LOCUS       NZ_CP094735             4565 bp    DNA     circular CON 20-OCT-2023
DEFINITION  Staphylococcus delphini strain IVB6245 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP094735
VERSION     NZ_CP094735.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26923358
            Assembly: GCF_025558745.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus delphini
  ORGANISM  Staphylococcus delphini
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus; Staphylococcus intermedius group.
REFERENCE   1  (bases 1 to 4565)
  AUTHORS   Akarsu,H., Liljander,A., Younan,M., Brodard,I., Glucks,I.,
            Labroussaa,F., Overesch,G., Kuhnert,P., Perreten,V., Drexler,J.F.,
            Corman,V.M., Falquet,L. and Jores,J.
  TITLE     Comparative Genomics of East African Camel-Associated
            Staphylococcaceae spp.: Diversity and Inheritance of Traits Involved
            in Host-Pathogen Interactions
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4565)
  AUTHORS   Akarsu,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-MAR-2022) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 346x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/20/2023 05:11:02
            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)                     :: 2,562
            CDSs (total)                      :: 2,480
            Genes (coding)                    :: 2,450
            CDSs (with protein)               :: 2,450
            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)              :: 30
            CDSs (without protein)            :: 30
            Pseudo Genes (ambiguous residues) :: 0 of 30
            Pseudo Genes (frameshifted)       :: 12 of 30
            Pseudo Genes (incomplete)         :: 14 of 30
            Pseudo Genes (internal stop)      :: 10 of 30
            Pseudo Genes (multiple problems)  :: 5 of 30
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP094735.1.
            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..4565
                     /organism="Staphylococcus delphini"
                     /mol_type="genomic DNA"
                     /strain="IVB6245"
                     /isolation_source="Eye swab"
                     /host="Camel"
                     /db_xref="taxon:53344"
                     /plasmid="unnamed"
                     /geo_loc_name="Kenya"
                     /collection_date="2014"
                     /collected_by="Joerg Jores, Anne Liljander, Mario Younan,
                     Jan Felix Drexler, Victor Max Corman, Ilona Glucks"
     gene            46..579
                     /locus_tag="MUA22_RS12810"
                     /old_locus_tag="MUA22_12795"
     CDS             46..579
                     /locus_tag="MUA22_RS12810"
                     /old_locus_tag="MUA22_12795"
                     /inference="COORDINATES: protein motif:HMM:NF019310.3"
                     /GO_function="GO:0022857 - transmembrane transporter
                     activity [Evidence IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MFS transporter"
                     /protein_id="WP_237641033.1"
                     /translation="MKTIYHVNVATIGNSVIFPGTMSVIVFGYFGGFLVDRKGSLFVFI
                     LGSLSISISFLTIAFFVEFSMWLTTFMFIFVMGGLSFTKTVISKIVSSSLSEEEVASGM
                     SLLNFTSFLSEGTGIAIVGGLLSLQLINRKLVLEFINYSSGVYSNILVAMAILIILCCL
                     LTIIVFKRSEKQFE"
                     /name="MFS transporter"
     gene            765..2006
                     /gene="mobV"
                     /locus_tag="MUA22_RS12815"
                     /old_locus_tag="MUA22_12800"
     CDS             765..2006
                     /gene="mobV"
                     /locus_tag="MUA22_RS12815"
                     /old_locus_tag="MUA22_12800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010889940.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000122374.1"
                     /translation="MSYSIVRVSKVKSGTNTTGIQKHVQRENNNYENEDIDHSKTYLNY
                     DLVNANKQNFNNLIDEKIEQNYTGKRKIRTDAIKHIDGLITSDNDFFDNQTPEDTKQFF
                     EYAKEFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITDDGRLSAKEVVGNKKALTAFQ
