LOCUS       NZ_CP073832             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1220165 plasmid p2B1220165,
            complete sequence.
ACCESSION   NZ_CP073832
VERSION     NZ_CP073832.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699874
            Assembly: GCF_019329405.1
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                   :: 175x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329405.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:59:21
            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)                    :: 2,515
            CDSs (with protein)               :: 2,515
            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)       :: 43 of 83
            Pseudo Genes (incomplete)         :: 45 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
            CP073832.1.
            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="B1220165"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1220165"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6069..6455,1..99))
                     /locus_tag="KFV27_RS13265"
                     /old_locus_tag="KFV27_13275"
     CDS             complement(join(6069..6455,1..99))
                     /locus_tag="KFV27_RS13265"
                     /old_locus_tag="KFV27_13275"
                     /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            478..1068
                     /locus_tag="KFV27_RS13270"
                     /old_locus_tag="KFV27_13280"
     CDS             478..1068
                     /locus_tag="KFV27_RS13270"
                     /old_locus_tag="KFV27_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_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            complement(1304..2797)
                     /locus_tag="KFV27_RS13275"
                     /old_locus_tag="KFV27_13285"
     CDS             complement(1304..2797)
                     /locus_tag="KFV27_RS13275"
                     /old_locus_tag="KFV27_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_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
     gene            complement(2921..3151)
                     /locus_tag="KFV27_RS13280"
                     /old_locus_tag="KFV27_13290"
     CDS             complement(2921..3151)
                     /locus_tag="KFV27_RS13280"
                     /old_locus_tag="KFV27_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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            complement(3430..4074)
                     /locus_tag="KFV27_RS13285"
                     /old_locus_tag="KFV27_13295"
     CDS             complement(3430..4074)
                     /locus_tag="KFV27_RS13285"
                     /old_locus_tag="KFV27_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_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
     gene            complement(4391..5008)
                     /locus_tag="KFV27_RS13290"
                     /old_locus_tag="KFV27_13300"
     CDS             complement(4391..5008)
                     /locus_tag="KFV27_RS13290"
                     /old_locus_tag="KFV27_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_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            complement(5205..5894)
                     /locus_tag="KFV27_RS13295"
                     /old_locus_tag="KFV27_13305"
     CDS             complement(5205..5894)
                     /locus_tag="KFV27_RS13295"
                     /old_locus_tag="KFV27_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            complement(5909..6079)
                     /locus_tag="KFV27_RS13300"
                     /old_locus_tag="KFV27_13310"
     CDS             complement(5909..6079)
                     /locus_tag="KFV27_RS13300"
                     /old_locus_tag="KFV27_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"
ORIGIN
        1 gcttaatcct tttcttgccc aaccttgtaa taacgtcagc ccttcagagg taagccaata
       61 atctacttta ggctttgcac ctctttttaa tttttccata agttacctcc ttataagtga
