LOCUS       NZ_CP073845             6455 bp    DNA     circular CON 16-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1265603 plasmid p2B1265603,
            complete sequence.
ACCESSION   NZ_CP073845
VERSION     NZ_CP073845.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699879
            Assembly: GCF_019329565.1
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                   :: 260x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329565.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 08:03:45
            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)                     :: 2,687
            CDSs (total)                      :: 2,606
            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)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 42 of 80
            Pseudo Genes (incomplete)         :: 44 of 80
            Pseudo Genes (internal stop)      :: 27 of 80
            Pseudo Genes (multiple problems)  :: 24 of 80
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073845.1.
            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="B1265603"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1265603"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6046..6455,1..76))
                     /locus_tag="KFV41_RS13205"
                     /old_locus_tag="KFV41_13215"
     CDS             complement(join(6046..6455,1..76))
                     /locus_tag="KFV41_RS13205"
                     /old_locus_tag="KFV41_13215"
                     /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            455..1045
                     /locus_tag="KFV41_RS13210"
                     /old_locus_tag="KFV41_13220"
     CDS             455..1045
                     /locus_tag="KFV41_RS13210"
                     /old_locus_tag="KFV41_13220"
                     /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(1281..2774)
                     /locus_tag="KFV41_RS13215"
                     /old_locus_tag="KFV41_13225"
     CDS             complement(1281..2774)
                     /locus_tag="KFV41_RS13215"
                     /old_locus_tag="KFV41_13225"
                     /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(2898..3128)
                     /locus_tag="KFV41_RS13220"
                     /old_locus_tag="KFV41_13230"
     CDS             complement(2898..3128)
                     /locus_tag="KFV41_RS13220"
                     /old_locus_tag="KFV41_13230"
                     /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(3407..4051)
                     /locus_tag="KFV41_RS13225"
                     /old_locus_tag="KFV41_13235"
     CDS             complement(3407..4051)
                     /locus_tag="KFV41_RS13225"
                     /old_locus_tag="KFV41_13235"
                     /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(4368..4985)
                     /locus_tag="KFV41_RS13230"
                     /old_locus_tag="KFV41_13240"
     CDS             complement(4368..4985)
                     /locus_tag="KFV41_RS13230"
                     /old_locus_tag="KFV41_13240"
                     /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(5182..5871)
                     /locus_tag="KFV41_RS13235"
                     /old_locus_tag="KFV41_13245"
     CDS             complement(5182..5871)
                     /locus_tag="KFV41_RS13235"
                     /old_locus_tag="KFV41_13245"
                     /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(5886..6056)
                     /locus_tag="KFV41_RS13240"
                     /old_locus_tag="KFV41_13250"
     CDS             complement(5886..6056)
                     /locus_tag="KFV41_RS13240"
                     /old_locus_tag="KFV41_13250"
                     /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"
ORIGIN
        1 cttgtaataa cgtcagccct tcagaggtaa gccaataatc tactttaggc tttgcacctc
       61 tttttaattt ttccataagt tacctcctta taagtgaatt ttataggggt ttattgtttc
