LOCUS       NZ_CP073888             6450 bp    DNA     circular CON 16-APR-2024
DEFINITION  Staphylococcus epidermidis strain V1933625 plasmid p2V1933625,
            complete sequence.
ACCESSION   NZ_CP073888
VERSION     NZ_CP073888.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699895
            Assembly: GCF_019330125.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 6450)
  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 6450)
  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                   :: 314x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019330125.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 08:04:02
            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)                     :: 2,688
            CDSs (total)                      :: 2,607
            Genes (coding)                    :: 2,528
            CDSs (with protein)               :: 2,528
            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)              :: 79
            CDSs (without protein)            :: 79
            Pseudo Genes (ambiguous residues) :: 0 of 79
            Pseudo Genes (frameshifted)       :: 42 of 79
            Pseudo Genes (incomplete)         :: 43 of 79
            Pseudo Genes (internal stop)      :: 27 of 79
            Pseudo Genes (multiple problems)  :: 24 of 79
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073888.1.
            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..6450
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="V1933625"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2V1933625"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6201..6450,1..236))
                     /locus_tag="KFV30_RS13285"
                     /old_locus_tag="KFV30_13295"
     CDS             complement(join(6201..6450,1..236))
                     /locus_tag="KFV30_RS13285"
                     /old_locus_tag="KFV30_13295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003677567.1"
                     /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            646..1200
                     /locus_tag="KFV30_RS13290"
                     /old_locus_tag="KFV30_13300"
     CDS             646..1200
                     /locus_tag="KFV30_RS13290"
                     /old_locus_tag="KFV30_13300"
                     /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_219051748.1"
                     /translation="MQFLNISVSSMRLYAKTMESLGYEFKTVENARRFTKYDLQIIYEA
                     MERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELEALQTNMINEVSN
                     NLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDENKKLKEENKRLH
                     EEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            complement(1436..2929)
                     /locus_tag="KFV30_RS13295"
                     /old_locus_tag="KFV30_13305"
     CDS             complement(1436..2929)
                     /locus_tag="KFV30_RS13295"
                     /old_locus_tag="KFV30_13305"
                     /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(3053..3283)
                     /locus_tag="KFV30_RS13300"
                     /old_locus_tag="KFV30_13310"
     CDS             complement(3053..3283)
                     /locus_tag="KFV30_RS13300"
                     /old_locus_tag="KFV30_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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            complement(3562..4206)
                     /locus_tag="KFV30_RS13305"
                     /old_locus_tag="KFV30_13315"
     CDS             complement(3562..4206)
                     /locus_tag="KFV30_RS13305"
                     /old_locus_tag="KFV30_13315"
                     /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(4523..5140)
                     /locus_tag="KFV30_RS13310"
                     /old_locus_tag="KFV30_13320"
     CDS             complement(4523..5140)
                     /locus_tag="KFV30_RS13310"
                     /old_locus_tag="KFV30_13320"
                     /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(5337..6026)
                     /locus_tag="KFV30_RS13315"
                     /old_locus_tag="KFV30_13325"
     CDS             complement(5337..6026)
                     /locus_tag="KFV30_RS13315"