      121 attttatagg ggtttattgt ttctttgccc cttatggcta atttaatatt taattcaata
      181 tatcttttct cgtttttctt tattttcttc acttttccat taatagaaaa aaccttataa
      241 acagctttat atcaaggctt tatctgtatc tattatacca caataagtga ggtttcgcgt
      301 gtgtatcagc acatattcat gctattattt taattaggaa tatagctatt taataagaga
      361 ataatatggc gttataggta gcgttaatac ccatcattaa ggcattaaag gcttaatatt
      421 attattgtcg ccttttacct ataaatgcct aaatgaaagg ctttaggtgt aaaaaatatg
      481 caacaaccaa atgaattaag cactaaaaat gcaagtcaat ttttaaacat atctgtgtca
      541 tctatgcgtt tatatgctaa aactatggag agcttaggct atgaatttaa aacagtagaa
      601 aatgcacgtc gtttcactaa atacgatttg caaattattt atgaggcaat ggaacgtttt
      661 aaacttgttg gaggaacaat gaaacaatca ctacactata cgattgttaa atatgaacaa
      721 gggcaagaaa ttgctgacgc tatgccacaa actacaaaga aaaatagaaa agtctctgat
      781 gaattagaag cattacaaac taatatgatc aatgaagtta gtaataatct aaaaacagaa
      841 ttagtaaaac agtacaatga attaagtaaa actattaaaa atagccaagc acaatcaagt
      901 gaaataaaat atattaaagc tgattaccaa acgttaaatg ataaatataa tgctttgctt
      961 gatgaaaata agaagttaaa agaagaaaat aaaagacttc atgaagaaat gaataagcta
     1021 aaaagtaaaa gcttgtggga attaagaaaa tggaaaaaag aacgctaata aagtggaatt
     1081 aaatataaag gcatttaaag agctatatag agcatttaaa ttttatgaat ggtttttata
     1141 actaaaacta tataattgct gaatatggct ctctaaatta tgttataatt tgaattgaag
     1201 ataaataaaa aagataagtt actgctatgc ttttattatt gcatgtatat gttctttcat
     1261 ttatacttta aattgtaaat tcaattaaaa aaagacaaac tcactaaaga gcttgtttga
     1321 atttctcaaa ctgtcgtcta gtaagattgt ctttaatata ttcatagttt ataacattat
     1381 tctgataagc tcttataagt atatcagtag tactgacggt tttttcgtct gctttaatta
     1441 aaactttgtg atgggagttt tggttaaagc ttttttttat gctataaacg ttggttttac
     1501 taaataagtg accttttatc tcactcataa ctggatcaat tacatggttt tcttcaatgc
     1561 taattctatt tagctgttgt agttcctcaa ggtatcgctt tagcttactt ctattgctat
     1621 tgttaccgta attaatcata actgagtagg ccatatagaa cgttttttcg cctaatggtt
     1681 gatgcctttt agcatgtatc aacattgatg tatagagttt cattaaatgt gtctttctca
     1741 aagctaatac atctttaagt tcatcagcat ataaataaac atctctattt ataccaccta
     1801 acgtgatatt agttctatat acatatttag caattttttt tgtttcattc ataatatgtt
     1861 tctcagatga ttgtattaaa tctttatgct gtcttttact ataaaacata atttcattga
     1921 tttttgctat cgtatcttca acatcataac cttgaccctt taaatatata gcaatcaaca
     1981 atgtatattt gtttctacta tcaggataaa caagagtatt agtctctaac atttcaataa
     2041 tgttttcttt agcatgagta acttcatagg tactaaaatc taatgaattt aatacgccat
     2101 tgagtaactt agcctcatct tctttcataa acttacatag ctcatatgta taatcttcaa
     2161 tttgtaactc gtacaagtcc ttaagttgta acttctcttt aaataatttt gtatttatct
     2221 gtttaatatt atgaatagtt tctaaaggtt ttcttttgaa tttaggtgta gaaggatcaa
     2281 caaaataaca ttgctttcct gtcactctat gaatacctaa aggtaattta acaccttgtg
     2341 tatgtgtagg tctaaattca atatcagaag gtttatagtt atttctttcc aaaacttcac
     2401 gataaaatgc ttttaaataa ctaacatgta taagatcgtc aaaaaataaa taaacatgat
     2461 aacctttatt cccactatca actacttcaa ggttgttatc agatagtcca aaatcagtta
     2521 ttaaagatag tcttaggttt aacacatcat tacgagcctg tgctttatta gatttacctg
     2581 tatctacatc aaaacataaa aacttagtaa atacttctcc actaaatata cctacggttt
     2641 taatcccttt aatatgacta actaaatcat tatcacataa accattaggt atatgtctat
     2701 aagagccatc ttctcgttgt tcaatatgtt tctgtttact actgacaaaa tacttcttaa
     2761 gagcctgcac aagtgaataa taattatctt gtgccataat atactccttt gtaaaaatat
     2821 aataataaga tagatatcaa tacatagtac atagtgttat cttttgtaca taagcataat
     2881 atttttatat aactgtgcta aatatattat ctgaatgctt ctaataacct tgtttaatta
     2941 agaatttctc aagcttatct aagttttttt taccgaaatt atgatgtttg ttgacgtaac
     3001 gacgcatatt ggtataactt acgtctatct ctgaagaaat aagtttaaac ttaggctcat
     3061 aattctcacg ccaaaacttt aataatctat cacgaatttc aatattacgc tctgccatta
     3121 cttctttatg ttcttttgtt gctgttggca ttgttctaca cctccttaaa cataatatgt
     3181 ttttatgata catttattat aataataaaa caacattttt gtggtactta ttttattact
     3241 ctaaaataaa tgctttgttc ttatttgtta aacatacata taagatactg tcgtttctat