                     DRFNEHVKQRGYDLERGQSRQVTNAKHEQISQYKQKTEYHKQEYERESQKTDHIKQKND
                     KLMQEYQKSLNTLKKPINVPYEQETEKVGGLFSKEIQETGNVVISQKDFNEFQKQIKAA
                     QDISEDYEYIKSGRALDDKDKEIREKDDLLNKAVERIENADDNFNQLYENAKPLKENIE
                     IALKLLKILLKELERVLGRNTFAERVNKLTEDEPKLNGLAGNLDKKMNPELYSEQEQQQ
                     EQQKNQKRDRGMHL"
                     /name="mobV"
     gene            2533..3477
                     /locus_tag="MUA22_RS12820"
                     /old_locus_tag="MUA22_12805"
     CDS             2533..3477
                     /locus_tag="MUA22_RS12820"
                     /old_locus_tag="MUA22_12805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000277654.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_000277654.1"
                     /translation="MYKNNHANHSNHLENHDLDNFSKTGYSNSRLDAHTVCISDPKLSF
                     DAMTIVGNLNRDNAQALSKFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADSWD
                     RRNMRIEFNPNKLTRDEMIWLKQNIISYMEDDGFTRLDLAFDFEDDLSDYYAMSDKAVK
                     KTIFYGRNGKPETKYFGVRDSNRFIRIYNKKQERKDNADAEVMSEHLWRVEIELKRDMV
                     DYWNDCFSDLHILQPDWKTIQRTADRAIVFMLLSDEEEWGKLHRNSRTKYKNLIKEISP
                     VDLTDLMKSTLKANEKQLQKQIDFWQHEFKFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            3639..>4565
                     /locus_tag="MUA22_RS12825"
                     /old_locus_tag="MUA22_12810"
                     /pseudo=""
     CDS             3639..>4565
                     /locus_tag="MUA22_RS12825"
                     /old_locus_tag="MUA22_12810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000492283.1"
                     /GO_function="GO:0022857 - transmembrane transporter
                     activity [Evidence IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /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="MFS transporter"
                     /name="MFS transporter"
     ARG             3640..4565
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="major facilitator superfamily (MFS) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="tetracycline antibiotic"
                     /identity="100.0"
                     /coverage="67.32"
     ARG             2..579
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="major facilitator superfamily (MFS) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="tetracycline antibiotic"
                     /identity="100.0"
                     /coverage="41.83"
     Typing          2534..3477
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          766..2003
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caattttcta tagtagctgg ttttatatca atggtgcctt atatgatgaa aactatttat
       61 catgtaaatg tagcgacaat aggtaatagt gttatttttc ctggaaccat gagtgttatt
      121 gtttttggtt attttggtgg ttttttagtg gatagaaaag gatcattatt tgtttttatt
      181 ttaggatcat tgtctatctc tataagtttt ttaactattg cattttttgt tgagtttagt
      241 atgtggttga ctacttttat gtttatattt gttatgggcg gattatcttt tactaaaaca
      301 gttatatcaa aaatagtatc aagtagtctt tctgaagaag aagttgcttc tggaatgagt
      361 ttgctaaatt tcacaagttt tttatcagag ggaacaggta tagcaattgt aggaggttta
      421 ttgtcactac aattgattaa tcgtaaacta gttctggaat ttataaatta ttcttctgga
      481 gtgtatagta atattcttgt agccatggct atccttatta ttttatgttg tcttttgacg
      541 attattgtat ttaaacgttc tgaaaagcag tttgaatagt tatattatat tttggtttag
      601 aactatgagt ggctagcatt ttgccactca ttttttgcgt tagcaaaaac aggtttaagc
      661 ctcgcagagc acacgtatta acgacttatt aaaaataagt ctagtgtgtt agacttaaac
      721 tattaaatac acatgaaacc tttgtgctta ggagtgattt ttatatgtct tattccattg
      781 ttagagtttc aaaagttaaa tctggaacaa atacaacggg catacaaaaa catgttcaaa
      841 gagaaaataa taattatgaa aatgaagata tagaccatag taaaacttac ttaaattatg
      901 atttggtaaa tgctaataaa cagaatttta ataacttgat tgatgaaaaa atcgaacaga
      961 attatacagg caaaagaaaa attagaacag acgcgattaa acacattgat ggtttaatta
     1021 catcagacaa tgatttcttt gataatcaaa cgccagaaga tacaaagcag ttttttgaat
     1081 atgctaaaga gtttttagaa caagaatacg gtaaagataa tttattatat gcaacagttc
     1141 acatggacga aaaaacacca catatgcatt atggcgttgt tccaataact gatgatggtc
     1201 gtttaagtgc taaagaagtt gtaggtaata aaaaagcttt aacagcgttt caagatagat
