LOCUS       NZ_CP073826             6455 bp    DNA     circular CON 16-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1200599 plasmid p2B1200599,
            complete sequence.
ACCESSION   NZ_CP073826
VERSION     NZ_CP073826.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699872
            Assembly: GCF_019329245.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 6455)
  AUTHORS   Papan,C., Schroder,M., Hoffmann,M., Knoll,H., Last,K., Albrecht,F.,
            Geisel,J., Fink,T., Gartner,B.C., Mellmann,A., Volk,T., Berger,F.K.
            and Becker,S.L.
  TITLE     Combined antibiotic stewardship and infection control measures to
            contain the spread of linezolid-resistant Staphylococcus epidermidis
            in an intensive care unit
  JOURNAL   Antimicrob Resist Infect Control 10 (1), 99 (2021)
   PUBMED   34193293
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 6455)
  AUTHORS   Mellmann,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-APR-2021) Inst. Hygiene, University Hospital Muenster,
            Robert-Koch-Str. 41, Muenster 48149, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. SMRT Link V8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 357x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329245.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 08:02:33
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,685
            CDSs (total)                      :: 2,604
            Genes (coding)                    :: 2,525
            CDSs (with protein)               :: 2,525
            Genes (RNA)                       :: 81
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 79
            CDSs (without protein)            :: 79
            Pseudo Genes (ambiguous residues) :: 0 of 79
            Pseudo Genes (frameshifted)       :: 40 of 79
            Pseudo Genes (incomplete)         :: 44 of 79
            Pseudo Genes (internal stop)      :: 28 of 79
            Pseudo Genes (multiple problems)  :: 24 of 79
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073826.1.
            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..6455
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="B1200599"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1200599"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            29..259
                     /locus_tag="KFV28_RS13275"
                     /old_locus_tag="KFV28_13285"
     CDS             29..259
                     /locus_tag="KFV28_RS13275"
                     /old_locus_tag="KFV28_13285"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            383..1876
                     /locus_tag="KFV28_RS13280"
                     /old_locus_tag="KFV28_13290"
     CDS             383..1876
                     /locus_tag="KFV28_RS13280"
                     /old_locus_tag="KFV28_13290"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
     gene            complement(2112..2702)
                     /locus_tag="KFV28_RS13285"
                     /old_locus_tag="KFV28_13295"
     CDS             complement(2112..2702)
                     /locus_tag="KFV28_RS13285"
                     /old_locus_tag="KFV28_13295"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            3081..3566
                     /locus_tag="KFV28_RS13290"
                     /old_locus_tag="KFV28_13300"
     CDS             3081..3566
