LOCUS       NZ_CP073851             6455 bp    DNA     circular CON 16-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1266911 plasmid p2B1266911,
            complete sequence.
ACCESSION   NZ_CP073851
VERSION     NZ_CP073851.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699881
            Assembly: GCF_019329605.1
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                   :: 285x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329605.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 07:54:27
            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)                     :: 2,679
            CDSs (total)                      :: 2,598
            Genes (coding)                    :: 2,520
            CDSs (with protein)               :: 2,520
            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)       :: 40 of 78
            Pseudo Genes (incomplete)         :: 44 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
            CP073851.1.
            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="B1266911"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1266911"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6032..6455,1..62))
                     /locus_tag="KFV33_RS13255"
                     /old_locus_tag="KFV33_13265"
     CDS             complement(join(6032..6455,1..62))
                     /locus_tag="KFV33_RS13255"
                     /old_locus_tag="KFV33_13265"
                     /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            441..1031
                     /locus_tag="KFV33_RS13260"
                     /old_locus_tag="KFV33_13270"
     CDS             441..1031
                     /locus_tag="KFV33_RS13260"
                     /old_locus_tag="KFV33_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(1267..2760)
                     /locus_tag="KFV33_RS13265"
                     /old_locus_tag="KFV33_13275"
     CDS             complement(1267..2760)
                     /locus_tag="KFV33_RS13265"
                     /old_locus_tag="KFV33_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(2884..3114)
                     /locus_tag="KFV33_RS13270"
                     /old_locus_tag="KFV33_13280"
     CDS             complement(2884..3114)
                     /locus_tag="KFV33_RS13270"
                     /old_locus_tag="KFV33_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(3393..4037)
                     /locus_tag="KFV33_RS13275"
                     /old_locus_tag="KFV33_13285"
     CDS             complement(3393..4037)
                     /locus_tag="KFV33_RS13275"
                     /old_locus_tag="KFV33_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(4354..4971)
                     /locus_tag="KFV33_RS13280"
                     /old_locus_tag="KFV33_13290"
     CDS             complement(4354..4971)
                     /locus_tag="KFV33_RS13280"
                     /old_locus_tag="KFV33_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(5168..5857)
                     /locus_tag="KFV33_RS13285"
                     /old_locus_tag="KFV33_13295"
     CDS             complement(5168..5857)
                     /locus_tag="KFV33_RS13285"
                     /old_locus_tag="KFV33_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(5872..6042)
                     /locus_tag="KFV33_RS13290"
                     /old_locus_tag="KFV33_13300"
     CDS             complement(5872..6042)
                     /locus_tag="KFV33_RS13290"
                     /old_locus_tag="KFV33_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"
ORIGIN
        1 agcccttcag aggtaagcca ataatctact ttaggctttg cacctctttt taatttttcc
       61 ataagttacc tccttataag tgaattttat aggggtttat tgtttctttg ccccttatgg
      121 ctaatttaat atttaattca atatatcttt tctcgttttt ctttattttc ttcacttttc
      181 cattaataga aaaaacctta taaacagctt tatatcaagg ctttatctgt atctattata
