LOCUS       NZ_CP073867             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1276912 plasmid p2B1276912,
            complete sequence.
ACCESSION   NZ_CP073867
VERSION     NZ_CP073867.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699888
            Assembly: GCF_019329745.1
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                   :: 349x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329745.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:59:07
            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)                     :: 2,763
            CDSs (total)                      :: 2,682
            Genes (coding)                    :: 2,558
            CDSs (with protein)               :: 2,558
            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)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 82 of 124
            Pseudo Genes (incomplete)         :: 46 of 124
            Pseudo Genes (internal stop)      :: 46 of 124
            Pseudo Genes (multiple problems)  :: 41 of 124
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073867.1.
            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="B1276912"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1276912"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            join(6045..6455,1..234)
                     /locus_tag="KFV35_RS13650"
                     /old_locus_tag="KFV35_13700"
     CDS             join(6045..6455,1..234)
                     /locus_tag="KFV35_RS13650"
                     /old_locus_tag="KFV35_13700"
                     /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            513..743
                     /locus_tag="KFV35_RS13655"
                     /old_locus_tag="KFV35_13705"
     CDS             513..743
                     /locus_tag="KFV35_RS13655"
                     /old_locus_tag="KFV35_13705"
                     /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            867..2360
                     /locus_tag="KFV35_RS13660"
                     /old_locus_tag="KFV35_13710"
     CDS             867..2360
                     /locus_tag="KFV35_RS13660"
                     /old_locus_tag="KFV35_13710"
                     /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(2596..3186)
                     /locus_tag="KFV35_RS13665"
                     /old_locus_tag="KFV35_13715"
     CDS             complement(2596..3186)
                     /locus_tag="KFV35_RS13665"
                     /old_locus_tag="KFV35_13715"
                     /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            3565..4050
                     /locus_tag="KFV35_RS13670"
                     /old_locus_tag="KFV35_13720"
     CDS             3565..4050
                     /locus_tag="KFV35_RS13670"
                     /old_locus_tag="KFV35_13720"
                     /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            4040..4210
                     /locus_tag="KFV35_RS13675"
                     /old_locus_tag="KFV35_13725"
     CDS             4040..4210
                     /locus_tag="KFV35_RS13675"
                     /old_locus_tag="KFV35_13725"
                     /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            4225..4914
                     /locus_tag="KFV35_RS13680"
                     /old_locus_tag="KFV35_13730"
     CDS             4225..4914
                     /locus_tag="KFV35_RS13680"
                     /old_locus_tag="KFV35_13730"
                     /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            5111..5728
                     /locus_tag="KFV35_RS13685"
                     /old_locus_tag="KFV35_13735"
     CDS             5111..5728
                     /locus_tag="KFV35_RS13685"
                     /old_locus_tag="KFV35_13735"
                     /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 agggaaaaga atatagaaag tttaatacca agagattttg aaaagataca agatgattta