     1261 ttaatgagca tgttaaacaa cgaggatatg atttagaacg tgggcaatca agacaagtaa
     1321 caaatgctaa acatgagcaa ataagtcagt ataaacaaaa aacagaatat cataagcaag
     1381 aatatgaacg tgagagccaa aaaacagacc atataaagca aaagaacgat aaattaatgc
     1441 aagagtacca aaaatcgtta aatacgctta aaaagcctat aaatgttccg tatgagcaag
     1501 aaactgaaaa agtaggtggt ttatttagca aagaaataca agaaactgga aatgttgtaa
     1561 taagccaaaa agatttcaat gaatttcaga aacagataaa agctgctcaa gatatttcgg
     1621 aagattacga gtatataaag tctggtagag ccttagatga taaagataag gaaatacgag
     1681 agaaagatga tttattaaat aaagcagttg agcgtattga aaacgcagac gataatttta
     1741 accaacttta cgaaaatgca aagccactta aagagaatat agaaatagcg ttaaagcttt
     1801 taaaaatctt actaaaagag ttagaacgag ttttaggaag aaataccttt gcggaaagag
     1861 ttaataagtt aacagaagat gaaccaaaac taaatggttt agcaggaaac ttagataaaa
     1921 aaatgaatcc agaattatat tcagaacagg aacagcaaca agaacaacaa aagaatcaaa
     1981 aacgagatag aggtatgcac ttatagaaca tgcatttatg ccgagaaaac ttattggttg
     2041 gaatgggcta tgtgttagct aacttgttag cgagttggtt ggacttgaat tgggattaat
     2101 cccaagaaag taccaactca acaacacata aagccctgta ggttccgacc aataaggaaa
     2161 ttggaataaa gcaataaaag gagttgaaga aatgaaattc agagaagcct ttgagaattt
     2221 tataacaagt aagtatgtac ttggtgtttt agtagtttta actgtttacc agataataca
     2281 aatgcttaaa taaaaaaaga cttgatctga ttagaccaag tcttttgata gtgttatatt
     2341 aataacaaaa taaaaaggag tcgctcacgc cctgaccaaa gtttgtgaac gacatcattc
     2401 aaagaaaaaa acactgagtt gtttttataa tcttgtatat ttagatatta aacgatattt
     2461 aaatatacat caagatatat atttgggtga gcgattcctt aaacgaaatt gagattaagg
     2521 agtcgatttt ttatgtataa aaacaatcat gcaaatcatt caaatcattt ggaaaatcac
     2581 gatttagaca atttttctaa aaccggctac tctaatagcc ggttggacgc acatactgtg
     2641 tgcatatctg atccaaaatt aagttttgat gcaatgacga tcgttggaaa tctcaaccga
     2701 gacaacgctc aagccctttc taaatttatg agtgtagagc cccaaataag actttgggat
     2761 attcttcaaa caaagtttaa agctaaagca cttcaagaaa aagtttatat tgaatatgac
     2821 aaagtgaaag cagatagttg ggatagacgt aatatgcgta ttgaatttaa tccaaacaaa
     2881 cttacacgag atgaaatgat ttggttaaaa caaaatataa taagctacat ggaagatgac
     2941 ggttttacaa gattagattt agcctttgat tttgaagatg atttgagtga ctactatgca
     3001 atgtctgata aagcagttaa gaaaactatt ttttatggtc gtaatggtaa gccagaaaca
     3061 aaatattttg gcgtgagaga tagtaataga tttattagaa tttataataa aaagcaagaa
     3121 cgtaaagata atgcagatgc tgaagttatg tctgaacatt tatggcgtgt agaaatcgaa
     3181 cttaaaagag atatggtgga ttactggaat gattgcttta gtgatttaca tatcttgcaa
     3241 ccagattgga aaactatcca acgcactgcg gatagagcaa tagtttttat gttattgagt
     3301 gatgaagaag aatggggaaa gcttcacaga aattctagaa caaaatataa gaatttgata
     3361 aaagaaattt cgccagtcga tttaacggac ttaatgaaat cgactttaaa agcgaacgaa
     3421 aaacaattgc aaaaacaaat cgatttttgg caacatgaat ttaaattttg gaaatagtgt
     3481 acatattaat attactgaac aaaaatgata tatttaaact attctaattt aggaggattt
     3541 ttttatgaag tgtctattta aaaatttggg gaatttatat gaggtgaaag aataatttac
     3601 ccctataaac tttagtcacc tcaagtaaag aggtaaaatt gtttagttta tataaaaaat
     3661 ttaaaggttt gttttatagc gttttatttt ggctttgtat tctttcattt tttagtgtat
     3721 taaatgaaat ggttttaaat gtttctttac ctgatattgc aaatcatttt aatactactc
     3781 ctggaattac aaactgggta aacactgcat atatgttaac tttttcgata ggaacagcag
     3841 tatatggaaa attatctgat tatataaata taaaaaaatt gttaattatt ggtattagtt
     3901 tgagctgtct tggttcattg attgctttta ttggtcacaa tcactttttt attttgattt
     3961 ttggtaggtt agtacaagga gtaggatctg ctgcattccc ttcactgatt atggtggttg
     4021 tagctagaaa tattacaaga aaaaaacaag gcaaagcctt tggttttata ggatcaattg
     4081 tagctttagg tgaagggtta ggtccttcaa tagggggaat aatagcacat tatattcatt
     4141 ggtcttacct acttatactt cctatgatta caatagtaac tatacctttt cttattaaag
     4201 taatggtacc tggtaaatca acaaaaaata cattagatat cgtaggtatt gttttaatgt
     4261 ctataagtat tatatgtttt atgttattta cgacaaatta taattggact tttttaatac
     4321 tcttcacaat cttttttgtg atttttatta aacatatttc aagagtttct aaccctttta
     4381 ttaatcctaa actagggaaa aacattccgt ttatgcttgg tttgttttct ggtgggctaa
     4441 tattttctat agtagctggt tttatatcaa tggtgcctta tatgatgaaa actatttatc
     4501 atgtaaatgt agcgacaata ggtaatagtg ttatttttcc tggaaccatg agtgttattg
     4561 ttttt
//
