LOCUS       NZ_CP073829             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1208538 plasmid p2B1208538,
            complete sequence.
ACCESSION   NZ_CP073829
VERSION     NZ_CP073829.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699873
            Assembly: GCF_019329365.1
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                   :: 368x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329365.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:48:09
            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)                     :: 2,690
            CDSs (total)                      :: 2,609
            Genes (coding)                    :: 2,525
            CDSs (with protein)               :: 2,525
            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)              :: 84
            CDSs (without protein)            :: 84
            Pseudo Genes (ambiguous residues) :: 0 of 84
            Pseudo Genes (frameshifted)       :: 42 of 84
            Pseudo Genes (incomplete)         :: 47 of 84
            Pseudo Genes (internal stop)      :: 28 of 84
            Pseudo Genes (multiple problems)  :: 24 of 84
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073829.1.
            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="B1208538"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1208538"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(5945..6455,1..80))
                     /locus_tag="KFV36_RS13300"
                     /old_locus_tag="KFV36_13310"
     CDS             complement(join(5945..6455,1..80))
                     /locus_tag="KFV36_RS13300"
                     /old_locus_tag="KFV36_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            459..944
                     /locus_tag="KFV36_RS13305"
                     /old_locus_tag="KFV36_13315"
     CDS             459..944
                     /locus_tag="KFV36_RS13305"
                     /old_locus_tag="KFV36_13315"
                     /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            934..1104
                     /locus_tag="KFV36_RS13310"
                     /old_locus_tag="KFV36_13320"
     CDS             934..1104
                     /locus_tag="KFV36_RS13310"
                     /old_locus_tag="KFV36_13320"
                     /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            1119..1808
                     /locus_tag="KFV36_RS13315"
                     /old_locus_tag="KFV36_13325"
     CDS             1119..1808
                     /locus_tag="KFV36_RS13315"
                     /old_locus_tag="KFV36_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            2005..2622
                     /locus_tag="KFV36_RS13320"
                     /old_locus_tag="KFV36_13330"
     CDS             2005..2622
                     /locus_tag="KFV36_RS13320"
                     /old_locus_tag="KFV36_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"
     gene            2939..3583
                     /locus_tag="KFV36_RS13325"
                     /old_locus_tag="KFV36_13335"
     CDS             2939..3583
                     /locus_tag="KFV36_RS13325"
                     /old_locus_tag="KFV36_13335"
                     /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            3862..4092
                     /locus_tag="KFV36_RS13330"
                     /old_locus_tag="KFV36_13340"
     CDS             3862..4092
                     /locus_tag="KFV36_RS13330"
                     /old_locus_tag="KFV36_13340"
                     /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            4216..5709
                     /locus_tag="KFV36_RS13335"
                     /old_locus_tag="KFV36_13345"
     CDS             4216..5709
                     /locus_tag="KFV36_RS13335"
                     /old_locus_tag="KFV36_13345"
                     /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"
ORIGIN
        1 gcatataaac gcatagatga cacagatatg tttaaaaatt gacttgcatt tttagtgctt
