LOCUS       NZ_CP094730             4439 bp    DNA     circular CON 20-OCT-2023
DEFINITION  Staphylococcus epidermidis strain IVB6210 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP094730
VERSION     NZ_CP094730.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26923361
            Assembly: GCF_025558685.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4439)
  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  JOURNAL   Unpublished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 4439)
  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                   :: 958x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/20/2023 05:20:56
            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)                     :: 2,381
            CDSs (total)                      :: 2,297
            Genes (coding)                    :: 2,246
            CDSs (with protein)               :: 2,246
            Genes (RNA)                       :: 84
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 51
            CDSs (without protein)            :: 51
            Pseudo Genes (ambiguous residues) :: 0 of 51
            Pseudo Genes (frameshifted)       :: 31 of 51
            Pseudo Genes (incomplete)         :: 27 of 51
            Pseudo Genes (internal stop)      :: 25 of 51
            Pseudo Genes (multiple problems)  :: 23 of 51
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP094730.1.
            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..4439
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="IVB6210"
                     /isolation_source="milk"
                     /host="Cattle"
                     /db_xref="taxon:1282"
                     /plasmid="unnamed"
                     /collection_date="2013"
                     /collected_by="Joerg Jores, Anne Liljander, Mario Younan,
                     Jan Felix Drexler, Victor Max Corman, Ilona Glucks"
     gene            join(3969..4439,1..474)
                     /locus_tag="MUA58_RS11900"
                     /old_locus_tag="MUA58_11900"
     CDS             join(3969..4439,1..474)
                     /locus_tag="MUA58_RS11900"
                     /old_locus_tag="MUA58_11900"
                     /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            636..2015
                     /gene="tet(K)"
                     /locus_tag="MUA58_RS11905"
                     /old_locus_tag="MUA58_11905"
     ARG             637..2012
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="tetracycline efflux MFS transporter Tet(K)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2201..3442
                     /gene="mobV"
                     /locus_tag="MUA58_RS11910"
                     /old_locus_tag="MUA58_11910"
     CDS             2201..3442
                     /gene="mobV"
                     /locus_tag="MUA58_RS11910"
                     /old_locus_tag="MUA58_11910"
                     /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"
     Typing          3..473
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.771"
                     /coverage="93.0"
                     /evalue="3.1000000000000004e-162"
     Typing          3970..4439
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2202..3439
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tctgataaag cagttaagaa aactattttt tatggtcgta atggtaagcc agaaacaaaa
       61 tattttggcg tgagagatag taatagattt attagaattt ataataaaaa gcaagaacgt
      121 aaagataatg cagatgctga agttatgtct gaacatttat ggcgtgtaga aatcgaactt
      181 aaaagagata tggtggatta ctggaatgat tgctttagtg atttacatat cttgcaacca
      241 gattggaaaa ctatccaacg cactgcggat agagcaatag tttttatgtt attgagtgat
      301 gaagaagaat ggggaaagct tcacagaaat tctagaacaa aatataagaa tttgataaaa
      361 gaaatttcgc cagtcgattt aacggactta atgaaatcga ctttaaaagc gaacgaaaaa
      421 caattgcaaa aacaaatcga tttttggcaa catgaattta aattttggaa atagtgtaca
      481 tattaatatt actgaacaaa aatgatatat ttaaactatt ctaatttagg aggatttttt
      541 tatgaagtgt ctatttaaaa atttggggaa tttatatgag gtgaaagaat aatttacccc
      601 tataaacttt agtcacctca agtaaagagg taaaattgtt tagtttatat aaaaaattta
      661 aaggtttgtt ttatagcgtt ttattttggc tttgtattct ttcatttttt agtgtattaa
      721 atgaaatggt tttaaatgtt tctttacctg atattgcaaa tcattttaat actactcctg
      781 gaattacaaa ctgggtaaac actgcatata tgttaacttt ttcgatagga acagcagtat
      841 atggaaaatt atctgattat ataaatataa aaaaattgtt aattattggt attagtttga
