LOCUS       NZ_CP073870             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1279591 plasmid p2B1279591,
            complete sequence.
ACCESSION   NZ_CP073870
VERSION     NZ_CP073870.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699889
            Assembly: GCF_019329765.1
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                   :: 205x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329765.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:59:06
            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)                     :: 2,677
            CDSs (total)                      :: 2,596
            Genes (coding)                    :: 2,515
            CDSs (with protein)               :: 2,515
            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)              :: 81
            CDSs (without protein)            :: 81
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 44 of 81
            Pseudo Genes (incomplete)         :: 43 of 81
            Pseudo Genes (internal stop)      :: 27 of 81
            Pseudo Genes (multiple problems)  :: 24 of 81
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073870.1.
            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="B1279591"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1279591"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6226..6455,1..460))
                     /locus_tag="KFV51_RS13255"
                     /old_locus_tag="KFV51_13295"
     CDS             complement(join(6226..6455,1..460))
                     /locus_tag="KFV51_RS13255"
                     /old_locus_tag="KFV51_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            complement(475..645)
                     /locus_tag="KFV51_RS13260"
                     /old_locus_tag="KFV51_13300"
     CDS             complement(475..645)
                     /locus_tag="KFV51_RS13260"
                     /old_locus_tag="KFV51_13300"
                     /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            complement(635..1120)
                     /locus_tag="KFV51_RS13265"
                     /old_locus_tag="KFV51_13305"
     CDS             complement(635..1120)
                     /locus_tag="KFV51_RS13265"
                     /old_locus_tag="KFV51_13305"
                     /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            1499..2089
                     /locus_tag="KFV51_RS13270"
                     /old_locus_tag="KFV51_13310"
     CDS             1499..2089
                     /locus_tag="KFV51_RS13270"
                     /old_locus_tag="KFV51_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_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            complement(2325..3818)
                     /locus_tag="KFV51_RS13275"
                     /old_locus_tag="KFV51_13315"
     CDS             complement(2325..3818)
                     /locus_tag="KFV51_RS13275"
                     /old_locus_tag="KFV51_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_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
     gene            complement(3942..4172)
                     /locus_tag="KFV51_RS13280"
                     /old_locus_tag="KFV51_13320"
     CDS             complement(3942..4172)
                     /locus_tag="KFV51_RS13280"
                     /old_locus_tag="KFV51_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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            complement(4451..5095)
                     /locus_tag="KFV51_RS13285"
                     /old_locus_tag="KFV51_13325"
     CDS             complement(4451..5095)
                     /locus_tag="KFV51_RS13285"
                     /old_locus_tag="KFV51_13325"
                     /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"
     gene            complement(5412..6029)
                     /locus_tag="KFV51_RS13290"
                     /old_locus_tag="KFV51_13330"
     CDS             complement(5412..6029)
                     /locus_tag="KFV51_RS13290"
                     /old_locus_tag="KFV51_13330"
