LOCUS       NZ_CP073823             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1200343 plasmid p2B1200343,
            complete sequence.
ACCESSION   NZ_CP073823
VERSION     NZ_CP073823.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699871
            Assembly: GCF_019329325.1
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                   :: 467x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329325.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:56:55
            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)                     :: 2,689
            CDSs (total)                      :: 2,608
            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)              :: 83
            CDSs (without protein)            :: 83
            Pseudo Genes (ambiguous residues) :: 0 of 83
            Pseudo Genes (frameshifted)       :: 44 of 83
            Pseudo Genes (incomplete)         :: 44 of 83
            Pseudo Genes (internal stop)      :: 28 of 83
            Pseudo Genes (multiple problems)  :: 24 of 83
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073823.1.
            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="B1200343"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1200343"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6193..6455,1..328))
                     /locus_tag="KFV43_RS13290"
                     /old_locus_tag="KFV43_13300"
     CDS             complement(join(6193..6455,1..328))
                     /locus_tag="KFV43_RS13290"
                     /old_locus_tag="KFV43_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_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            707..1192
                     /locus_tag="KFV43_RS13295"
                     /old_locus_tag="KFV43_13305"
     CDS             707..1192
                     /locus_tag="KFV43_RS13295"
                     /old_locus_tag="KFV43_13305"
                     /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            1182..1352
                     /locus_tag="KFV43_RS13300"
                     /old_locus_tag="KFV43_13310"
     CDS             1182..1352
                     /locus_tag="KFV43_RS13300"
                     /old_locus_tag="KFV43_13310"
                     /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            1367..2056
                     /locus_tag="KFV43_RS13305"
                     /old_locus_tag="KFV43_13315"
     CDS             1367..2056
                     /locus_tag="KFV43_RS13305"
                     /old_locus_tag="KFV43_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            2253..2870
                     /locus_tag="KFV43_RS13310"
                     /old_locus_tag="KFV43_13320"
     CDS             2253..2870
                     /locus_tag="KFV43_RS13310"
                     /old_locus_tag="KFV43_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            3187..3831
                     /locus_tag="KFV43_RS13315"
                     /old_locus_tag="KFV43_13325"
     CDS             3187..3831
                     /locus_tag="KFV43_RS13315"
                     /old_locus_tag="KFV43_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_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
     gene            4110..4340
                     /locus_tag="KFV43_RS13320"
                     /old_locus_tag="KFV43_13330"
     CDS             4110..4340
                     /locus_tag="KFV43_RS13320"
                     /old_locus_tag="KFV43_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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            4464..5957
                     /locus_tag="KFV43_RS13325"
                     /old_locus_tag="KFV43_13335"
     CDS             4464..5957
                     /locus_tag="KFV43_RS13325"
                     /old_locus_tag="KFV43_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_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
ORIGIN
        1 tattagtttg taatgcttct aattcatcag agacttttct atttttcttt gtagtttgtg
