LOCUS       NZ_CP073873             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1282731 plasmid p2B1282731,
            complete sequence.
ACCESSION   NZ_CP073873
VERSION     NZ_CP073873.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699890
            Assembly: GCF_019329785.1
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                   :: 407x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329785.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 07:05:13
            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)                    :: 2,526
            CDSs (with protein)               :: 2,526
            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)              :: 78
            CDSs (without protein)            :: 78
            Pseudo Genes (ambiguous residues) :: 0 of 78
            Pseudo Genes (frameshifted)       :: 41 of 78
            Pseudo Genes (incomplete)         :: 43 of 78
            Pseudo Genes (internal stop)      :: 27 of 78
            Pseudo Genes (multiple problems)  :: 24 of 78
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073873.1.
            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="B1282731"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1282731"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            322..912
                     /locus_tag="KFV34_RS13260"
                     /old_locus_tag="KFV34_13270"
     CDS             322..912
                     /locus_tag="KFV34_RS13260"
                     /old_locus_tag="KFV34_13270"
                     /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(1148..2641)
                     /locus_tag="KFV34_RS13265"
                     /old_locus_tag="KFV34_13275"
     CDS             complement(1148..2641)
                     /locus_tag="KFV34_RS13265"
                     /old_locus_tag="KFV34_13275"
                     /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(2765..2995)
                     /locus_tag="KFV34_RS13270"
                     /old_locus_tag="KFV34_13280"
     CDS             complement(2765..2995)
                     /locus_tag="KFV34_RS13270"
                     /old_locus_tag="KFV34_13280"
                     /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(3274..3918)
                     /locus_tag="KFV34_RS13275"
                     /old_locus_tag="KFV34_13285"
     CDS             complement(3274..3918)
                     /locus_tag="KFV34_RS13275"
                     /old_locus_tag="KFV34_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_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
     gene            complement(4235..4852)
                     /locus_tag="KFV34_RS13280"
                     /old_locus_tag="KFV34_13290"
     CDS             complement(4235..4852)
                     /locus_tag="KFV34_RS13280"
                     /old_locus_tag="KFV34_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_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            complement(5049..5738)
                     /locus_tag="KFV34_RS13285"
                     /old_locus_tag="KFV34_13295"
     CDS             complement(5049..5738)
                     /locus_tag="KFV34_RS13285"
                     /old_locus_tag="KFV34_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(5753..5923)
                     /locus_tag="KFV34_RS13290"
                     /old_locus_tag="KFV34_13300"
     CDS             complement(5753..5923)
                     /locus_tag="KFV34_RS13290"
                     /old_locus_tag="KFV34_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(5913..6398)
                     /locus_tag="KFV34_RS13295"
                     /old_locus_tag="KFV34_13305"
     CDS             complement(5913..6398)
                     /locus_tag="KFV34_RS13295"
                     /old_locus_tag="KFV34_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"
ORIGIN
        1 gctaatttaa tatttaattc aatatatctt ttctcgtttt tctttatttt cttcactttt