     3301 caatgattac ataacgccca aaagtattca tcttatcatt ctcgtttata tgttcttgaa
     3361 tgtttgcaat caaaaaagca cctgaccaat taaggttaga tgctttttgt ctattaaata
     3421 atcctaaaac tatttaaaac gttcgataag tttgtctatt tcgtacataa gtgtttcttc
     3481 atgttgcttt atttgttctt ttgctgattc tggtaatgaa tctctaatat tttcttgtgt
     3541 ttcaattaat tcaagtaaag tattataata agcaacttga atttcaatcg cgcttattag
     3601 ttctaaatca tcttgtatct tttcaaaatc tcttggtatt aaactttcta tattcttttc
     3661 cctaatatct tttatctttg ttcccatgtt ttttaattca ttttctaaat ctagcttttt
     3721 aatttcatca aaaatattta tttgtgtcct tttataatta ctcttgaaac ctattagttt
     3781 ttgtatagaa tcttttgttt ctgtttttaa caattgttgt atcttataac tttgttcatt
     3841 tttattatct ttaaatagct taatatttga tttgtatgat ttataggaaa tgataatact
     3901 caaagtagtt gttattaaaa caaacactaa tgtagccccg tctatagcat taggatattt
     3961 tttaaagaat ttttcaagat tatccaattg ccatataaat aagcccacaa cgactaatgg
     4021 cagaccgata tacaaaaacc aacttacaat tttatttatt gttttcatgt tcattttcat
     4081 tattcctttt ttattcacaa gatcaattat ataaaacttt acaattttta acacattatt
     4141 ttatggtggt tgtaatcact catgacggta cccgaaaatg tataaatatt aattttataa
     4201 gtgtataccg aacacgataa acagcgtggt tatgcgattg tatattttat gtatattgaa
     4261 caagtaacta cgaacactat agatcccgtc aatacaatgt ttatggaagt tatttagttt
     4321 acataattat gtattatagg tagtggaaat gtatacctta tacaatatat atcatttctt
     4381 tgtttattta ttattttatt tgaacttcag gattaagcga atcattaaat ttcacttttg
     4441 cttcacctac atcaattcca tcttctttaa atttaatata taatttatca aaatatccat
     4501 taaatccgcc ctctatctca tttcttccag taaagtttga agatatgtgt tctgtacgat
     4561 attttagttc actgttgcta tagtcttctt taccttttaa atcaacggta atgatcacat
     4621 taggtttttt atcttggtta tatatttgag tattaacttt atactcttta atatcttgac
     4681 tagttaaact atttagtagc gtcatagatt ccttaatatc ttcatatact tgtttatcta
     4741 agcttggatc atcgtaatat tcgtgactat ttgaagtgtc ttcgttatta ttttttaaac
     4801 ttctatcatt attctcatga cttttatttt tatctttact gctactttgt tttttattct
     4861 tttttacatc agtccttttt ttatcgctat tctcatgact tttatgatta tcttcactac
     4921 ctaaattaga aaaggacaaa tatattaaaa tacctaacat tataaatact ataaccaacg
     4981 ttattttaga acctctattt tttttcaatt tttcctccgc taatctacat ttttaattaa
     5041 gatttatctg ttaaagcacg tttgttaata tccaaaatac aaaaaattat aacttcaaaa
     5101 aattactaca agggtcaaat gtgtaagctc tatgttgcaa ccattaaacc aatacccctg
     5161 ttaaatgttt ttcaatgctc agaaatcgtt atctcagcac ttatttaact aattttccca
     5221 atcataaaat caaacatcat ctttttatta ctagaagctg atttattatt tctaagttta
     5281 ttctttaacc cttctatttc tttatactct ttaggaacat tgcttttttt gatcgcctca
     5341 aaattcattt ttacataagt tttcagtttg tctcgttcaa catttgagat gtacttatta
     5401 tttcgtatat tgttaatcag caagccctca ttgtttaata aagcattagc atataaataa
     5461 tcatgcttag cttgttttat atgctcgtct agttgccact ctctattatt atttttatct
     5521 gtaaacaaat tcatcatttc attttgaatt ttgctgaata aaaaattata tctttcaaag
     5581 tcatattgtg ttttcggttc tagtgttgcc tttgaacttt cttctagttt taatattctt
     5641 tcttcaatat tttttcctag ttcttttgat tgctcatcaa atttattaag ggtatcgtaa
     5701 attcctttta atttatcttg tttatatgta ttgatcgttt ctgctaacgc ttcatctgta
     5761 tacttatctt tgtatttagt tttaatatct tcaatacctt gtatatagtc ttttttctta
     5821 tcaatatcaa tagtattttt agcacgctta tttaattcct caatatcttt tttaattgtt
     5881 tctactgttt ccatttttat gcctcctttt atagttcttt gttttcaaga aactttttaa
     5941 cattatctga agtgataata tattttcgtc ctattttact ggctttaatt tctccaattt
     6001 ttatgtattt tctaactgtt ctaatattca tatctaacaa ctgggctact tcattgactg
     6061 tatatgtttc aattctcatt ataagtaccc ccgttttcat tgatacagtt acgtaaatcc
     6121 tcagtgctta catcagaaaa atcaatatta taattaatat tactatcgtc ctgataacct
     6181 tctaaccatt cattaggctt acggttcttc aaccaaaata ttatagctgt tacattaggt
     6241 ttaacgtgtt ttatatactt tatcgtagta ccatcactat ttacttttgt ttcttcatac
     6301 tcaaaaccta atgcacattt taaaagtgta ttttccactt cataatccac gacttctttt
     6361 ccttttttta tagtgtcgta aatttcgcta tatttatttt gccatttata aaatgtagct
     6421 tgatgaatgc ccatattttg agcaatttgt ttatt
//