       61 gaactaataa gcgcgattga aattcaagtt gcttattata atactttact tgaattaatt
      121 gaaacacaag aaaatattag agattcatta ccagaatcag caaaagaaca aataaagcaa
      181 catgaagaaa cacttatgta cgaaatagac aaacttatcg aacgttttaa atagttttag
      241 gattatttaa tagacaaaaa gcatctaacc ttaattggtc aggtgctttt ttgattgcaa
      301 acattcaaga acatataaac gagaatgata agatgaatac ttttgggcgt tatgtaatca
      361 ttgatagaaa cgacagtatc ttatatgtat gtttaacaaa taagaacaaa gcatttattt
      421 tagagtaata aaataagtac cacaaaaatg ttgttttatt attataataa atgtatcata
      481 aaaacatatt atgtttaagg aggtgtagaa caatgccaac agcaacaaaa gaacataaag
      541 aagtaatggc agagcgtaat attgaaattc gtgatagatt attaaagttt tggcgtgaga
      601 attatgagcc taagtttaaa cttatttctt cagagataga cgtaagttat accaatatgc
      661 gtcgttacgt caacaaacat cataatttcg gtaaaaaaaa cttagataag cttgagaaat
      721 tcttaattaa acaaggttat tagaagcatt cagataatat atttagcaca gttatataaa
      781 aatattatgc ttatgtacaa aagataacac tatgtactat gtattgatat ctatcttatt
      841 attatatttt tacaaaggag tatattatgg cacaagataa ttattattca cttgtgcagg
      901 ctcttaagaa gtattttgtc agtagtaaac agaaacatat tgaacaacga gaagatggct
      961 cttatagaca tatacctaat ggtttatgtg ataatgattt agttagtcat attaaaggga
     1021 ttaaaaccgt aggtatattt agtggagaag tatttactaa gtttttatgt tttgatgtag
     1081 atacaggtaa atctaataaa gcacaggctc gtaatgatgt gttaaaccta agactatctt
     1141 taataactga ttttggacta tctgataaca accttgaagt agttgatagt gggaataaag
     1201 gttatcatgt ttatttattt tttgacgatc ttatacatgt tagttattta aaagcatttt
     1261 atcgtgaagt tttggaaaga aataactata aaccttctga tattgaattt agacctacac
     1321 atacacaagg tgttaaatta cctttaggta ttcatagagt gacaggaaag caatgttatt
     1381 ttgttgatcc ttctacacct aaattcaaaa gaaaaccttt agaaactatt cataatatta
     1441 aacagataaa tacaaaatta tttaaagaga agttacaact taaggacttg tacgagttac
     1501 aaattgaaga ttatacatat gagctatgta agtttatgaa agaagatgag gctaagttac
     1561 tcaatggcgt attaaattca ttagatttta gtacctatga agttactcat gctaaagaaa
     1621 acattattga aatgttagag actaatactc ttgtttatcc tgatagtaga aacaaatata
     1681 cattgttgat tgctatatat ttaaagggtc aaggttatga tgttgaagat acgatagcaa
     1741 aaatcaatga aattatgttt tatagtaaaa gacagcataa agatttaata caatcatctg
     1801 agaaacatat tatgaatgaa acaaaaaaaa ttgctaaata tgtatataga actaatatca
     1861 cgttaggtgg tataaataga gatgtttatt tatatgctga tgaacttaaa gatgtattag
     1921 ctttgagaaa gacacattta atgaaactct atacatcaat gttgatacat gctaaaaggc
     1981 atcaaccatt aggcgaaaaa acgttctata tggcctactc agttatgatt aattacggta
     2041 acaatagcaa tagaagtaag ctaaagcgat accttgagga actacaacag ctaaatagaa
     2101 ttagcattga agaaaaccat gtaattgatc cagttatgag tgagataaaa ggtcacttat
     2161 ttagtaaaac caacgtttat agcataaaaa aaagctttaa ccaaaactcc catcacaaag
     2221 ttttaattaa agcagacgaa aaaaccgtca gtactactga tatacttata agagcttatc
     2281 agaataatgt tataaactat gaatatatta aagacaatct tactagacga cagtttgaga
     2341 aattcaaaca agctctttag tgagtttgtc tttttttaat tgaatttaca atttaaagta
     2401 taaatgaaag aacatataca tgcaataata aaagcatagc agtaacttat cttttttatt
     2461 tatcttcaat tcaaattata acataattta gagagccata ttcagcaatt atatagtttt
     2521 agttataaaa accattcata aaatttaaat gctctatata gctctttaaa tgcctttata
     2581 tttaattcca ctttattagc gttctttttt ccattttctt aattcccaca agcttttact
     2641 ttttagctta ttcatttctt catgaagtct tttattttct tcttttaact tcttattttc
     2701 atcaagcaaa gcattatatt tatcatttaa cgtttggtaa tcagctttaa tatattttat
     2761 ttcacttgat tgtgcttggc tatttttaat agttttactt aattcattgt actgttttac
     2821 taattctgtt tttagattat tactaacttc attgatcata ttagtttgta atgcttctaa
     2881 ttcatcagag acttttctat ttttctttgt agtttgtggc atagcgtcag caatttcttg
     2941 cccttgttca tatttaacaa tcgtatagtg tagtgattgt ttcattgttc ctccaacaag
     3001 tttaaaacgt tccattgcct cataaataat ttgcaaatcg tatttagtga aacgacgtgc
     3061 attttctact gttttaaatt catagcctaa gctctccata gttttagcat ataaacgcat
     3121 agatgacaca gatatgttta aaaattgact tgcattttta gtgcttaatt catttggttg
     3181 ttgcatattt tttacaccta aagcctttca tttaggcatt tataggtaaa aggcgacaat
     3241 aataatatta agcctttaat gccttaatga tgggtattaa cgctacctat aacgccatat