      121 tttgcccctt atggctaatt taatatttaa ttcaatatat cttttctcgt ttttctttat
      181 tttcttcact tttccattaa tagaaaaaac cttataaaca gctttatatc aaggctttat
      241 ctgtatctat tataccacaa taagtgaggt ttcgcgtgtg tatcagcaca tattcatgct
      301 attattttaa ttaggaatat agctatttaa taagagaata atatggcgtt ataggtagcg
      361 ttaataccca tcattaaggc attaaaggct taatattatt attgtcgcct tttacctata
      421 aatgcctaaa tgaaaggctt taggtgtaaa aaatatgcaa caaccaaatg aattaagcac
      481 taaaaatgca agtcaatttt taaacatatc tgtgtcatct atgcgtttat atgctaaaac
      541 tatggagagc ttaggctatg aatttaaaac agtagaaaat gcacgtcgtt tcactaaata
      601 cgatttgcaa attatttatg aggcaatgga acgttttaaa cttgttggag gaacaatgaa
      661 acaatcacta cactatacga ttgttaaata tgaacaaggg caagaaattg ctgacgctat
      721 gccacaaact acaaagaaaa atagaaaagt ctctgatgaa ttagaagcat tacaaactaa
      781 tatgatcaat gaagttagta ataatctaaa aacagaatta gtaaaacagt acaatgaatt
      841 aagtaaaact attaaaaata gccaagcaca atcaagtgaa ataaaatata ttaaagctga
      901 ttaccaaacg ttaaatgata aatataatgc tttgcttgat gaaaataaga agttaaaaga
      961 agaaaataaa agacttcatg aagaaatgaa taagctaaaa agtaaaagct tgtgggaatt
     1021 aagaaaatgg aaaaaagaac gctaataaag tggaattaaa tataaaggca tttaaagagc
     1081 tatatagagc atttaaattt tatgaatggt ttttataact aaaactatat aattgctgaa
     1141 tatggctctc taaattatgt tataatttga attgaagata aataaaaaag ataagttact
     1201 gctatgcttt tattattgca tgtatatgtt ctttcattta tactttaaat tgtaaattca
     1261 attaaaaaaa gacaaactca ctaaagagct tgtttgaatt tctcaaactg tcgtctagta
     1321 agattgtctt taatatattc atagtttata acattattct gataagctct tataagtata
     1381 tcagtagtac tgacggtttt ttcgtctgct ttaattaaaa ctttgtgatg ggagttttgg
     1441 ttaaagcttt tttttatgct ataaacgttg gttttactaa ataagtgacc ttttatctca
     1501 ctcataactg gatcaattac atggttttct tcaatgctaa ttctatttag ctgttgtagt
     1561 tcctcaaggt atcgctttag cttacttcta ttgctattgt taccgtaatt aatcataact
     1621 gagtaggcca tatagaacgt tttttcgcct aatggttgat gccttttagc atgtatcaac
     1681 attgatgtat agagtttcat taaatgtgtc tttctcaaag ctaatacatc tttaagttca
     1741 tcagcatata aataaacatc tctatttata ccacctaacg tgatattagt tctatataca
     1801 tatttagcaa ttttttttgt ttcattcata atatgtttct cagatgattg tattaaatct
     1861 ttatgctgtc ttttactata aaacataatt tcattgattt ttgctatcgt atcttcaaca
     1921 tcataacctt gaccctttaa atatatagca atcaacaatg tatatttgtt tctactatca
     1981 ggataaacaa gagtattagt ctctaacatt tcaataatgt tttctttagc atgagtaact
     2041 tcataggtac taaaatctaa tgaatttaat acgccattga gtaacttagc ctcatcttct
     2101 ttcataaact tacatagctc atatgtataa tcttcaattt gtaactcgta caagtcctta
     2161 agttgtaact tctctttaaa taattttgta tttatctgtt taatattatg aatagtttct
     2221 aaaggttttc ttttgaattt aggtgtagaa ggatcaacaa aataacattg ctttcctgtc
     2281 actctatgaa tacctaaagg taatttaaca ccttgtgtat gtgtaggtct aaattcaata
     2341 tcagaaggtt tatagttatt tctttccaaa acttcacgat aaaatgcttt taaataacta
     2401 acatgtataa gatcgtcaaa aaataaataa acatgataac ctttattccc actatcaact
     2461 acttcaaggt tgttatcaga tagtccaaaa tcagttatta aagatagtct taggtttaac
     2521 acatcattac gagcctgtgc tttattagat ttacctgtat ctacatcaaa acataaaaac
     2581 ttagtaaata cttctccact aaatatacct acggttttaa tccctttaat atgactaact
     2641 aaatcattat cacataaacc attaggtata tgtctataag agccatcttc tcgttgttca
     2701 atatgtttct gtttactact gacaaaatac ttcttaagag cctgcacaag tgaataataa
     2761 ttatcttgtg ccataatata ctcctttgta aaaatataat aataagatag atatcaatac
     2821 atagtacata gtgttatctt ttgtacataa gcataatatt tttatataac tgtgctaaat
     2881 atattatctg aatgcttcta ataaccttgt ttaattaaga atttctcaag cttatctaag
     2941 ttttttttac cgaaattatg atgtttgttg acgtaacgac gcatattggt ataacttacg
     3001 tctatctctg aagaaataag tttaaactta ggctcataat tctcacgcca aaactttaat
     3061 aatctatcac gaatttcaat attacgctct gccattactt ctttatgttc ttttgttgct
     3121 gttggcattg ttctacacct ccttaaacat aatatgtttt tatgatacat ttattataat
     3181 aataaaacaa catttttgtg gtacttattt tattactcta aaataaatgc tttgttctta
     3241 tttgttaaac atacatataa gatactgtcg tttctatcaa tgattacata acgcccaaaa