                     /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"
ORIGIN
        1 ttaataaagc attagcatat aaataatcat gcttagcttg ttttatatgc tcgtctagtt
       61 gccactctct attattattt ttatctgtaa acaaattcat catttcattt tgaattttgc
      121 tgaataaaaa attatatctt tcaaagtcat attgtgtttt cggttctagt gttgcctttg
      181 aactttcttc tagttttaat attctttctt caatattttt tcctagttct tttgattgct
      241 catcaaattt attaagggta tcgtaaattc cttttaattt atcttgttta tatgtattga
      301 tcgtttctgc taacgcttca tctgtatact tatctttgta tttagtttta atatcttcaa
      361 taccttgtat atagtctttt ttcttatcaa tatcaatagt atttttagca cgcttattta
      421 attcctcaat atctttttta attgtttcta ctgtttccat ttttatgcct ccttttatag
      481 ttctttgttt tcaagaaact ttttaacatt atctgaagtg ataatatatt ttcgtcctat
      541 tttactggct ttaatttctc caatttttat gtattttcta actgttctaa tattcatatc
      601 taacaactgg gctacttcat tgactgtata tgtttcaatt ctcattataa gtacccccgt
      661 tttcattgat acagttacgt aaatcctcag tgcttacatc agaaaaatca atattataat
      721 taatattact atcgtcctga taaccttcta accattcatt aggcttacgg ttcttcaacc
      781 aaaatattat agctgttaca ttaggtttaa cgtgttttat atactttatc gtagtaccat
      841 cactatttac ttttgtttct tcatactcaa aacctaatgc acattttaaa agtgtatttt
      901 ccacttcata atccacgact tcttttcctt tttttatagt gtcgtaaatt tcgctatatt
      961 tattttgcca tttataaaat gtagcttgat gaatgcccat attttgagca atttgtttat
     1021 tgcttaatcc ttttcttgcc caaccttgta ataacgtcag cccttcagag gtaagccaat
     1081 aatctacttt aggctttgca cctcttttta atttttccat aagttacctc cttataagtg
     1141 aattttatag gggtttattg tttctttgcc ccttatggct aatttaatat ttaattcaat
     1201 atatcttttc tcgtttttct ttattttctt cacttttcca ttaatagaaa aaaccttata
     1261 aacagcttta tatcaaggct ttatctgtat ctattatacc acaataagtg aggtttcgcg
     1321 tgtgtatcag cacatattca tgctattatt ttaattagga atatagctat ttaataagag
     1381 aataatatgg cgttataggt agcgttaata cccatcatta aggcattaaa ggcttaatat
     1441 tattattgtc gccttttacc tataaatgcc taaatgaaag gctttaggtg taaaaaatat
     1501 gcaacaacca aatgaattaa gcactaaaaa tgcaagtcaa tttttaaaca tatctgtgtc
     1561 atctatgcgt ttatatgcta aaactatgga gagcttaggc tatgaattta aaacagtaga
     1621 aaatgcacgt cgtttcacta aatacgattt gcaaattatt tatgaggcaa tggaacgttt
     1681 taaacttgtt ggaggaacaa tgaaacaatc actacactat acgattgtta aatatgaaca
     1741 agggcaagaa attgctgacg ctatgccaca aactacaaag aaaaatagaa aagtctctga
     1801 tgaattagaa gcattacaaa ctaatatgat caatgaagtt agtaataatc taaaaacaga
     1861 attagtaaaa cagtacaatg aattaagtaa aactattaaa aatagccaag cacaatcaag
     1921 tgaaataaaa tatattaaag ctgattacca aacgttaaat gataaatata atgctttgct
     1981 tgatgaaaat aagaagttaa aagaagaaaa taaaagactt catgaagaaa tgaataagct
     2041 aaaaagtaaa agcttgtggg aattaagaaa atggaaaaaa gaacgctaat aaagtggaat
     2101 taaatataaa ggcatttaaa gagctatata gagcatttaa attttatgaa tggtttttat
     2161 aactaaaact atataattgc tgaatatggc tctctaaatt atgttataat ttgaattgaa
     2221 gataaataaa aaagataagt tactgctatg cttttattat tgcatgtata tgttctttca
     2281 tttatacttt aaattgtaaa ttcaattaaa aaaagacaaa ctcactaaag agcttgtttg
     2341 aatttctcaa actgtcgtct agtaagattg tctttaatat attcatagtt tataacatta
     2401 ttctgataag ctcttataag tatatcagta gtactgacgg ttttttcgtc tgctttaatt
     2461 aaaactttgt gatgggagtt ttggttaaag ctttttttta tgctataaac gttggtttta
     2521 ctaaataagt gaccttttat ctcactcata actggatcaa ttacatggtt ttcttcaatg
     2581 ctaattctat ttagctgttg tagttcctca aggtatcgct ttagcttact tctattgcta
     2641 ttgttaccgt aattaatcat aactgagtag gccatataga acgttttttc gcctaatggt
     2701 tgatgccttt tagcatgtat caacattgat gtatagagtt tcattaaatg tgtctttctc
     2761 aaagctaata catctttaag ttcatcagca tataaataaa catctctatt tataccacct
     2821 aacgtgatat tagttctata tacatattta gcaatttttt ttgtttcatt cataatatgt
     2881 ttctcagatg attgtattaa atctttatgc tgtcttttac tataaaacat aatttcattg
     2941 atttttgcta tcgtatcttc aacatcataa ccttgaccct ttaaatatat agcaatcaac
     3001 aatgtatatt tgtttctact atcaggataa acaagagtat tagtctctaa catttcaata
     3061 atgttttctt tagcatgagt aacttcatag gtactaaaat ctaatgaatt taatacgcca
     3121 ttgagtaact tagcctcatc ttctttcata aacttacata gctcatatgt ataatcttca