                     /locus_tag="KFV28_RS13290"
                     /old_locus_tag="KFV28_13300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002416577.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_080464618.1"
                     /translation="MEKLKRGAKPKVDYWLTSEGLTLLQGWARKGLSNKQIAQNMGIHQ
                     ATFYKWQNKYSEIYDTIKKGKEVVDYEVENTLLKCALGFEYEETKVNSDGTTIKYIKHV
                     KPNVTAIIFWLKNRKPNEWLEGYQDDSNINYNIDFSDVSTEDLRNCINENGGTYNEN"
                     /name="helix-turn-helix domain-containing protein"
     gene            3556..3726
                     /locus_tag="KFV28_RS13295"
                     /old_locus_tag="KFV28_13305"
     CDS             3556..3726
                     /locus_tag="KFV28_RS13295"
                     /old_locus_tag="KFV28_13305"
                     /inference="COORDINATES: protein motif:HMM:NF024139.4"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_166738018.1"
                     /translation="MRIETYTVNEVAQLLDMNIRTVRKYIKIGEIKASKIGRKYIITSD
                     NVKKFLENKEL"
                     /name="helix-turn-helix domain-containing protein"
     gene            3741..4430
                     /locus_tag="KFV28_RS13300"
                     /old_locus_tag="KFV28_13310"
     CDS             3741..4430
                     /locus_tag="KFV28_RS13300"
                     /old_locus_tag="KFV28_13310"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            4627..5244
                     /locus_tag="KFV28_RS13305"
                     /old_locus_tag="KFV28_13315"
     CDS             4627..5244
                     /locus_tag="KFV28_RS13305"
                     /old_locus_tag="KFV28_13315"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            5561..6205
                     /locus_tag="KFV28_RS13310"
                     /old_locus_tag="KFV28_13320"
     CDS             5561..6205
                     /locus_tag="KFV28_RS13310"
                     /old_locus_tag="KFV28_13320"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
ORIGIN
        1 catattatgt ttaaggaggt gtagaacaat gccaacagca acaaaagaac ataaagaagt
       61 aatggcagag cgtaatattg aaattcgtga tagattatta aagttttggc gtgagaatta
      121 tgagcctaag tttaaactta tttcttcaga gatagacgta agttatacca atatgcgtcg
      181 ttacgtcaac aaacatcata atttcggtaa aaaaaactta gataagcttg agaaattctt
      241 aattaaacaa ggttattaga agcattcaga taatatattt agcacagtta tataaaaata
      301 ttatgcttat gtacaaaaga taacactatg tactatgtat tgatatctat cttattatta
      361 tatttttaca aaggagtata ttatggcaca agataattat tattcacttg tgcaggctct
      421 taagaagtat tttgtcagta gtaaacagaa acatattgaa caacgagaag atggctctta
      481 tagacatata cctaatggtt tatgtgataa tgatttagtt agtcatatta aagggattaa
      541 aaccgtaggt atatttagtg gagaagtatt tactaagttt ttatgttttg atgtagatac
      601 aggtaaatct aataaagcac aggctcgtaa tgatgtgtta aacctaagac tatctttaat
      661 aactgatttt ggactatctg ataacaacct tgaagtagtt gatagtggga ataaaggtta
      721 tcatgtttat ttattttttg acgatcttat acatgttagt tatttaaaag cattttatcg
      781 tgaagttttg gaaagaaata actataaacc ttctgatatt gaatttagac ctacacatac
      841 acaaggtgtt aaattacctt taggtattca tagagtgaca ggaaagcaat gttattttgt
      901 tgatccttct acacctaaat tcaaaagaaa acctttagaa actattcata atattaaaca
      961 gataaataca aaattattta aagagaagtt acaacttaag gacttgtacg agttacaaat
     1021 tgaagattat acatatgagc tatgtaagtt tatgaaagaa gatgaggcta agttactcaa
