            Genes (coding)                    :: 2,630
            CDSs (with protein)               :: 2,630
            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)              :: 85
            CDSs (without protein)            :: 85
            Pseudo Genes (ambiguous residues) :: 0 of 85
            Pseudo Genes (frameshifted)       :: 45 of 85
            Pseudo Genes (incomplete)         :: 34 of 85
            Pseudo Genes (internal stop)      :: 21 of 85
            Pseudo Genes (multiple problems)  :: 15 of 85
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120142.1.
            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..3130
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog035_1"
                     /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(join(2834..3130,1..703))
                     /locus_tag="P3U55_RS13975"
                     /old_locus_tag="P3U55_13975"
                     /pseudo=""
     CDS             complement(join(2834..3130,1..703))
                     /locus_tag="P3U55_RS13975"
                     /old_locus_tag="P3U55_13975"
                     /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            1155..1736
                     /locus_tag="P3U55_RS13980"
                     /old_locus_tag="P3U55_13980"
     CDS             1155..1736
                     /locus_tag="P3U55_RS13980"
                     /old_locus_tag="P3U55_13980"
                     /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"
     gene            complement(2062..2250)
                     /locus_tag="P3U55_RS13985"
                     /old_locus_tag="P3U55_13985"
     CDS             complement(2062..2250)
                     /locus_tag="P3U55_RS13985"
                     /old_locus_tag="P3U55_13985"
                     /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          complement(2600..2764)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(4..703)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.573"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2835..3130)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.56e-153"
ORIGIN
        1 ccgattcaat gtctttatcg ccttttctat tcggtttgat cgctttaaca ttagcaacag
       61 gtcgatagtc aacttgtaat gctctttgcc ataaattaac ccattcttct tgagttatat
      121 aattctcttt ttttctaaaa tatgcatttt caacacataa caaaacatgc atgtgctgat
      181 tataactacc gtcattttta ttaacggtaa cttctgttga acgcataaat ccaacaagat
      241 tttgtttaac ctttttatat ctactcaacc tatcaaatgc tttagttaga tgcttcaaac
      301 tttgttctaa agtatctcca tctatcgcat tttttgttga aagtgttaaa aacaaccaac
      361 gtgcttttgg cttttcctta attacttttt caatcacttt ttgagcttga taactatttt
      421 tcatagcacg tctccaatta caaaccggac ataattttga tttacaaaac catgtcttat
      481 gtaacttcaa atagccttca tcagttggct taaattctaa aatattacca cattgtttta
      541 cattaaaagc ctttttgatt tttaaaattt ctagtatatc tgcatagctt acattatcta
      601 ttttcttttc tctccatggg cgttgtttcc cacttttcgt catatctttt aacgttttat
      661 tatcttgatt ttcggttata cttctagtag tattatattg catataaaaa gacccccagt
      721 attatttaag attcgacacc ttaataatat aactggggtt ttttattgtc aaattttcct
      781 ttcacgcaca aaaacacgtt taaacactgt aatatcaaca gttacagcta tatatataaa
      841 atcgagttat ttctatatag tatcaagaca agaagaaact cgttcacact cgtttcaaaa
      901 aacaacctat tccttcttct ttttatgacc ctctaaacct aaataaatta atgtgaaaac
      961 caatgaataa ataaaacttt ctaaaaagtc aaaaggatta tcaaataaaa tcgaattaac
     1021 aaaattaaaa attaaaaata cagataataa aataatcaaa aagtaaaaaa acttattcat
     1081 attaaactcc tttgttttta tatgttaata ttatattgaa ttcatttaaa taacaaaaca
     1141 agggggcatt tacaatgaat gcaattcaaa acagtatatc actaagaaag attttagtag
     1201 tatctttaag tattttaacc atactttcaa tggtcttgga ttttaatttc aaagaagctc
     1261 aagcccaaaa caaaaataac attgcagata aaaacgttga aactttaaac gaaaaagaaa
     1321 ttgaaaaaga actaaaatac atatatggca aaattattat tttagataaa gacggaacag
     1381 ctaaagatgt taatctagaa aatgccaaat ctcgatatgg atatgttcct gaaggattcc
     1441 aaaaactaaa aaacgacata gagaataaaa agaaaactag ttcaatatca cctagagcag
     1501 ttggtgggaa ctacaaaaat agcggtgact gtttctattc tgaagtttta aactcatatg
     1561 gagaactttt aactggaaac ataatcacag cagtttttga agatgttaaa gccaaaaact
     1621 taaagggcgt agcaaaaaaa ttagctaaaa ttgggataaa aggaaaccta gctggaatcg
     1681 cagctactat ggtttcgaag gatgtacaat gtaatcttaa atacgggtta ctttagatac
     1741 tatttattcc aattgcttta ttgacgttga gcctcggaac ccttaacaat cccaaaactt
     1801 gtcgcatggt cggcttaata gctcacgcta tgccgacatt cgtctgcaag tttagttaag
     1861 ggttcttctc aacatcaata aattttctcg gcataaatgc gtcgtctatt ttttattatc
     1921 ttcatgataa tcatattttt cttccatctc gtcaaaagca tcatctttat agaaaaacaa
     1981 aaagtaagca acaacaccaa taggaataaa aaaacagtgt gaaaacaaga agaaactcgt
     2041 ttcaaaatcc cctcaaatat tctaattatt ctttttgaaa ttcataacct taacaaccaa
     2101 ataaatagca tttattccca tcaaaataac atacggaatt aatatatata aattttccaa
     2161 atgagatata aaaattaatc caagtaaaaa gaaaacattt aaaatagttg ctataacgta
     2221 accttcatct aacactgtgt ttttattcaa aataaacact ccttttttaa aaaactttat
     2281 cacaagactt actcaaatta taaatacctt tattttgagt tttaaggggg tattttaaag
     2341 gtttaggggg gtatcatata ggtttttaac ttaaaaatat atacaagctc ttaaaacgca
     2401 aatatgagcc aaataaatat atggtaattt cacaaacaaa aatttcagca aaaccagtga
     2461 ctaatttttt aacactgccc atttacatgc aaattaaaaa ttagcataaa atcctttaaa
     2521 acttccacat gtttttctaa attcctgcag ggcgtttttt atcaaaaatc gagaattttt
     2581 aatttttctc taaaaactcc gtaagagcat aaggagaatt tgctatcatt caaaaatgat
     2641 aggtctggca aagccagaca ttccaggggt tttaaggtat tttaaagtga tatcatacaa
     2701 agctgtactg tcttattttt gtgacacaat atattgcgtt tgtcttattt ttgtgacact
     2761 acatacagca tttgtcacaa aaataagaca gtactttttt ataaaaaatc aacaaaaaag
     2821 acattagtca acactaatgt cttaaataat aattttgctt ttcgaaattc caaattgcgg
     2881 taattgaatg tgctttttct tcttcgtctg ttgttttatc ttcatcactt gcattaatca
     2941 aattaccatc ttcgacatcg tctaagttta aaattttatg tttttgttta agcaatccac
     3001 cataacttaa catacgtttt cgatacaaac ctttttctaa atcacttaca atttcttgat
     3061 ttttttcatc atcatcagtt aaaaaatcag atgatttaac cgaatatttt gaggtctctt
     3121 tgattgccga
//