       61 gcatagcgtc agcaatttct tgcccttgtt catatttaac aatcgtatag tgtagtgatt
      121 gtttcattgt tcctccaaca agtttaaaac gttccattgc ctcataaata atttgcaaat
      181 cgtatttagt gaaacgacgt gcattttcta ctgttttaaa ttcatagcct aagctctcca
      241 tagttttagc atataaacgc atagatgaca cagatatgtt taaaaattga cttgcatttt
      301 tagtgcttaa ttcatttggt tgttgcatat tttttacacc taaagccttt catttaggca
      361 tttataggta aaaggcgaca ataataatat taagccttta atgccttaat gatgggtatt
      421 aacgctacct ataacgccat attattctct tattaaatag ctatattcct aattaaaata
      481 atagcatgaa tatgtgctga tacacacgcg aaacctcact tattgtggta taatagatac
      541 agataaagcc ttgatataaa gctgtttata aggttttttc tattaatgga aaagtgaaga
      601 aaataaagaa aaacgagaaa agatatattg aattaaatat taaattagcc ataaggggca
      661 aagaaacaat aaacccctat aaaattcact tataaggagg taacttatgg aaaaattaaa
      721 aagaggtgca aagcctaaag tagattattg gcttacctct gaagggctga cgttattaca
      781 aggttgggca agaaaaggat taagcaataa acaaattgct caaaatatgg gcattcatca
      841 agctacattt tataaatggc aaaataaata tagcgaaatt tacgacacta taaaaaaagg
      901 aaaagaagtc gtggattatg aagtggaaaa tacactttta aaatgtgcat taggttttga
      961 gtatgaagaa acaaaagtaa atagtgatgg tactacgata aagtatataa aacacgttaa
     1021 acctaatgta acagctataa tattttggtt gaagaaccgt aagcctaatg aatggttaga
     1081 aggttatcag gacgatagta atattaatta taatattgat ttttctgatg taagcactga
     1141 ggatttacgt aactgtatca atgaaaacgg gggtacttat aatgagaatt gaaacatata
     1201 cagtcaatga agtagcccag ttgttagata tgaatattag aacagttaga aaatacataa
     1261 aaattggaga aattaaagcc agtaaaatag gacgaaaata tattatcact tcagataatg
     1321 ttaaaaagtt tcttgaaaac aaagaactat aaaaggaggc ataaaaatgg aaacagtaga
     1381 aacaattaaa aaagatattg aggaattaaa taagcgtgct aaaaatacta ttgatattga
     1441 taagaaaaaa gactatatac aaggtattga agatattaaa actaaataca aagataagta
     1501 tacagatgaa gcgttagcag aaacgatcaa tacatataaa caagataaat taaaaggaat
     1561 ttacgatacc cttaataaat ttgatgagca atcaaaagaa ctaggaaaaa atattgaaga
     1621 aagaatatta aaactagaag aaagttcaaa ggcaacacta gaaccgaaaa cacaatatga
     1681 ctttgaaaga tataattttt tattcagcaa aattcaaaat gaaatgatga atttgtttac
     1741 agataaaaat aataatagag agtggcaact agacgagcat ataaaacaag ctaagcatga
     1801 ttatttatat gctaatgctt tattaaacaa tgagggcttg ctgattaaca atatacgaaa
     1861 taataagtac atctcaaatg ttgaacgaga caaactgaaa acttatgtaa aaatgaattt
     1921 tgaggcgatc aaaaaaagca atgttcctaa agagtataaa gaaatagaag ggttaaagaa
     1981 taaacttaga aataataaat cagcttctag taataaaaag atgatgtttg attttatgat
     2041 tgggaaaatt agttaaataa gtgctgagat aacgatttct gagcattgaa aaacatttaa
     2101 caggggtatt ggtttaatgg ttgcaacata gagcttacac atttgaccct tgtagtaatt
     2161 ttttgaagtt ataatttttt gtattttgga tattaacaaa cgtgctttaa cagataaatc
     2221 ttaattaaaa atgtagatta gcggaggaaa aattgaaaaa aaatagaggt tctaaaataa
     2281 cgttggttat agtatttata atgttaggta ttttaatata tttgtccttt tctaatttag
     2341 gtagtgaaga taatcataaa agtcatgaga atagcgataa aaaaaggact gatgtaaaaa
     2401 agaataaaaa acaaagtagc agtaaagata aaaataaaag tcatgagaat aatgatagaa
     2461 gtttaaaaaa taataacgaa gacacttcaa atagtcacga atattacgat gatccaagct
     2521 tagataaaca agtatatgaa gatattaagg aatctatgac gctactaaat agtttaacta
     2581 gtcaagatat taaagagtat aaagttaata ctcaaatata taaccaagat aaaaaaccta
     2641 atgtgatcat taccgttgat ttaaaaggta aagaagacta tagcaacagt gaactaaaat
     2701 atcgtacaga acacatatct tcaaacttta ctggaagaaa tgagatagag ggcggattta
     2761 atggatattt tgataaatta tatattaaat ttaaagaaga tggaattgat gtaggtgaag
     2821 caaaagtgaa atttaatgat tcgcttaatc ctgaagttca aataaaataa taaataaaca
     2881 aagaaatgat atatattgta taaggtatac atttccacta cctataatac ataattatgt
     2941 aaactaaata acttccataa acattgtatt gacgggatct atagtgttcg tagttacttg
     3001 ttcaatatac ataaaatata caatcgcata accacgctgt ttatcgtgtt cggtatacac
     3061 ttataaaatt aatatttata cattttcggg taccgtcatg agtgattaca accaccataa
     3121 aataatgtgt taaaaattgt aaagttttat ataattgatc ttgtgaataa aaaaggaata
     3181 atgaaaatga acatgaaaac aataaataaa attgtaagtt ggtttttgta tatcggtctg