     1081 tggcgtatta aattcattag attttagtac ctatgaagtt actcatgcta aagaaaacat
     1141 tattgaaatg ttagagacta atactcttgt ttatcctgat agtagaaaca aatatacatt
     1201 gttgattgct atatatttaa agggtcaagg ttatgatgtt gaagatacga tagcaaaaat
     1261 caatgaaatt atgttttata gtaaaagaca gcataaagat ttaatacaat catctgagaa
     1321 acatattatg aatgaaacaa aaaaaattgc taaatatgta tatagaacta atatcacgtt
     1381 aggtggtata aatagagatg tttatttata tgctgatgaa cttaaagatg tattagcttt
     1441 gagaaagaca catttaatga aactctatac atcaatgttg atacatgcta aaaggcatca
     1501 accattaggc gaaaaaacgt tctatatggc ctactcagtt atgattaatt acggtaacaa
     1561 tagcaataga agtaagctaa agcgatacct tgaggaacta caacagctaa atagaattag
     1621 cattgaagaa aaccatgtaa ttgatccagt tatgagtgag ataaaaggtc acttatttag
     1681 taaaaccaac gtttatagca taaaaaaaag ctttaaccaa aactcccatc acaaagtttt
     1741 aattaaagca gacgaaaaaa ccgtcagtac tactgatata cttataagag cttatcagaa
     1801 taatgttata aactatgaat atattaaaga caatcttact agacgacagt ttgagaaatt
     1861 caaacaagct ctttagtgag tttgtctttt tttaattgaa tttacaattt aaagtataaa
     1921 tgaaagaaca tatacatgca ataataaaag catagcagta acttatcttt tttatttatc
     1981 ttcaattcaa attataacat aatttagaga gccatattca gcaattatat agttttagtt
     2041 ataaaaacca ttcataaaat ttaaatgctc tatatagctc tttaaatgcc tttatattta
     2101 attccacttt attagcgttc ttttttccat tttcttaatt cccacaagct tttacttttt
     2161 agcttattca tttcttcatg aagtctttta ttttcttctt ttaacttctt attttcatca
     2221 agcaaagcat tatatttatc atttaacgtt tggtaatcag ctttaatata ttttatttca
     2281 cttgattgtg cttggctatt tttaatagtt ttacttaatt cattgtactg ttttactaat
     2341 tctgttttta gattattact aacttcattg atcatattag tttgtaatgc ttctaattca
     2401 tcagagactt ttctattttt ctttgtagtt tgtggcatag cgtcagcaat ttcttgccct
     2461 tgttcatatt taacaatcgt atagtgtagt gattgtttca ttgttcctcc aacaagttta
     2521 aaacgttcca ttgcctcata aataatttgc aaatcgtatt tagtgaaacg acgtgcattt
     2581 tctactgttt taaattcata gcctaagctc tccatagttt tagcatataa acgcatagat
     2641 gacacagata tgtttaaaaa ttgacttgca tttttagtgc ttaattcatt tggttgttgc
     2701 atatttttta cacctaaagc ctttcattta ggcatttata ggtaaaaggc gacaataata
     2761 atattaagcc tttaatgcct taatgatggg tattaacgct acctataacg ccatattatt
     2821 ctcttattaa atagctatat tcctaattaa aataatagca tgaatatgtg ctgatacaca
     2881 cgcgaaacct cacttattgt ggtataatag atacagataa agccttgata taaagctgtt
     2941 tataaggttt tttctattaa tggaaaagtg aagaaaataa agaaaaacga gaaaagatat
     3001 attgaattaa atattaaatt agccataagg ggcaaagaaa caataaaccc ctataaaatt
     3061 cacttataag gaggtaactt atggaaaaat taaaaagagg tgcaaagcct aaagtagatt
     3121 attggcttac ctctgaaggg ctgacgttat tacaaggttg ggcaagaaaa ggattaagca
     3181 ataaacaaat tgctcaaaat atgggcattc atcaagctac attttataaa tggcaaaata
     3241 aatatagcga aatttacgac actataaaaa aaggaaaaga agtcgtggat tatgaagtgg
     3301 aaaatacact tttaaaatgt gcattaggtt ttgagtatga agaaacaaaa gtaaatagtg
     3361 atggtactac gataaagtat ataaaacacg ttaaacctaa tgtaacagct ataatatttt
     3421 ggttgaagaa ccgtaagcct aatgaatggt tagaaggtta tcaggacgat agtaatatta
     3481 attataatat tgatttttct gatgtaagca ctgaggattt acgtaactgt atcaatgaaa
     3541 acgggggtac ttataatgag aattgaaaca tatacagtca atgaagtagc ccagttgtta
     3601 gatatgaata ttagaacagt tagaaaatac ataaaaattg gagaaattaa agccagtaaa
     3661 ataggacgaa aatatattat cacttcagat aatgttaaaa agtttcttga aaacaaagaa
     3721 ctataaaagg aggcataaaa atggaaacag tagaaacaat taaaaaagat attgaggaat