      901 gctgtcttgg ttcattgatt gcttttattg gtcacaatca cttttttatt ttgatttttg
      961 gtaggttagt acaaggagta ggatctgctg cattcccttc actgattatg gtggttgtag
     1021 ctagaaatat tacaagaaaa aaacaaggca aagcctttgg ttttatagga tcaattgtag
     1081 ctttaggtga agggttaggt ccttcaatag ggggaataat agcacattat attcattggt
     1141 cttacctact tatacttcct atgattacaa tagtaactat accttttctt attaaagtaa
     1201 tggtacctgg taaatcaaca aaaaatacat tagatatcgt aggtattgtt ttaatgtcta
     1261 taagtattat atgttttatg ttatttacga caaattataa ttggactttt ttaatactct
     1321 tcacaatctt ttttgtgatt tttattaaac atatttcaag agtttctaac ccttttatta
     1381 atcctaaact agggaaaaac attccgttta tgcttggttt gttttctggt gggctaatat
     1441 tttctatagt agctggtttt atatcaatgg tgccttatat gatgaaaact atttatcatg
     1501 taaatgtagc gacaataggt aatagtgtta tttttcctgg aaccatgagt gttattgttt
     1561 ttggttattt tggtggtttt ttagtggata gaaaaggatc attatttgtt tttattttag
     1621 gatcattgtc tatctctata agttttttaa ctattgcatt ttttgttgag tttagtatgt
     1681 ggttgactac ttttatgttt atatttgtta tgggcggatt atcttttact aaaacagtta
     1741 tatcaaaaat agtatcaagt agtctttctg aagaagaagt tgcttctgga atgagtttgc
     1801 taaatttcac aagtttttta tcagagggaa caggtatagc aattgtagga ggtttattgt
     1861 cactacaatt gattaatcgt aaactagttc tggaatttat aaattattct tctggagtgt
     1921 atagtaatat tcttgtagcc atggctatcc ttattatttt atgttgtctt ttgacgatta
     1981 ttgtatttaa acgttctgaa aagcagtttg aatagttata ttatattttg gtttagaact
     2041 atgagtggct agcattttgc cactcatttt ttgcgttagc aaaaacaggt ttaagcctcg
     2101 cagagcacac gtattaacga cttattaaaa ataagtctag tgtgttagac ttaaactatt
     2161 aaatacacat gaaacctttg tgcttaggag tgatttttat atgtcttatt ccattgttag
     2221 agtttcaaaa gttaaatctg gaacaaatac aacgggcata caaaaacatg ttcaaagaga
     2281 aaataataat tatgaaaatg aagatataga ccatagtaaa acttacttaa attatgattt
     2341 ggtaaatgct aataaacaga attttaataa cttgattgat gaaaaaatcg aacagaatta
     2401 tacaggcaaa agaaaaatta gaacagacgc gattaaacac attgatggtt taattacatc
     2461 agacaatgat ttctttgata atcaaacgcc agaagataca aagcagtttt ttgaatatgc
     2521 taaagagttt ttagaacaag aatacggtaa agataattta ttatatgcaa cagttcacat
     2581 ggacgaaaaa acaccacata tgcattatgg cgttgttcca ataactgatg atggtcgttt
     2641 aagtgctaaa gaagttgtag gtaataaaaa agctttaaca gcgtttcaag atagatttaa
     2701 tgagcatgtt aaacaacgag gatatgattt agaacgtggg caatcaagac aagtaacaaa
     2761 tgctaaacat gagcaaataa gtcagtataa acaaaaaaca gaatatcata agcaagaata
     2821 tgaacgtgag agccaaaaaa cagaccatat aaagcaaaag aacgataaat taatgcaaga
     2881 gtaccaaaaa tcgttaaata cgcttaaaaa gcctataaat gttccgtatg agcaagaaac
     2941 tgaaaaagta ggtggtttat ttagcaaaga aatacaagaa actggaaatg ttgtaataag
     3001 ccaaaaagat ttcaatgaat ttcagaaaca gataaaagct gctcaagata tttcggaaga
     3061 ttacgagtat ataaagtctg gtagagcctt agatgataaa gataaggaaa tacgagagaa
     3121 agatgattta ttaaataaag cagttgagcg tattgaaaac gcagacgata attttaacca
     3181 actttacgaa aatgcaaagc cacttaaaga gaatatagaa atagcgttaa agcttttaaa
     3241 aatcttacta aaagagttag aacgagtttt aggaagaaat acctttgcgg aaagagttaa
     3301 taagttaaca gaagatgaac caaaactaaa tggtttagca ggaaacttag ataaaaaaat
     3361 gaatccagaa ttatattcag aacaggaaca gcaacaagaa caacaaaaga atcaaaaacg
     3421 agatagaggt atgcacttat agaacatgca tttatgccga gaaaacttat tggttggaat
     3481 gggctatgtg ttagctaact tgttagcgag ttggttggac ttgaattggg attaatccca
     3541 agaaagtacc aactcaacaa cacataaagc cctgtaggtt ccgaccaata aggaaattgg
     3601 aataaagcaa taaaaggagt tgaagaaatg aaattcagag aagcctttga gaattttata
     3661 acaagtaagt atgtacttgg tgttttagta gttttaactg tttaccagat aatacaaatg
     3721 cttaaataaa aaaagacttg atctgattag accaagtctt ttgatagtgt tatattaata
     3781 acaaaataaa aaggagtcgc tcacgccctg accaaagttt gtgaacgaca tcattcaaag
     3841 aaaaaaacac tgagttgttt ttataatctt gtatatttag atattaaacg atatttaaat
     3901 atacatcaag atatatattt gggtgagcga ttccttaaac gaaattgaga ttaaggagtc
     3961 gattttttat gtataaaaac aatcatgcaa atcattcaaa tcatttggaa aatcacgatt
     4021 tagacaattt ttctaaaacc ggctactcta atagccggtt ggacgcacat actgtgtgca
     4081 tatctgatcc aaaattaagt tttgatgcaa tgacgatcgt tggaaatctc aaccgagaca
     4141 acgctcaagc cctttctaaa tttatgagtg tagagcccca aataagactt tgggatattc
     4201 ttcaaacaaa gtttaaagct aaagcacttc aagaaaaagt ttatattgaa tatgacaaag
     4261 tgaaagcaga tagttgggat agacgtaata tgcgtattga atttaatcca aacaaactta
     4321 cacgagatga aatgatttgg ttaaaacaaa atataataag ctacatggaa gatgacggtt
     4381 ttacaagatt agatttagcc tttgattttg aagatgattt gagtgactac tatgcaatg
//