     3181 atttgtaact cgtacaagtc cttaagttgt aacttctctt taaataattt tgtatttatc
     3241 tgtttaatat tatgaatagt ttctaaaggt tttcttttga atttaggtgt agaaggatca
     3301 acaaaataac attgctttcc tgtcactcta tgaataccta aaggtaattt aacaccttgt
     3361 gtatgtgtag gtctaaattc aatatcagaa ggtttatagt tatttctttc caaaacttca
     3421 cgataaaatg cttttaaata actaacatgt ataagatcgt caaaaaataa ataaacatga
     3481 taacctttat tcccactatc aactacttca aggttgttat cagatagtcc aaaatcagtt
     3541 attaaagata gtcttaggtt taacacatca ttacgagcct gtgctttatt agatttacct
     3601 gtatctacat caaaacataa aaacttagta aatacttctc cactaaatat acctacggtt
     3661 ttaatccctt taatatgact aactaaatca ttatcacata aaccattagg tatatgtcta
     3721 taagagccat cttctcgttg ttcaatatgt ttctgtttac tactgacaaa atacttctta
     3781 agagcctgca caagtgaata ataattatct tgtgccataa tatactcctt tgtaaaaata
     3841 taataataag atagatatca atacatagta catagtgtta tcttttgtac ataagcataa
     3901 tatttttata taactgtgct aaatatatta tctgaatgct tctaataacc ttgtttaatt
     3961 aagaatttct caagcttatc taagtttttt ttaccgaaat tatgatgttt gttgacgtaa
     4021 cgacgcatat tggtataact tacgtctatc tctgaagaaa taagtttaaa cttaggctca
     4081 taattctcac gccaaaactt taataatcta tcacgaattt caatattacg ctctgccatt
     4141 acttctttat gttcttttgt tgctgttggc attgttctac acctccttaa acataatatg
     4201 tttttatgat acatttatta taataataaa acaacatttt tgtggtactt attttattac
     4261 tctaaaataa atgctttgtt cttatttgtt aaacatacat ataagatact gtcgtttcta
     4321 tcaatgatta cataacgccc aaaagtattc atcttatcat tctcgtttat atgttcttga
     4381 atgtttgcaa tcaaaaaagc acctgaccaa ttaaggttag atgctttttg tctattaaat
     4441 aatcctaaaa ctatttaaaa cgttcgataa gtttgtctat ttcgtacata agtgtttctt
     4501 catgttgctt tatttgttct tttgctgatt ctggtaatga atctctaata ttttcttgtg
     4561 tttcaattaa ttcaagtaaa gtattataat aagcaacttg aatttcaatc gcgcttatta
     4621 gttctaaatc atcttgtatc ttttcaaaat ctcttggtat taaactttct atattctttt
     4681 ccctaatatc ttttatcttt gttcccatgt tttttaattc attttctaaa tctagctttt
     4741 taatttcatc aaaaatattt atttgtgtcc ttttataatt actcttgaaa cctattagtt
     4801 tttgtataga atcttttgtt tctgttttta acaattgttg tatcttataa ctttgttcat
     4861 ttttattatc tttaaatagc ttaatatttg atttgtatga tttataggaa atgataatac
     4921 tcaaagtagt tgttattaaa acaaacacta atgtagcccc gtctatagca ttaggatatt
     4981 ttttaaagaa tttttcaaga ttatccaatt gccatataaa taagcccaca acgactaatg
     5041 gcagaccgat atacaaaaac caacttacaa ttttatttat tgttttcatg ttcattttca
     5101 ttattccttt tttattcaca agatcaatta tataaaactt tacaattttt aacacattat
     5161 tttatggtgg ttgtaatcac tcatgacggt acccgaaaat gtataaatat taattttata
     5221 agtgtatacc gaacacgata aacagcgtgg ttatgcgatt gtatatttta tgtatattga
     5281 acaagtaact acgaacacta tagatcccgt caatacaatg tttatggaag ttatttagtt
     5341 tacataatta tgtattatag gtagtggaaa tgtatacctt atacaatata tatcatttct
     5401 ttgtttattt attattttat ttgaacttca ggattaagcg aatcattaaa tttcactttt
     5461 gcttcaccta catcaattcc atcttcttta aatttaatat ataatttatc aaaatatcca
     5521 ttaaatccgc cctctatctc atttcttcca gtaaagtttg aagatatgtg ttctgtacga
     5581 tattttagtt cactgttgct atagtcttct ttacctttta aatcaacggt aatgatcaca
     5641 ttaggttttt tatcttggtt atatatttga gtattaactt tatactcttt aatatcttga
     5701 ctagttaaac tatttagtag cgtcatagat tccttaatat cttcatatac ttgtttatct
     5761 aagcttggat catcgtaata ttcgtgacta tttgaagtgt cttcgttatt attttttaaa
     5821 cttctatcat tattctcatg acttttattt ttatctttac tgctactttg ttttttattc
     5881 ttttttacat cagtcctttt tttatcgcta ttctcatgac ttttatgatt atcttcacta
     5941 cctaaattag aaaaggacaa atatattaaa atacctaaca ttataaatac tataaccaac
     6001 gttattttag aacctctatt ttttttcaat ttttcctccg ctaatctaca tttttaatta
     6061 agatttatct gttaaagcac gtttgttaat atccaaaata caaaaaatta taacttcaaa
     6121 aaattactac aagggtcaaa tgtgtaagct ctatgttgca accattaaac caatacccct
     6181 gttaaatgtt tttcaatgct cagaaatcgt tatctcagca cttatttaac taattttccc
     6241 aatcataaaa tcaaacatca tctttttatt actagaagct gatttattat ttctaagttt
     6301 attctttaac ccttctattt ctttatactc tttaggaaca ttgctttttt tgatcgcctc
     6361 aaaattcatt tttacataag ttttcagttt gtctcgttca acatttgaga tgtacttatt
     6421 atttcgtata ttgttaatca gcaagccctc attgt
//