     3781 taaataagcg tgctaaaaat actattgata ttgataagaa aaaagactat atacaaggta
     3841 ttgaagatat taaaactaaa tacaaagata agtatacaga tgaagcgtta gcagaaacga
     3901 tcaatacata taaacaagat aaattaaaag gaatttacga tacccttaat aaatttgatg
     3961 agcaatcaaa agaactagga aaaaatattg aagaaagaat attaaaacta gaagaaagtt
     4021 caaaggcaac actagaaccg aaaacacaat atgactttga aagatataat tttttattca
     4081 gcaaaattca aaatgaaatg atgaatttgt ttacagataa aaataataat agagagtggc
     4141 aactagacga gcatataaaa caagctaagc atgattattt atatgctaat gctttattaa
     4201 acaatgaggg cttgctgatt aacaatatac gaaataataa gtacatctca aatgttgaac
     4261 gagacaaact gaaaacttat gtaaaaatga attttgaggc gatcaaaaaa agcaatgttc
     4321 ctaaagagta taaagaaata gaagggttaa agaataaact tagaaataat aaatcagctt
     4381 ctagtaataa aaagatgatg tttgatttta tgattgggaa aattagttaa ataagtgctg
     4441 agataacgat ttctgagcat tgaaaaacat ttaacagggg tattggttta atggttgcaa
     4501 catagagctt acacatttga cccttgtagt aattttttga agttataatt ttttgtattt
     4561 tggatattaa caaacgtgct ttaacagata aatcttaatt aaaaatgtag attagcggag
     4621 gaaaaattga aaaaaaatag aggttctaaa ataacgttgg ttatagtatt tataatgtta
     4681 ggtattttaa tatatttgtc cttttctaat ttaggtagtg aagataatca taaaagtcat
     4741 gagaatagcg ataaaaaaag gactgatgta aaaaagaata aaaaacaaag tagcagtaaa
     4801 gataaaaata aaagtcatga gaataatgat agaagtttaa aaaataataa cgaagacact
     4861 tcaaatagtc acgaatatta cgatgatcca agcttagata aacaagtata tgaagatatt
     4921 aaggaatcta tgacgctact aaatagttta actagtcaag atattaaaga gtataaagtt
     4981 aatactcaaa tatataacca agataaaaaa cctaatgtga tcattaccgt tgatttaaaa
     5041 ggtaaagaag actatagcaa cagtgaacta aaatatcgta cagaacacat atcttcaaac
     5101 tttactggaa gaaatgagat agagggcgga tttaatggat attttgataa attatatatt
     5161 aaatttaaag aagatggaat tgatgtaggt gaagcaaaag tgaaatttaa tgattcgctt
     5221 aatcctgaag ttcaaataaa ataataaata aacaaagaaa tgatatatat tgtataaggt
     5281 atacatttcc actacctata atacataatt atgtaaacta aataacttcc ataaacattg
     5341 tattgacggg atctatagtg ttcgtagtta cttgttcaat atacataaaa tatacaatcg
     5401 cataaccacg ctgtttatcg tgttcggtat acacttataa aattaatatt tatacatttt
     5461 cgggtaccgt catgagtgat tacaaccacc ataaaataat gtgttaaaaa ttgtaaagtt
     5521 ttatataatt gatcttgtga ataaaaaagg aataatgaaa atgaacatga aaacaataaa
     5581 taaaattgta agttggtttt tgtatatcgg tctgccatta gtcgttgtgg gcttatttat
     5641 atggcaattg gataatcttg aaaaattctt taaaaaatat cctaatgcta tagacggggc
     5701 tacattagtg tttgttttaa taacaactac tttgagtatt atcatttcct ataaatcata
     5761 caaatcaaat attaagctat ttaaagataa taaaaatgaa caaagttata agatacaaca
     5821 attgttaaaa acagaaacaa aagattctat acaaaaacta ataggtttca agagtaatta
     5881 taaaaggaca caaataaata tttttgatga aattaaaaag ctagatttag aaaatgaatt
     5941 aaaaaacatg ggaacaaaga taaaagatat tagggaaaag aatatagaaa gtttaatacc
     6001 aagagatttt gaaaagatac aagatgattt agaactaata agcgcgattg aaattcaagt
     6061 tgcttattat aatactttac ttgaattaat tgaaacacaa gaaaatatta gagattcatt
     6121 accagaatca gcaaaagaac aaataaagca acatgaagaa acacttatgt acgaaataga
     6181 caaacttatc gaacgtttta aatagtttta ggattattta atagacaaaa agcatctaac
     6241 cttaattggt caggtgcttt tttgattgca aacattcaag aacatataaa cgagaatgat
     6301 aagatgaata cttttgggcg ttatgtaatc attgatagaa acgacagtat cttatatgta
     6361 tgtttaacaa ataagaacaa agcatttatt ttagagtaat aaaataagta ccacaaaaat
     6421 gttgttttat tattataata aatgtatcat aaaaa
//