       61 aattcatttg gttgttgcat attttttaca cctaaagcct ttcatttagg catttatagg
      121 taaaaggcga caataataat attaagcctt taatgcctta atgatgggta ttaacgctac
      181 ctataacgcc atattattct cttattaaat agctatattc ctaattaaaa taatagcatg
      241 aatatgtgct gatacacacg cgaaacctca cttattgtgg tataatagat acagataaag
      301 ccttgatata aagctgttta taaggttttt tctattaatg gaaaagtgaa gaaaataaag
      361 aaaaacgaga aaagatatat tgaattaaat attaaattag ccataagggg caaagaaaca
      421 ataaacccct ataaaattca cttataagga ggtaacttat ggaaaaatta aaaagaggtg
      481 caaagcctaa agtagattat tggcttacct ctgaagggct gacgttatta caaggttggg
      541 caagaaaagg attaagcaat aaacaaattg ctcaaaatat gggcattcat caagctacat
      601 tttataaatg gcaaaataaa tatagcgaaa tttacgacac tataaaaaaa ggaaaagaag
      661 tcgtggatta tgaagtggaa aatacacttt taaaatgtgc attaggtttt gagtatgaag
      721 aaacaaaagt aaatagtgat ggtactacga taaagtatat aaaacacgtt aaacctaatg
      781 taacagctat aatattttgg ttgaagaacc gtaagcctaa tgaatggtta gaaggttatc
      841 aggacgatag taatattaat tataatattg atttttctga tgtaagcact gaggatttac
      901 gtaactgtat caatgaaaac gggggtactt ataatgagaa ttgaaacata tacagtcaat
      961 gaagtagccc agttgttaga tatgaatatt agaacagtta gaaaatacat aaaaattgga
     1021 gaaattaaag ccagtaaaat aggacgaaaa tatattatca cttcagataa tgttaaaaag
     1081 tttcttgaaa acaaagaact ataaaaggag gcataaaaat ggaaacagta gaaacaatta
     1141 aaaaagatat tgaggaatta aataagcgtg ctaaaaatac tattgatatt gataagaaaa
     1201 aagactatat acaaggtatt gaagatatta aaactaaata caaagataag tatacagatg
     1261 aagcgttagc agaaacgatc aatacatata aacaagataa attaaaagga atttacgata
     1321 cccttaataa atttgatgag caatcaaaag aactaggaaa aaatattgaa gaaagaatat
     1381 taaaactaga agaaagttca aaggcaacac tagaaccgaa aacacaatat gactttgaaa
     1441 gatataattt tttattcagc aaaattcaaa atgaaatgat gaatttgttt acagataaaa
     1501 ataataatag agagtggcaa ctagacgagc atataaaaca agctaagcat gattatttat
     1561 atgctaatgc tttattaaac aatgagggct tgctgattaa caatatacga aataataagt
     1621 acatctcaaa tgttgaacga gacaaactga aaacttatgt aaaaatgaat tttgaggcga
     1681 tcaaaaaaag caatgttcct aaagagtata aagaaataga agggttaaag aataaactta
     1741 gaaataataa atcagcttct agtaataaaa agatgatgtt tgattttatg attgggaaaa
     1801 ttagttaaat aagtgctgag ataacgattt ctgagcattg aaaaacattt aacaggggta
     1861 ttggtttaat ggttgcaaca tagagcttac acatttgacc cttgtagtaa ttttttgaag
     1921 ttataatttt ttgtattttg gatattaaca aacgtgcttt aacagataaa tcttaattaa
     1981 aaatgtagat tagcggagga aaaattgaaa aaaaatagag gttctaaaat aacgttggtt
     2041 atagtattta taatgttagg tattttaata tatttgtcct tttctaattt aggtagtgaa
     2101 gataatcata aaagtcatga gaatagcgat aaaaaaagga ctgatgtaaa aaagaataaa
     2161 aaacaaagta gcagtaaaga taaaaataaa agtcatgaga ataatgatag aagtttaaaa
     2221 aataataacg aagacacttc aaatagtcac gaatattacg atgatccaag cttagataaa
     2281 caagtatatg aagatattaa ggaatctatg acgctactaa atagtttaac tagtcaagat
     2341 attaaagagt ataaagttaa tactcaaata tataaccaag ataaaaaacc taatgtgatc
     2401 attaccgttg atttaaaagg taaagaagac tatagcaaca gtgaactaaa atatcgtaca
     2461 gaacacatat cttcaaactt tactggaaga aatgagatag agggcggatt taatggatat
     2521 tttgataaat tatatattaa atttaaagaa gatggaattg atgtaggtga agcaaaagtg
     2581 aaatttaatg attcgcttaa tcctgaagtt caaataaaat aataaataaa caaagaaatg
     2641 atatatattg tataaggtat acatttccac tacctataat acataattat gtaaactaaa
     2701 taacttccat aaacattgta ttgacgggat ctatagtgtt cgtagttact tgttcaatat
     2761 acataaaata tacaatcgca taaccacgct gtttatcgtg ttcggtatac acttataaaa
     2821 ttaatattta tacattttcg ggtaccgtca tgagtgatta caaccaccat aaaataatgt
     2881 gttaaaaatt gtaaagtttt atataattga tcttgtgaat aaaaaaggaa taatgaaaat
     2941 gaacatgaaa acaataaata aaattgtaag ttggtttttg tatatcggtc tgccattagt
     3001 cgttgtgggc ttatttatat ggcaattgga taatcttgaa aaattcttta aaaaatatcc
     3061 taatgctata gacggggcta cattagtgtt tgttttaata acaactactt tgagtattat
     3121 catttcctat aaatcataca aatcaaatat taagctattt aaagataata aaaatgaaca
     3181 aagttataag atacaacaat tgttaaaaac agaaacaaaa gattctatac aaaaactaat