     3301 tattctctta ttaaatagct atattcctaa ttaaaataat agcatgaata tgtgctgata
     3361 cacacgcgaa acctcactta ttgtggtata atagatacag ataaagcctt gatataaagc
     3421 tgtttataag gttttttcta ttaatggaaa agtgaagaaa ataaagaaaa acgagaaaag
     3481 atatattgaa ttaaatatta aattagccat aaggggcaaa gaaacaataa acccctataa
     3541 aattcactta taaggaggta acttatggaa aaattaaaaa gaggtgcaaa gcctaaagta
     3601 gattattggc ttacctctga agggctgacg ttattacaag gttgggcaag aaaaggatta
     3661 agcaataaac aaattgctca aaatatgggc attcatcaag ctacatttta taaatggcaa
     3721 aataaatata gcgaaattta cgacactata aaaaaaggaa aagaagtcgt ggattatgaa
     3781 gtggaaaata cacttttaaa atgtgcatta ggttttgagt atgaagaaac aaaagtaaat
     3841 agtgatggta ctacgataaa gtatataaaa cacgttaaac ctaatgtaac agctataata
     3901 ttttggttga agaaccgtaa gcctaatgaa tggttagaag gttatcagga cgatagtaat
     3961 attaattata atattgattt ttctgatgta agcactgagg atttacgtaa ctgtatcaat
     4021 gaaaacgggg gtacttataa tgagaattga aacatataca gtcaatgaag tagcccagtt
     4081 gttagatatg aatattagaa cagttagaaa atacataaaa attggagaaa ttaaagccag
     4141 taaaatagga cgaaaatata ttatcacttc agataatgtt aaaaagtttc ttgaaaacaa
     4201 agaactataa aaggaggcat aaaaatggaa acagtagaaa caattaaaaa agatattgag
     4261 gaattaaata agcgtgctaa aaatactatt gatattgata agaaaaaaga ctatatacaa
     4321 ggtattgaag atattaaaac taaatacaaa gataagtata cagatgaagc gttagcagaa
     4381 acgatcaata catataaaca agataaatta aaaggaattt acgataccct taataaattt
     4441 gatgagcaat caaaagaact aggaaaaaat attgaagaaa gaatattaaa actagaagaa
     4501 agttcaaagg caacactaga accgaaaaca caatatgact ttgaaagata taatttttta
     4561 ttcagcaaaa ttcaaaatga aatgatgaat ttgtttacag ataaaaataa taatagagag
     4621 tggcaactag acgagcatat aaaacaagct aagcatgatt atttatatgc taatgcttta
     4681 ttaaacaatg agggcttgct gattaacaat atacgaaata ataagtacat ctcaaatgtt
     4741 gaacgagaca aactgaaaac ttatgtaaaa atgaattttg aggcgatcaa aaaaagcaat
     4801 gttcctaaag agtataaaga aatagaaggg ttaaagaata aacttagaaa taataaatca
     4861 gcttctagta ataaaaagat gatgtttgat tttatgattg ggaaaattag ttaaataagt
     4921 gctgagataa cgatttctga gcattgaaaa acatttaaca ggggtattgg tttaatggtt
     4981 gcaacataga gcttacacat ttgacccttg tagtaatttt ttgaagttat aattttttgt
     5041 attttggata ttaacaaacg tgctttaaca gataaatctt aattaaaaat gtagattagc
     5101 ggaggaaaaa ttgaaaaaaa atagaggttc taaaataacg ttggttatag tatttataat
     5161 gttaggtatt ttaatatatt tgtccttttc taatttaggt agtgaagata atcataaaag
     5221 tcatgagaat agcgataaaa aaaggactga tgtaaaaaag aataaaaaac aaagtagcag
     5281 taaagataaa aataaaagtc atgagaataa tgatagaagt ttaaaaaata ataacgaaga
     5341 cacttcaaat agtcacgaat attacgatga tccaagctta gataaacaag tatatgaaga
     5401 tattaaggaa tctatgacgc tactaaatag tttaactagt caagatatta aagagtataa
     5461 agttaatact caaatatata accaagataa aaaacctaat gtgatcatta ccgttgattt
     5521 aaaaggtaaa gaagactata gcaacagtga actaaaatat cgtacagaac acatatcttc
     5581 aaactttact ggaagaaatg agatagaggg cggatttaat ggatattttg ataaattata
     5641 tattaaattt aaagaagatg gaattgatgt aggtgaagca aaagtgaaat ttaatgattc
     5701 gcttaatcct gaagttcaaa taaaataata aataaacaaa gaaatgatat atattgtata
     5761 aggtatacat ttccactacc tataatacat aattatgtaa actaaataac ttccataaac
     5821 attgtattga cgggatctat agtgttcgta gttacttgtt caatatacat aaaatataca
     5881 atcgcataac cacgctgttt atcgtgttcg gtatacactt ataaaattaa tatttataca
     5941 ttttcgggta ccgtcatgag tgattacaac caccataaaa taatgtgtta aaaattgtaa
     6001 agttttatat aattgatctt gtgaataaaa aaggaataat gaaaatgaac atgaaaacaa
     6061 taaataaaat tgtaagttgg tttttgtata tcggtctgcc attagtcgtt gtgggcttat
     6121 ttatatggca attggataat cttgaaaaat tctttaaaaa atatcctaat gctatagacg
     6181 gggctacatt agtgtttgtt ttaataacaa ctactttgag tattatcatt tcctataaat
     6241 catacaaatc aaatattaag ctatttaaag ataataaaaa tgaacaaagt tataagatac
     6301 aacaattgtt aaaaacagaa acaaaagatt ctatacaaaa actaataggt ttcaagagta
     6361 attataaaag gacacaaata aatatttttg atgaaattaa aaagctagat ttagaaaatg
     6421 aattaaaaaa catgggaaca aagataaaag atatt
//