      241 ccacaataag tgaggtttcg cgtgtgtatc agcacatatt catgctatta ttttaattag
      301 gaatatagct atttaataag agaataatat ggcgttatag gtagcgttaa tacccatcat
      361 taaggcatta aaggcttaat attattattg tcgcctttta cctataaatg cctaaatgaa
      421 aggctttagg tgtaaaaaat atgcaacaac caaatgaatt aagcactaaa aatgcaagtc
      481 aatttttaaa catatctgtg tcatctatgc gtttatatgc taaaactatg gagagcttag
      541 gctatgaatt taaaacagta gaaaatgcac gtcgtttcac taaatacgat ttgcaaatta
      601 tttatgaggc aatggaacgt tttaaacttg ttggaggaac aatgaaacaa tcactacact
      661 atacgattgt taaatatgaa caagggcaag aaattgctga cgctatgcca caaactacaa
      721 agaaaaatag aaaagtctct gatgaattag aagcattaca aactaatatg atcaatgaag
      781 ttagtaataa tctaaaaaca gaattagtaa aacagtacaa tgaattaagt aaaactatta
      841 aaaatagcca agcacaatca agtgaaataa aatatattaa agctgattac caaacgttaa
      901 atgataaata taatgctttg cttgatgaaa ataagaagtt aaaagaagaa aataaaagac
      961 ttcatgaaga aatgaataag ctaaaaagta aaagcttgtg ggaattaaga aaatggaaaa
     1021 aagaacgcta ataaagtgga attaaatata aaggcattta aagagctata tagagcattt
     1081 aaattttatg aatggttttt ataactaaaa ctatataatt gctgaatatg gctctctaaa
     1141 ttatgttata atttgaattg aagataaata aaaaagataa gttactgcta tgcttttatt
     1201 attgcatgta tatgttcttt catttatact ttaaattgta aattcaatta aaaaaagaca
     1261 aactcactaa agagcttgtt tgaatttctc aaactgtcgt ctagtaagat tgtctttaat
     1321 atattcatag tttataacat tattctgata agctcttata agtatatcag tagtactgac
     1381 ggttttttcg tctgctttaa ttaaaacttt gtgatgggag ttttggttaa agcttttttt
     1441 tatgctataa acgttggttt tactaaataa gtgacctttt atctcactca taactggatc
     1501 aattacatgg ttttcttcaa tgctaattct atttagctgt tgtagttcct caaggtatcg
     1561 ctttagctta cttctattgc tattgttacc gtaattaatc ataactgagt aggccatata
     1621 gaacgttttt tcgcctaatg gttgatgcct tttagcatgt atcaacattg atgtatagag
     1681 tttcattaaa tgtgtctttc tcaaagctaa tacatcttta agttcatcag catataaata
     1741 aacatctcta tttataccac ctaacgtgat attagttcta tatacatatt tagcaatttt
     1801 ttttgtttca ttcataatat gtttctcaga tgattgtatt aaatctttat gctgtctttt
     1861 actataaaac ataatttcat tgatttttgc tatcgtatct tcaacatcat aaccttgacc
     1921 ctttaaatat atagcaatca acaatgtata tttgtttcta ctatcaggat aaacaagagt
     1981 attagtctct aacatttcaa taatgttttc tttagcatga gtaacttcat aggtactaaa
     2041 atctaatgaa tttaatacgc cattgagtaa cttagcctca tcttctttca taaacttaca
     2101 tagctcatat gtataatctt caatttgtaa ctcgtacaag tccttaagtt gtaacttctc
     2161 tttaaataat tttgtattta tctgtttaat attatgaata gtttctaaag gttttctttt
     2221 gaatttaggt gtagaaggat caacaaaata acattgcttt cctgtcactc tatgaatacc
     2281 taaaggtaat ttaacacctt gtgtatgtgt aggtctaaat tcaatatcag aaggtttata
     2341 gttatttctt tccaaaactt cacgataaaa tgcttttaaa taactaacat gtataagatc
     2401 gtcaaaaaat aaataaacat gataaccttt attcccacta tcaactactt caaggttgtt
     2461 atcagatagt ccaaaatcag ttattaaaga tagtcttagg tttaacacat cattacgagc
     2521 ctgtgcttta ttagatttac ctgtatctac atcaaaacat aaaaacttag taaatacttc
     2581 tccactaaat atacctacgg ttttaatccc tttaatatga ctaactaaat cattatcaca
     2641 taaaccatta ggtatatgtc tataagagcc atcttctcgt tgttcaatat gtttctgttt
     2701 actactgaca aaatacttct taagagcctg cacaagtgaa taataattat cttgtgccat
     2761 aatatactcc tttgtaaaaa tataataata agatagatat caatacatag tacatagtgt
     2821 tatcttttgt acataagcat aatattttta tataactgtg ctaaatatat tatctgaatg
     2881 cttctaataa ccttgtttaa ttaagaattt ctcaagctta tctaagtttt ttttaccgaa
     2941 attatgatgt ttgttgacgt aacgacgcat attggtataa cttacgtcta tctctgaaga
     3001 aataagttta aacttaggct cataattctc acgccaaaac tttaataatc tatcacgaat
     3061 ttcaatatta cgctctgcca ttacttcttt atgttctttt gttgctgttg gcattgttct
     3121 acacctcctt aaacataata tgtttttatg atacatttat tataataata aaacaacatt
     3181 tttgtggtac ttattttatt actctaaaat aaatgctttg ttcttatttg ttaaacatac
     3241 atataagata ctgtcgtttc tatcaatgat tacataacgc ccaaaagtat tcatcttatc
     3301 attctcgttt atatgttctt gaatgtttgc aatcaaaaaa gcacctgacc aattaaggtt