     3241 aggtttcaag agtaattata aaaggacaca aataaatatt tttgatgaaa ttaaaaagct
     3301 agatttagaa aatgaattaa aaaacatggg aacaaagata aaagatatta gggaaaagaa
     3361 tatagaaagt ttaataccaa gagattttga aaagatacaa gatgatttag aactaataag
     3421 cgcgattgaa attcaagttg cttattataa tactttactt gaattaattg aaacacaaga
     3481 aaatattaga gattcattac cagaatcagc aaaagaacaa ataaagcaac atgaagaaac
     3541 acttatgtac gaaatagaca aacttatcga acgttttaaa tagttttagg attatttaat
     3601 agacaaaaag catctaacct taattggtca ggtgcttttt tgattgcaaa cattcaagaa
     3661 catataaacg agaatgataa gatgaatact tttgggcgtt atgtaatcat tgatagaaac
     3721 gacagtatct tatatgtatg tttaacaaat aagaacaaag catttatttt agagtaataa
     3781 aataagtacc acaaaaatgt tgttttatta ttataataaa tgtatcataa aaacatatta
     3841 tgtttaagga ggtgtagaac aatgccaaca gcaacaaaag aacataaaga agtaatggca
     3901 gagcgtaata ttgaaattcg tgatagatta ttaaagtttt ggcgtgagaa ttatgagcct
     3961 aagtttaaac ttatttcttc agagatagac gtaagttata ccaatatgcg tcgttacgtc
     4021 aacaaacatc ataatttcgg taaaaaaaac ttagataagc ttgagaaatt cttaattaaa
     4081 caaggttatt agaagcattc agataatata tttagcacag ttatataaaa atattatgct
     4141 tatgtacaaa agataacact atgtactatg tattgatatc tatcttatta ttatattttt
     4201 acaaaggagt atattatggc acaagataat tattattcac ttgtgcaggc tcttaagaag
     4261 tattttgtca gtagtaaaca gaaacatatt gaacaacgag aagatggctc ttatagacat
     4321 atacctaatg gtttatgtga taatgattta gttagtcata ttaaagggat taaaaccgta
     4381 ggtatattta gtggagaagt atttactaag tttttatgtt ttgatgtaga tacaggtaaa
     4441 tctaataaag cacaggctcg taatgatgtg ttaaacctaa gactatcttt aataactgat
     4501 tttggactat ctgataacaa ccttgaagta gttgatagtg ggaataaagg ttatcatgtt
     4561 tatttatttt ttgacgatct tatacatgtt agttatttaa aagcatttta tcgtgaagtt
     4621 ttggaaagaa ataactataa accttctgat attgaattta gacctacaca tacacaaggt
     4681 gttaaattac ctttaggtat tcatagagtg acaggaaagc aatgttattt tgttgatcct
     4741 tctacaccta aattcaaaag aaaaccttta gaaactattc ataatattaa acagataaat
     4801 acaaaattat ttaaagagaa gttacaactt aaggacttgt acgagttaca aattgaagat
     4861 tatacatatg agctatgtaa gtttatgaaa gaagatgagg ctaagttact caatggcgta
     4921 ttaaattcat tagattttag tacctatgaa gttactcatg ctaaagaaaa cattattgaa
     4981 atgttagaga ctaatactct tgtttatcct gatagtagaa acaaatatac attgttgatt
     5041 gctatatatt taaagggtca aggttatgat gttgaagata cgatagcaaa aatcaatgaa
     5101 attatgtttt atagtaaaag acagcataaa gatttaatac aatcatctga gaaacatatt
     5161 atgaatgaaa caaaaaaaat tgctaaatat gtatatagaa ctaatatcac gttaggtggt
     5221 ataaatagag atgtttattt atatgctgat gaacttaaag atgtattagc tttgagaaag
     5281 acacatttaa tgaaactcta tacatcaatg ttgatacatg ctaaaaggca tcaaccatta
     5341 ggcgaaaaaa cgttctatat ggcctactca gttatgatta attacggtaa caatagcaat
     5401 agaagtaagc taaagcgata ccttgaggaa ctacaacagc taaatagaat tagcattgaa
     5461 gaaaaccatg taattgatcc agttatgagt gagataaaag gtcacttatt tagtaaaacc
     5521 aacgtttata gcataaaaaa aagctttaac caaaactccc atcacaaagt tttaattaaa
     5581 gcagacgaaa aaaccgtcag tactactgat atacttataa gagcttatca gaataatgtt
     5641 ataaactatg aatatattaa agacaatctt actagacgac agtttgagaa attcaaacaa
     5701 gctctttagt gagtttgtct ttttttaatt gaatttacaa tttaaagtat aaatgaaaga
     5761 acatatacat gcaataataa aagcatagca gtaacttatc ttttttattt atcttcaatt
     5821 caaattataa cataatttag agagccatat tcagcaatta tatagtttta gttataaaaa
     5881 ccattcataa aatttaaatg ctctatatag ctctttaaat gcctttatat ttaattccac
     5941 tttattagcg ttcttttttc cattttctta attcccacaa gcttttactt tttagcttat
     6001 tcatttcttc atgaagtctt ttattttctt cttttaactt cttattttca tcaagcaaag
     6061 cattatattt atcatttaac gtttggtaat cagctttaat atattttatt tcacttgatt
     6121 gtgcttggct atttttaata gttttactta attcattgta ctgttttact aattctgttt
     6181 ttagattatt actaacttca ttgatcatat tagtttgtaa tgcttctaat tcatcagaga
     6241 cttttctatt tttctttgta gtttgtggca tagcgtcagc aatttcttgc ccttgttcat
     6301 atttaacaat cgtatagtgt agtgattgtt tcattgttcc tccaacaagt ttaaaacgtt
     6361 ccattgcctc ataaataatt tgcaaatcgt atttagtgaa acgacgtgca ttttctactg
     6421 ttttaaattc atagcctaag ctctccatag tttta
//