     3301 gtattcatct tatcattctc gtttatatgt tcttgaatgt ttgcaatcaa aaaagcacct
     3361 gaccaattaa ggttagatgc tttttgtcta ttaaataatc ctaaaactat ttaaaacgtt
     3421 cgataagttt gtctatttcg tacataagtg tttcttcatg ttgctttatt tgttcttttg
     3481 ctgattctgg taatgaatct ctaatatttt cttgtgtttc aattaattca agtaaagtat
     3541 tataataagc aacttgaatt tcaatcgcgc ttattagttc taaatcatct tgtatctttt
     3601 caaaatctct tggtattaaa ctttctatat tcttttccct aatatctttt atctttgttc
     3661 ccatgttttt taattcattt tctaaatcta gctttttaat ttcatcaaaa atatttattt
     3721 gtgtcctttt ataattactc ttgaaaccta ttagtttttg tatagaatct tttgtttctg
     3781 tttttaacaa ttgttgtatc ttataacttt gttcattttt attatcttta aatagcttaa
     3841 tatttgattt gtatgattta taggaaatga taatactcaa agtagttgtt attaaaacaa
     3901 acactaatgt agccccgtct atagcattag gatatttttt aaagaatttt tcaagattat
     3961 ccaattgcca tataaataag cccacaacga ctaatggcag accgatatac aaaaaccaac
     4021 ttacaatttt atttattgtt ttcatgttca ttttcattat tcctttttta ttcacaagat
     4081 caattatata aaactttaca atttttaaca cattatttta tggtggttgt aatcactcat
     4141 gacggtaccc gaaaatgtat aaatattaat tttataagtg tataccgaac acgataaaca
     4201 gcgtggttat gcgattgtat attttatgta tattgaacaa gtaactacga acactataga
     4261 tcccgtcaat acaatgttta tggaagttat ttagtttaca taattatgta ttataggtag
     4321 tggaaatgta taccttatac aatatatatc atttctttgt ttatttatta ttttatttga
     4381 acttcaggat taagcgaatc attaaatttc acttttgctt cacctacatc aattccatct
     4441 tctttaaatt taatatataa tttatcaaaa tatccattaa atccgccctc tatctcattt
     4501 cttccagtaa agtttgaaga tatgtgttct gtacgatatt ttagttcact gttgctatag
     4561 tcttctttac cttttaaatc aacggtaatg atcacattag gttttttatc ttggttatat
     4621 atttgagtat taactttata ctctttaata tcttgactag ttaaactatt tagtagcgtc
     4681 atagattcct taatatcttc atatacttgt ttatctaagc ttggatcatc gtaatattcg
     4741 tgactatttg aagtgtcttc gttattattt tttaaacttc tatcattatt ctcatgactt
     4801 ttatttttat ctttactgct actttgtttt ttattctttt ttacatcagt ccttttttta
     4861 tcgctattct catgactttt atgattatct tcactaccta aattagaaaa ggacaaatat
     4921 attaaaatac ctaacattat aaatactata accaacgtta ttttagaacc tctatttttt
     4981 ttcaattttt cctccgctaa tctacatttt taattaagat ttatctgtta aagcacgttt
     5041 gttaatatcc aaaatacaaa aaattataac ttcaaaaaat tactacaagg gtcaaatgtg
     5101 taagctctat gttgcaacca ttaaaccaat acccctgtta aatgtttttc aatgctcaga
     5161 aatcgttatc tcagcactta tttaactaat tttcccaatc ataaaatcaa acatcatctt
     5221 tttattacta gaagctgatt tattatttct aagtttattc tttaaccctt ctatttcttt
     5281 atactcttta ggaacattgc tttttttgat cgcctcaaaa ttcattttta cataagtttt
     5341 cagtttgtct cgttcaacat ttgagatgta cttattattt cgtatattgt taatcagcaa
     5401 gccctcattg tttaataaag cattagcata taaataatca tgcttagctt gttttatatg
     5461 ctcgtctagt tgccactctc tattattatt tttatctgta aacaaattca tcatttcatt
     5521 ttgaattttg ctgaataaaa aattatatct ttcaaagtca tattgtgttt tcggttctag
     5581 tgttgccttt gaactttctt ctagttttaa tattctttct tcaatatttt ttcctagttc
     5641 ttttgattgc tcatcaaatt tattaagggt atcgtaaatt ccttttaatt tatcttgttt
     5701 atatgtattg atcgtttctg ctaacgcttc atctgtatac ttatctttgt atttagtttt
     5761 aatatcttca ataccttgta tatagtcttt tttcttatca atatcaatag tatttttagc
     5821 acgcttattt aattcctcaa tatctttttt aattgtttct actgtttcca tttttatgcc
     5881 tccttttata gttctttgtt ttcaagaaac tttttaacat tatctgaagt gataatatat
     5941 tttcgtccta ttttactggc tttaatttct ccaattttta tgtattttct aactgttcta
     6001 atattcatat ctaacaactg ggctacttca ttgactgtat atgtttcaat tctcattata
     6061 agtacccccg ttttcattga tacagttacg taaatcctca gtgcttacat cagaaaaatc
     6121 aatattataa ttaatattac tatcgtcctg ataaccttct aaccattcat taggcttacg
     6181 gttcttcaac caaaatatta tagctgttac attaggttta acgtgtttta tatactttat
     6241 cgtagtacca tcactattta cttttgtttc ttcatactca aaacctaatg cacattttaa
     6301 aagtgtattt tccacttcat aatccacgac ttcttttcct ttttttatag tgtcgtaaat
     6361 ttcgctatat ttattttgcc atttataaaa tgtagcttga tgaatgccca tattttgagc
     6421 aatttgttta ttgcttaatc cttttcttgc ccaac
//