     3241 ccattagtcg ttgtgggctt atttatatgg caattggata atcttgaaaa attctttaaa
     3301 aaatatccta atgctataga cggggctaca ttagtgtttg ttttaataac aactactttg
     3361 agtattatca tttcctataa atcatacaaa tcaaatatta agctatttaa agataataaa
     3421 aatgaacaaa gttataagat acaacaattg ttaaaaacag aaacaaaaga ttctatacaa
     3481 aaactaatag gtttcaagag taattataaa aggacacaaa taaatatttt tgatgaaatt
     3541 aaaaagctag atttagaaaa tgaattaaaa aacatgggaa caaagataaa agatattagg
     3601 gaaaagaata tagaaagttt aataccaaga gattttgaaa agatacaaga tgatttagaa
     3661 ctaataagcg cgattgaaat tcaagttgct tattataata ctttacttga attaattgaa
     3721 acacaagaaa atattagaga ttcattacca gaatcagcaa aagaacaaat aaagcaacat
     3781 gaagaaacac ttatgtacga aatagacaaa cttatcgaac gttttaaata gttttaggat
     3841 tatttaatag acaaaaagca tctaacctta attggtcagg tgcttttttg attgcaaaca
     3901 ttcaagaaca tataaacgag aatgataaga tgaatacttt tgggcgttat gtaatcattg
     3961 atagaaacga cagtatctta tatgtatgtt taacaaataa gaacaaagca tttattttag
     4021 agtaataaaa taagtaccac aaaaatgttg ttttattatt ataataaatg tatcataaaa
     4081 acatattatg tttaaggagg tgtagaacaa tgccaacagc aacaaaagaa cataaagaag
     4141 taatggcaga gcgtaatatt gaaattcgtg atagattatt aaagttttgg cgtgagaatt
     4201 atgagcctaa gtttaaactt atttcttcag agatagacgt aagttatacc aatatgcgtc
     4261 gttacgtcaa caaacatcat aatttcggta aaaaaaactt agataagctt gagaaattct
     4321 taattaaaca aggttattag aagcattcag ataatatatt tagcacagtt atataaaaat
     4381 attatgctta tgtacaaaag ataacactat gtactatgta ttgatatcta tcttattatt
     4441 atatttttac aaaggagtat attatggcac aagataatta ttattcactt gtgcaggctc
     4501 ttaagaagta ttttgtcagt agtaaacaga aacatattga acaacgagaa gatggctctt
     4561 atagacatat acctaatggt ttatgtgata atgatttagt tagtcatatt aaagggatta
     4621 aaaccgtagg tatatttagt ggagaagtat ttactaagtt tttatgtttt gatgtagata
     4681 caggtaaatc taataaagca caggctcgta atgatgtgtt aaacctaaga ctatctttaa
     4741 taactgattt tggactatct gataacaacc ttgaagtagt tgatagtggg aataaaggtt
     4801 atcatgttta tttatttttt gacgatctta tacatgttag ttatttaaaa gcattttatc
     4861 gtgaagtttt ggaaagaaat aactataaac cttctgatat tgaatttaga cctacacata
     4921 cacaaggtgt taaattacct ttaggtattc atagagtgac aggaaagcaa tgttattttg
     4981 ttgatccttc tacacctaaa ttcaaaagaa aacctttaga aactattcat aatattaaac
     5041 agataaatac aaaattattt aaagagaagt tacaacttaa ggacttgtac gagttacaaa
     5101 ttgaagatta tacatatgag ctatgtaagt ttatgaaaga agatgaggct aagttactca
     5161 atggcgtatt aaattcatta gattttagta cctatgaagt tactcatgct aaagaaaaca
     5221 ttattgaaat gttagagact aatactcttg tttatcctga tagtagaaac aaatatacat
     5281 tgttgattgc tatatattta aagggtcaag gttatgatgt tgaagatacg atagcaaaaa
     5341 tcaatgaaat tatgttttat agtaaaagac agcataaaga tttaatacaa tcatctgaga
     5401 aacatattat gaatgaaaca aaaaaaattg ctaaatatgt atatagaact aatatcacgt
     5461 taggtggtat aaatagagat gtttatttat atgctgatga acttaaagat gtattagctt
     5521 tgagaaagac acatttaatg aaactctata catcaatgtt gatacatgct aaaaggcatc
     5581 aaccattagg cgaaaaaacg ttctatatgg cctactcagt tatgattaat tacggtaaca
     5641 atagcaatag aagtaagcta aagcgatacc ttgaggaact acaacagcta aatagaatta
     5701 gcattgaaga aaaccatgta attgatccag ttatgagtga gataaaaggt cacttattta
     5761 gtaaaaccaa cgtttatagc ataaaaaaaa gctttaacca aaactcccat cacaaagttt
     5821 taattaaagc agacgaaaaa accgtcagta ctactgatat acttataaga gcttatcaga
     5881 ataatgttat aaactatgaa tatattaaag acaatcttac tagacgacag tttgagaaat
     5941 tcaaacaagc tctttagtga gtttgtcttt ttttaattga atttacaatt taaagtataa
     6001 atgaaagaac atatacatgc aataataaaa gcatagcagt aacttatctt ttttatttat
     6061 cttcaattca aattataaca taatttagag agccatattc agcaattata tagttttagt
     6121 tataaaaacc attcataaaa tttaaatgct ctatatagct ctttaaatgc ctttatattt
     6181 aattccactt tattagcgtt cttttttcca ttttcttaat tcccacaagc ttttactttt
     6241 tagcttattc atttcttcat gaagtctttt attttcttct tttaacttct tattttcatc
     6301 aagcaaagca ttatatttat catttaacgt ttggtaatca gctttaatat attttatttc
     6361 acttgattgt gcttggctat ttttaatagt tttacttaat tcattgtact gttttactaa
     6421 ttctgttttt agattattac taacttcatt gatca
//