                     /old_locus_tag="KFV30_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            complement(6041..6211)
                     /locus_tag="KFV30_RS13320"
                     /old_locus_tag="KFV30_13330"
     CDS             complement(6041..6211)
                     /locus_tag="KFV30_RS13320"
                     /old_locus_tag="KFV30_13330"
                     /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 tttaaaagtg tattttccac ttcataatcc acgacttctt ttcctttttt tatagtgtcg
       61 taaatttcgc tatatttatt ttgccattta taaaatgtag cttgatgaat gcccatattt
      121 tgagcaattt gtttattgct taatcctttt cttgcccaac cttgtaataa cgtcagccct
      181 tcagaggtaa gccaataatc tactttaggc tttgcacctc tttttaattt ttccataagt
      241 tacctcctta taagtgaatt ttataggggt ttattgtttc tttgcccctt atggctaatt
      301 taatatttaa ttcaatatat cttttctcgt ttttctttat tttcttcact tttccattaa
      361 tagaaaaaac cttataaaca gctttatatc aaggctttat ctgtatctat tataccacaa
      421 taagtgaggt ttcgcgtgtg tatcagcaca tattcatgct attattttaa ttaggaatat
      481 agctatttaa taagagaata atatggcgtt ataggtagcg ttaataccca tcattaaggc
      541 attaaaggct taatattatt attgtcgcct tttacctata aatgcctaaa tgaaaggctt
      601 taggtgtaaa aaatatgcaa caaccaaatg aattaagcac taaaaatgca atttttaaac
      661 atatctgtgt catctatgcg tttatatgct aaaactatgg agagcttagg ctatgaattt
      721 aaaacagtag aaaatgcacg tcgtttcact aaatacgatt tgcaaattat ttatgaggca
      781 atggaacgtt ttaaacttgt tggaggaaca atgaaacaat cactacacta tacgattgtt
      841 aaatatgaac aagggcaaga aattgctgac gctatgccac aaactacaaa gaaaaataga
      901 aaagtctctg atgaattaga agcattacaa actaatatga tcaatgaagt tagtaataat
      961 ctaaaaacag aattagtaaa acagtacaat gaattaagta aaactattaa aaatagccaa
     1021 gcacaatcaa gtgaaataaa atatattaaa gctgattacc aaacgttaaa tgataaatat
     1081 aatgctttgc ttgatgaaaa taagaagtta aaagaagaaa ataaaagact tcatgaagaa
     1141 atgaataagc taaaaagtaa aagcttgtgg gaattaagaa aatggaaaaa agaacgctaa
     1201 taaagtggaa ttaaatataa aggcatttaa agagctatat agagcattta aattttatga
     1261 atggttttta taactaaaac tatataattg ctgaatatgg ctctctaaat tatgttataa
     1321 tttgaattga agataaataa aaaagataag ttactgctat gcttttatta ttgcatgtat
     1381 atgttctttc atttatactt taaattgtaa attcaattaa aaaaagacaa actcactaaa
     1441 gagcttgttt gaatttctca aactgtcgtc tagtaagatt gtctttaata tattcatagt
     1501 ttataacatt attctgataa gctcttataa gtatatcagt agtactgacg gttttttcgt
     1561 ctgctttaat taaaactttg tgatgggagt tttggttaaa gctttttttt atgctataaa
     1621 cgttggtttt actaaataag tgacctttta tctcactcat aactggatca attacatggt
     1681 tttcttcaat gctaattcta tttagctgtt gtagttcctc aaggtatcgc tttagcttac
     1741 ttctattgct attgttaccg taattaatca taactgagta ggccatatag aacgtttttt
     1801 cgcctaatgg ttgatgcctt ttagcatgta tcaacattga tgtatagagt ttcattaaat
     1861 gtgtctttct caaagctaat acatctttaa gttcatcagc atataaataa acatctctat
     1921 ttataccacc taacgtgata ttagttctat atacatattt agcaattttt tttgtttcat
     1981 tcataatatg tttctcagat gattgtatta aatctttatg ctgtctttta ctataaaaca
     2041 taatttcatt gatttttgct atcgtatctt caacatcata accttgaccc tttaaatata
     2101 tagcaatcaa caatgtatat ttgtttctac tatcaggata aacaagagta ttagtctcta
     2161 acatttcaat aatgttttct ttagcatgag taacttcata ggtactaaaa tctaatgaat
     2221 ttaatacgcc attgagtaac ttagcctcat cttctttcat aaacttacat agctcatatg
     2281 tataatcttc aatttgtaac tcgtacaagt ccttaagttg taacttctct ttaaataatt
     2341 ttgtatttat ctgtttaata ttatgaatag tttctaaagg ttttcttttg aatttaggtg
     2401 tagaaggatc aacaaaataa cattgctttc ctgtcactct atgaatacct aaaggtaatt
     2461 taacaccttg tgtatgtgta ggtctaaatt caatatcaga aggtttatag ttatttcttt
     2521 ccaaaacttc acgataaaat gcttttaaat aactaacatg tataagatcg tcaaaaaata
     2581 aataaacatg ataaccttta ttcccactat caactacttc aaggttgtta tcagatagtc
     2641 caaaatcagt tattaaagat agtcttaggt ttaacacatc attacgagcc tgtgctttat
     2701 tagatttacc tgtatctaca tcaaaacata aaaacttagt aaatacttct ccactaaata
     2761 tacctacggt tttaatccct ttaatatgac taactaaatc attatcacat aaaccattag
     2821 gtatatgtct ataagagcca tcttctcgtt gttcaatatg tttctgttta ctactgacaa
     2881 aatacttctt aagagcctgc acaagtgaat aataattatc ttgtgccata atatactcct
     2941 ttgtaaaaat ataataataa gatagatatc aatacatagt acatagtgtt atcttttgta
     3001 cataagcata atatttttat ataactgtgc taaatatatt atctgaatgc ttctaataac