       61 ccattaatag aaaaaacctt ataaacagct ttatatcaag gctttatctg tatctattat
      121 accacaataa gtgaggtttc gcgtgtgtat cagcacatat tcatgctatt attttaatta
      181 ggaatatagc tatttaataa gagaataata tggcgttata ggtagcgtta atacccatca
      241 ttaaggcatt aaaggcttaa tattattatt gtcgcctttt acctataaat gcctaaatga
      301 aaggctttag gtgtaaaaaa tatgcaacaa ccaaatgaat taagcactaa aaatgcaagt
      361 caatttttaa acatatctgt gtcatctatg cgtttatatg ctaaaactat ggagagctta
      421 ggctatgaat ttaaaacagt agaaaatgca cgtcgtttca ctaaatacga tttgcaaatt
      481 atttatgagg caatggaacg ttttaaactt gttggaggaa caatgaaaca atcactacac
      541 tatacgattg ttaaatatga acaagggcaa gaaattgctg acgctatgcc acaaactaca
      601 aagaaaaata gaaaagtctc tgatgaatta gaagcattac aaactaatat gatcaatgaa
      661 gttagtaata atctaaaaac agaattagta aaacagtaca atgaattaag taaaactatt
      721 aaaaatagcc aagcacaatc aagtgaaata aaatatatta aagctgatta ccaaacgtta
      781 aatgataaat ataatgcttt gcttgatgaa aataagaagt taaaagaaga aaataaaaga
      841 cttcatgaag aaatgaataa gctaaaaagt aaaagcttgt gggaattaag aaaatggaaa
      901 aaagaacgct aataaagtgg aattaaatat aaaggcattt aaagagctat atagagcatt
      961 taaattttat gaatggtttt tataactaaa actatataat tgctgaatat ggctctctaa
     1021 attatgttat aatttgaatt gaagataaat aaaaaagata agttactgct atgcttttat
     1081 tattgcatgt atatgttctt tcatttatac tttaaattgt aaattcaatt aaaaaaagac
     1141 aaactcacta aagagcttgt ttgaatttct caaactgtcg tctagtaaga ttgtctttaa
     1201 tatattcata gtttataaca ttattctgat aagctcttat aagtatatca gtagtactga
     1261 cggttttttc gtctgcttta attaaaactt tgtgatggga gttttggtta aagctttttt
     1321 ttatgctata aacgttggtt ttactaaata agtgaccttt tatctcactc ataactggat
     1381 caattacatg gttttcttca atgctaattc tatttagctg ttgtagttcc tcaaggtatc
     1441 gctttagctt acttctattg ctattgttac cgtaattaat cataactgag taggccatat
     1501 agaacgtttt ttcgcctaat ggttgatgcc ttttagcatg tatcaacatt gatgtataga
     1561 gtttcattaa atgtgtcttt ctcaaagcta atacatcttt aagttcatca gcatataaat
     1621 aaacatctct atttatacca cctaacgtga tattagttct atatacatat ttagcaattt
     1681 tttttgtttc attcataata tgtttctcag atgattgtat taaatcttta tgctgtcttt
     1741 tactataaaa cataatttca ttgatttttg ctatcgtatc ttcaacatca taaccttgac
     1801 cctttaaata tatagcaatc aacaatgtat atttgtttct actatcagga taaacaagag
     1861 tattagtctc taacatttca ataatgtttt ctttagcatg agtaacttca taggtactaa
     1921 aatctaatga atttaatacg ccattgagta acttagcctc atcttctttc ataaacttac
     1981 atagctcata tgtataatct tcaatttgta actcgtacaa gtccttaagt tgtaacttct
     2041 ctttaaataa ttttgtattt atctgtttaa tattatgaat agtttctaaa ggttttcttt
     2101 tgaatttagg tgtagaagga tcaacaaaat aacattgctt tcctgtcact ctatgaatac
     2161 ctaaaggtaa tttaacacct tgtgtatgtg taggtctaaa ttcaatatca gaaggtttat
     2221 agttatttct ttccaaaact tcacgataaa atgcttttaa ataactaaca tgtataagat
     2281 cgtcaaaaaa taaataaaca tgataacctt tattcccact atcaactact tcaaggttgt
     2341 tatcagatag tccaaaatca gttattaaag atagtcttag gtttaacaca tcattacgag
     2401 cctgtgcttt attagattta cctgtatcta catcaaaaca taaaaactta gtaaatactt
     2461 ctccactaaa tatacctacg gttttaatcc ctttaatatg actaactaaa tcattatcac
     2521 ataaaccatt aggtatatgt ctataagagc catcttctcg ttgttcaata tgtttctgtt
     2581 tactactgac aaaatacttc ttaagagcct gcacaagtga ataataatta tcttgtgcca
     2641 taatatactc ctttgtaaaa atataataat aagatagata tcaatacata gtacatagtg
     2701 ttatcttttg tacataagca taatattttt atataactgt gctaaatata ttatctgaat
     2761 gcttctaata accttgttta attaagaatt tctcaagctt atctaagttt tttttaccga
     2821 aattatgatg tttgttgacg taacgacgca tattggtata acttacgtct atctctgaag
     2881 aaataagttt aaacttaggc tcataattct cacgccaaaa ctttaataat ctatcacgaa
     2941 tttcaatatt acgctctgcc attacttctt tatgttcttt tgttgctgtt ggcattgttc
     3001 tacacctcct taaacataat atgtttttat gatacattta ttataataat aaaacaacat
     3061 ttttgtggta cttattttat tactctaaaa taaatgcttt gttcttattt gttaaacata
     3121 catataagat actgtcgttt ctatcaatga ttacataacg cccaaaagta ttcatcttat
     3181 cattctcgtt tatatgttct tgaatgtttg caatcaaaaa agcacctgac caattaaggt