     3361 agatgctttt tgtctattaa ataatcctaa aactatttaa aacgttcgat aagtttgtct
     3421 atttcgtaca taagtgtttc ttcatgttgc tttatttgtt cttttgctga ttctggtaat
     3481 gaatctctaa tattttcttg tgtttcaatt aattcaagta aagtattata ataagcaact
     3541 tgaatttcaa tcgcgcttat tagttctaaa tcatcttgta tcttttcaaa atctcttggt
     3601 attaaacttt ctatattctt ttccctaata tcttttatct ttgttcccat gttttttaat
     3661 tcattttcta aatctagctt tttaatttca tcaaaaatat ttatttgtgt ccttttataa
     3721 ttactcttga aacctattag tttttgtata gaatcttttg tttctgtttt taacaattgt
     3781 tgtatcttat aactttgttc atttttatta tctttaaata gcttaatatt tgatttgtat
     3841 gatttatagg aaatgataat actcaaagta gttgttatta aaacaaacac taatgtagcc
     3901 ccgtctatag cattaggata ttttttaaag aatttttcaa gattatccaa ttgccatata
     3961 aataagccca caacgactaa tggcagaccg atatacaaaa accaacttac aattttattt
     4021 attgttttca tgttcatttt cattattcct tttttattca caagatcaat tatataaaac
     4081 tttacaattt ttaacacatt attttatggt ggttgtaatc actcatgacg gtacccgaaa
     4141 atgtataaat attaatttta taagtgtata ccgaacacga taaacagcgt ggttatgcga
     4201 ttgtatattt tatgtatatt gaacaagtaa ctacgaacac tatagatccc gtcaatacaa
     4261 tgtttatgga agttatttag tttacataat tatgtattat aggtagtgga aatgtatacc
     4321 ttatacaata tatatcattt ctttgtttat ttattatttt atttgaactt caggattaag
     4381 cgaatcatta aatttcactt ttgcttcacc tacatcaatt ccatcttctt taaatttaat
     4441 atataattta tcaaaatatc cattaaatcc gccctctatc tcatttcttc cagtaaagtt
     4501 tgaagatatg tgttctgtac gatattttag ttcactgttg ctatagtctt ctttaccttt
     4561 taaatcaacg gtaatgatca cattaggttt tttatcttgg ttatatattt gagtattaac
     4621 tttatactct ttaatatctt gactagttaa actatttagt agcgtcatag attccttaat
     4681 atcttcatat acttgtttat ctaagcttgg atcatcgtaa tattcgtgac tatttgaagt
     4741 gtcttcgtta ttatttttta aacttctatc attattctca tgacttttat ttttatcttt
     4801 actgctactt tgttttttat tcttttttac atcagtcctt tttttatcgc tattctcatg
     4861 acttttatga ttatcttcac tacctaaatt agaaaaggac aaatatatta aaatacctaa
     4921 cattataaat actataacca acgttatttt agaacctcta ttttttttca atttttcctc
     4981 cgctaatcta catttttaat taagatttat ctgttaaagc acgtttgtta atatccaaaa
     5041 tacaaaaaat tataacttca aaaaattact acaagggtca aatgtgtaag ctctatgttg
     5101 caaccattaa accaataccc ctgttaaatg tttttcaatg ctcagaaatc gttatctcag
     5161 cacttattta actaattttc ccaatcataa aatcaaacat catcttttta ttactagaag
     5221 ctgatttatt atttctaagt ttattcttta acccttctat ttctttatac tctttaggaa
     5281 cattgctttt tttgatcgcc tcaaaattca tttttacata agttttcagt ttgtctcgtt
     5341 caacatttga gatgtactta ttatttcgta tattgttaat cagcaagccc tcattgttta
     5401 ataaagcatt agcatataaa taatcatgct tagcttgttt tatatgctcg tctagttgcc
     5461 actctctatt attattttta tctgtaaaca aattcatcat ttcattttga attttgctga
     5521 ataaaaaatt atatctttca aagtcatatt gtgttttcgg ttctagtgtt gcctttgaac
     5581 tttcttctag ttttaatatt ctttcttcaa tattttttcc tagttctttt gattgctcat
     5641 caaatttatt aagggtatcg taaattcctt ttaatttatc ttgtttatat gtattgatcg
     5701 tttctgctaa cgcttcatct gtatacttat ctttgtattt agttttaata tcttcaatac
     5761 cttgtatata gtcttttttc ttatcaatat caatagtatt tttagcacgc ttatttaatt
     5821 cctcaatatc ttttttaatt gtttctactg tttccatttt tatgcctcct tttatagttc
     5881 tttgttttca agaaactttt taacattatc tgaagtgata atatattttc gtcctatttt
     5941 actggcttta atttctccaa tttttatgta ttttctaact gttctaatat tcatatctaa
     6001 caactgggct acttcattga ctgtatatgt ttcaattctc attataagta cccccgtttt
     6061 cattgataca gttacgtaaa tcctcagtgc ttacatcaga aaaatcaata ttataattaa
     6121 tattactatc gtcctgataa ccttctaacc attcattagg cttacggttc ttcaaccaaa
     6181 atattatagc tgttacatta ggtttaacgt gttttatata ctttatcgta gtaccatcac
     6241 tatttacttt tgtttcttca tactcaaaac ctaatgcaca ttttaaaagt gtattttcca
     6301 cttcataatc cacgacttct tttccttttt ttatagtgtc gtaaatttcg ctatatttat
     6361 tttgccattt ataaaatgta gcttgatgaa tgcccatatt ttgagcaatt tgtttattgc
     6421 ttaatccttt tcttgcccaa ccttgtaata acgtc
//