     3061 cttgtttaat taagaatttc tcaagcttat ctaagttttt tttaccgaaa ttatgatgtt
     3121 tgttgacgta acgacgcata ttggtataac ttacgtctat ctctgaagaa ataagtttaa
     3181 acttaggctc ataattctca cgccaaaact ttaataatct atcacgaatt tcaatattac
     3241 gctctgccat tacttcttta tgttcttttg ttgctgttgg cattgttcta cacctcctta
     3301 aacataatat gtttttatga tacatttatt ataataataa aacaacattt ttgtggtact
     3361 tattttatta ctctaaaata aatgctttgt tcttatttgt taaacataca tataagatac
     3421 tgtcgtttct atcaatgatt acataacgcc caaaagtatt catcttatca ttctcgttta
     3481 tatgttcttg aatgtttgca atcaaaaaag cacctgacca attaaggtta gatgcttttt
     3541 gtctattaaa taatcctaaa actatttaaa acgttcgata agtttgtcta tttcgtacat
     3601 aagtgtttct tcatgttgct ttatttgttc ttttgctgat tctggtaatg aatctctaat
     3661 attttcttgt gtttcaatta attcaagtaa agtattataa taagcaactt gaatttcaat
     3721 cgcgcttatt agttctaaat catcttgtat cttttcaaaa tctcttggta ttaaactttc
     3781 tatattcttt tccctaatat cttttatctt tgttcccatg ttttttaatt cattttctaa
     3841 atctagcttt ttaatttcat caaaaatatt tatttgtgtc cttttataat tactcttgaa
     3901 acctattagt ttttgtatag aatcttttgt ttctgttttt aacaattgtt gtatcttata
     3961 actttgttca tttttattat ctttaaatag cttaatattt gatttgtatg atttatagga
     4021 aatgataata ctcaaagtag ttgttattaa aacaaacact aatgtagccc cgtctatagc
     4081 attaggatat tttttaaaga atttttcaag attatccaat tgccatataa ataagcccac
     4141 aacgactaat ggcagaccga tatacaaaaa ccaacttaca attttattta ttgttttcat
     4201 gttcattttc attattcctt ttttattcac aagatcaatt atataaaact ttacaatttt
     4261 taacacatta ttttatggtg gttgtaatca ctcatgacgg tacccgaaaa tgtataaata
     4321 ttaattttat aagtgtatac cgaacacgat aaacagcgtg gttatgcgat tgtatatttt
     4381 atgtatattg aacaagtaac tacgaacact atagatcccg tcaatacaat gtttatggaa
     4441 gttatttagt ttacataatt atgtattata ggtagtggaa atgtatacct tatacaatat
     4501 atatcatttc tttgtttatt tattatttta tttgaacttc aggattaagc gaatcattaa
     4561 atttcacttt tgcttcacct acatcaattc catcttcttt aaatttaata tataatttat
     4621 caaaatatcc attaaatccg ccctctatct catttcttcc agtaaagttt gaagatatgt
     4681 gttctgtacg atattttagt tcactgttgc tatagtcttc tttacctttt aaatcaacgg
     4741 taatgatcac attaggtttt ttatcttggt tatatatttg agtattaact ttatactctt
     4801 taatatcttg actagttaaa ctatttagta gcgtcataga ttccttaata tcttcatata
     4861 cttgtttatc taagcttgga tcatcgtaat attcgtgact atttgaagtg tcttcgttat
     4921 tattttttaa acttctatca ttattctcat gacttttatt tttatcttta ctgctacttt
     4981 gttttttatt cttttttaca tcagtccttt ttttatcgct attctcatga cttttatgat
     5041 tatcttcact acctaaatta gaaaaggaca aatatattaa aatacctaac attataaata
     5101 ctataaccaa cgttatttta gaacctctat tttttttcaa tttttcctcc gctaatctac
     5161 atttttaatt aagatttatc tgttaaagca cgtttgttaa tatccaaaat acaaaaaatt
     5221 ataacttcaa aaaattacta caagggtcaa atgtgtaagc tctatgttgc aaccattaaa
     5281 ccaatacccc tgttaaatgt ttttcaatgc tcagaaatcg ttatctcagc acttatttaa
     5341 ctaattttcc caatcataaa atcaaacatc atctttttat tactagaagc tgatttatta
     5401 tttctaagtt tattctttaa cccttctatt tctttatact ctttaggaac attgcttttt
     5461 ttgatcgcct caaaattcat ttttacataa gttttcagtt tgtctcgttc aacatttgag
     5521 atgtacttat tatttcgtat attgttaatc agcaagccct cattgtttaa taaagcatta
     5581 gcatataaat aatcatgctt agcttgtttt atatgctcgt ctagttgcca ctctctatta
     5641 ttatttttat ctgtaaacaa attcatcatt tcattttgaa ttttgctgaa taaaaaatta
     5701 tatctttcaa agtcatattg tgttttcggt tctagtgttg cctttgaact ttcttctagt
     5761 tttaatattc tttcttcaat attttttcct agttcttttg attgctcatc aaatttatta
     5821 agggtatcgt aaattccttt taatttatct tgtttatatg tattgatcgt ttctgctaac
     5881 gcttcatctg tatacttatc tttgtattta gttttaatat cttcaatacc ttgtatatag
     5941 tcttttttct tatcaatatc aatagtattt ttagcacgct tatttaattc ctcaatatct
     6001 tttttaattg tttctactgt ttccattttt atgcctcctt ttatagttct ttgttttcaa
     6061 gaaacttttt aacattatct gaagtgataa tatattttcg tcctatttta ctggctttaa
     6121 tttctccaat ttttatgtat tttctaactg ttctaatatt catatctaac aactgggcta
     6181 cttcattgac tgtatatgtt tcaattctca ttataagtac ccccgttttc attgatacag
     6241 ttacgtaaat cctcagtgct tacatcagaa aaatcaatat tataattaat attactatcg
     6301 tcctgataac cttctaacca ttcattaggc ttacggttct tcaaccaaaa tattatagct
     6361 gttacattag gtttaacgtg ttttatatac tttatcgtag taccatcact atttactttt
     6421 gtttcttcat actcaaaacc taatgcacat
//