     3241 tagatgcttt ttgtctatta aataatccta aaactattta aaacgttcga taagtttgtc
     3301 tatttcgtac ataagtgttt cttcatgttg ctttatttgt tcttttgctg attctggtaa
     3361 tgaatctcta atattttctt gtgtttcaat taattcaagt aaagtattat aataagcaac
     3421 ttgaatttca atcgcgctta ttagttctaa atcatcttgt atcttttcaa aatctcttgg
     3481 tattaaactt tctatattct tttccctaat atcttttatc tttgttccca tgttttttaa
     3541 ttcattttct aaatctagct ttttaatttc atcaaaaata tttatttgtg tccttttata
     3601 attactcttg aaacctatta gtttttgtat agaatctttt gtttctgttt ttaacaattg
     3661 ttgtatctta taactttgtt catttttatt atctttaaat agcttaatat ttgatttgta
     3721 tgatttatag gaaatgataa tactcaaagt agttgttatt aaaacaaaca ctaatgtagc
     3781 cccgtctata gcattaggat attttttaaa gaatttttca agattatcca attgccatat
     3841 aaataagccc acaacgacta atggcagacc gatatacaaa aaccaactta caattttatt
     3901 tattgttttc atgttcattt tcattattcc ttttttattc acaagatcaa ttatataaaa
     3961 ctttacaatt tttaacacat tattttatgg tggttgtaat cactcatgac ggtacccgaa
     4021 aatgtataaa tattaatttt ataagtgtat accgaacacg ataaacagcg tggttatgcg
     4081 attgtatatt ttatgtatat tgaacaagta actacgaaca ctatagatcc cgtcaataca
     4141 atgtttatgg aagttattta gtttacataa ttatgtatta taggtagtgg aaatgtatac
     4201 cttatacaat atatatcatt tctttgttta tttattattt tatttgaact tcaggattaa
     4261 gcgaatcatt aaatttcact tttgcttcac ctacatcaat tccatcttct ttaaatttaa
     4321 tatataattt atcaaaatat ccattaaatc cgccctctat ctcatttctt ccagtaaagt
     4381 ttgaagatat gtgttctgta cgatatttta gttcactgtt gctatagtct tctttacctt
     4441 ttaaatcaac ggtaatgatc acattaggtt ttttatcttg gttatatatt tgagtattaa
     4501 ctttatactc tttaatatct tgactagtta aactatttag tagcgtcata gattccttaa
     4561 tatcttcata tacttgttta tctaagcttg gatcatcgta atattcgtga ctatttgaag
     4621 tgtcttcgtt attatttttt aaacttctat cattattctc atgactttta tttttatctt
     4681 tactgctact ttgtttttta ttctttttta catcagtcct ttttttatcg ctattctcat
     4741 gacttttatg attatcttca ctacctaaat tagaaaagga caaatatatt aaaataccta
     4801 acattataaa tactataacc aacgttattt tagaacctct attttttttc aatttttcct
     4861 ccgctaatct acatttttaa ttaagattta tctgttaaag cacgtttgtt aatatccaaa
     4921 atacaaaaaa ttataacttc aaaaaattac tacaagggtc aaatgtgtaa gctctatgtt
     4981 gcaaccatta aaccaatacc cctgttaaat gtttttcaat gctcagaaat cgttatctca
     5041 gcacttattt aactaatttt cccaatcata aaatcaaaca tcatcttttt attactagaa
     5101 gctgatttat tatttctaag tttattcttt aacccttcta tttctttata ctctttagga
     5161 acattgcttt ttttgatcgc ctcaaaattc atttttacat aagttttcag tttgtctcgt
     5221 tcaacatttg agatgtactt attatttcgt atattgttaa tcagcaagcc ctcattgttt
     5281 aataaagcat tagcatataa ataatcatgc ttagcttgtt ttatatgctc gtctagttgc
     5341 cactctctat tattattttt atctgtaaac aaattcatca tttcattttg aattttgctg
     5401 aataaaaaat tatatctttc aaagtcatat tgtgttttcg gttctagtgt tgcctttgaa
     5461 ctttcttcta gttttaatat tctttcttca atattttttc ctagttcttt tgattgctca
     5521 tcaaatttat taagggtatc gtaaattcct tttaatttat cttgtttata tgtattgatc
     5581 gtttctgcta acgcttcatc tgtatactta tctttgtatt tagttttaat atcttcaata
     5641 ccttgtatat agtctttttt cttatcaata tcaatagtat ttttagcacg cttatttaat
     5701 tcctcaatat cttttttaat tgtttctact gtttccattt ttatgcctcc ttttatagtt
     5761 ctttgttttc aagaaacttt ttaacattat ctgaagtgat aatatatttt cgtcctattt
     5821 tactggcttt aatttctcca atttttatgt attttctaac tgttctaata ttcatatcta
     5881 acaactgggc tacttcattg actgtatatg tttcaattct cattataagt acccccgttt
     5941 tcattgatac agttacgtaa atcctcagtg cttacatcag aaaaatcaat attataatta
     6001 atattactat cgtcctgata accttctaac cattcattag gcttacggtt cttcaaccaa
     6061 aatattatag ctgttacatt aggtttaacg tgttttatat actttatcgt agtaccatca
     6121 ctatttactt ttgtttcttc atactcaaaa cctaatgcac attttaaaag tgtattttcc
     6181 acttcataat ccacgacttc ttttcctttt tttatagtgt cgtaaatttc gctatattta
     6241 ttttgccatt tataaaatgt agcttgatga atgcccatat tttgagcaat ttgtttattg
     6301 cttaatcctt ttcttgccca accttgtaat aacgtcagcc cttcagaggt aagccaataa
     6361 tctactttag gctttgcacc tctttttaat ttttccataa gttacctcct tataagtgaa
     6421 ttttataggg gtttattgtt tctttgcccc ttatg
//
