LOCUS       NZ_CP073894             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain V1936703 plasmid p2V1936703,
            complete sequence.
ACCESSION   NZ_CP073894
VERSION     NZ_CP073894.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699897
            Assembly: GCF_019330165.1
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                   :: 328x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019330165.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 07:05:36
            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)                     :: 2,683
            CDSs (total)                      :: 2,602
            Genes (coding)                    :: 2,521
            CDSs (with protein)               :: 2,521
            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)              :: 81
            CDSs (without protein)            :: 81
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 44 of 81
            Pseudo Genes (incomplete)         :: 43 of 81
            Pseudo Genes (internal stop)      :: 27 of 81
            Pseudo Genes (multiple problems)  :: 24 of 81
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073894.1.
            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="V1936703"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2V1936703"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(134..778)
                     /locus_tag="KFV49_RS13270"
                     /old_locus_tag="KFV49_13280"
     CDS             complement(134..778)
                     /locus_tag="KFV49_RS13270"
                     /old_locus_tag="KFV49_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_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
     gene            complement(1095..1712)
                     /locus_tag="KFV49_RS13275"
                     /old_locus_tag="KFV49_13285"
     CDS             complement(1095..1712)
                     /locus_tag="KFV49_RS13275"
                     /old_locus_tag="KFV49_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_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            complement(1909..2598)
                     /locus_tag="KFV49_RS13280"
                     /old_locus_tag="KFV49_13290"
     CDS             complement(1909..2598)
                     /locus_tag="KFV49_RS13280"
                     /old_locus_tag="KFV49_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            complement(2613..2783)
                     /locus_tag="KFV49_RS13285"
                     /old_locus_tag="KFV49_13295"
     CDS             complement(2613..2783)
                     /locus_tag="KFV49_RS13285"
                     /old_locus_tag="KFV49_13295"
                     /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            complement(2773..3258)
                     /locus_tag="KFV49_RS13290"
                     /old_locus_tag="KFV49_13300"
     CDS             complement(2773..3258)
                     /locus_tag="KFV49_RS13290"
                     /old_locus_tag="KFV49_13300"
                     /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            3637..4227
                     /locus_tag="KFV49_RS13295"
                     /old_locus_tag="KFV49_13305"
     CDS             3637..4227
                     /locus_tag="KFV49_RS13295"
                     /old_locus_tag="KFV49_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_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            complement(4463..5956)
                     /locus_tag="KFV49_RS13300"
                     /old_locus_tag="KFV49_13310"
     CDS             complement(4463..5956)
                     /locus_tag="KFV49_RS13300"
                     /old_locus_tag="KFV49_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_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
     gene            complement(6080..6310)
                     /locus_tag="KFV49_RS13305"
                     /old_locus_tag="KFV49_13315"
     CDS             complement(6080..6310)
                     /locus_tag="KFV49_RS13305"
                     /old_locus_tag="KFV49_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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
ORIGIN
        1 ctatcaatga ttacataacg cccaaaagta ttcatcttat cattctcgtt tatatgttct
       61 tgaatgtttg caatcaaaaa agcacctgac caattaaggt tagatgcttt ttgtctatta
      121 aataatccta aaactattta aaacgttcga taagtttgtc tatttcgtac ataagtgttt
      181 cttcatgttg ctttatttgt tcttttgctg attctggtaa tgaatctcta atattttctt
      241 gtgtttcaat taattcaagt aaagtattat aataagcaac ttgaatttca atcgcgctta
      301 ttagttctaa atcatcttgt atcttttcaa aatctcttgg tattaaactt tctatattct
      361 tttccctaat atcttttatc tttgttccca tgttttttaa ttcattttct aaatctagct
      421 ttttaatttc atcaaaaata tttatttgtg tccttttata attactcttg aaacctatta
      481 gtttttgtat agaatctttt gtttctgttt ttaacaattg ttgtatctta taactttgtt
      541 catttttatt atctttaaat agcttaatat ttgatttgta tgatttatag gaaatgataa
      601 tactcaaagt agttgttatt aaaacaaaca ctaatgtagc cccgtctata gcattaggat
      661 attttttaaa gaatttttca agattatcca attgccatat aaataagccc acaacgacta
      721 atggcagacc gatatacaaa aaccaactta caattttatt tattgttttc atgttcattt
      781 tcattattcc ttttttattc acaagatcaa ttatataaaa ctttacaatt tttaacacat
      841 tattttatgg tggttgtaat cactcatgac ggtacccgaa aatgtataaa tattaatttt
      901 ataagtgtat accgaacacg ataaacagcg tggttatgcg attgtatatt ttatgtatat
      961 tgaacaagta actacgaaca ctatagatcc cgtcaataca atgtttatgg aagttattta
     1021 gtttacataa ttatgtatta taggtagtgg aaatgtatac cttatacaat atatatcatt
     1081 tctttgttta tttattattt tatttgaact tcaggattaa gcgaatcatt aaatttcact
     1141 tttgcttcac ctacatcaat tccatcttct ttaaatttaa tatataattt atcaaaatat
     1201 ccattaaatc cgccctctat ctcatttctt ccagtaaagt ttgaagatat gtgttctgta
     1261 cgatatttta gttcactgtt gctatagtct tctttacctt ttaaatcaac ggtaatgatc
     1321 acattaggtt ttttatcttg gttatatatt tgagtattaa ctttatactc tttaatatct
     1381 tgactagtta aactatttag tagcgtcata gattccttaa tatcttcata tacttgttta
     1441 tctaagcttg gatcatcgta atattcgtga ctatttgaag tgtcttcgtt attatttttt
     1501 aaacttctat cattattctc atgactttta tttttatctt tactgctact ttgtttttta
     1561 ttctttttta catcagtcct ttttttatcg ctattctcat gacttttatg attatcttca
     1621 ctacctaaat tagaaaagga caaatatatt aaaataccta acattataaa tactataacc
     1681 aacgttattt tagaacctct attttttttc aatttttcct ccgctaatct acatttttaa
     1741 ttaagattta tctgttaaag cacgtttgtt aatatccaaa atacaaaaaa ttataacttc
     1801 aaaaaattac tacaagggtc aaatgtgtaa gctctatgtt gcaaccatta aaccaatacc
     1861 cctgttaaat gtttttcaat gctcagaaat cgttatctca gcacttattt aactaatttt
     1921 cccaatcata aaatcaaaca tcatcttttt attactagaa gctgatttat tatttctaag
     1981 tttattcttt aacccttcta tttctttata ctctttagga acattgcttt ttttgatcgc
     2041 ctcaaaattc atttttacat aagttttcag tttgtctcgt tcaacatttg agatgtactt
     2101 attatttcgt atattgttaa tcagcaagcc ctcattgttt aataaagcat tagcatataa
     2161 ataatcatgc ttagcttgtt ttatatgctc gtctagttgc cactctctat tattattttt
     2221 atctgtaaac aaattcatca tttcattttg aattttgctg aataaaaaat tatatctttc
     2281 aaagtcatat tgtgttttcg gttctagtgt tgcctttgaa ctttcttcta gttttaatat
     2341 tctttcttca atattttttc ctagttcttt tgattgctca tcaaatttat taagggtatc
     2401 gtaaattcct tttaatttat cttgtttata tgtattgatc gtttctgcta acgcttcatc
     2461 tgtatactta tctttgtatt tagttttaat atcttcaata ccttgtatat agtctttttt
     2521 cttatcaata tcaatagtat ttttagcacg cttatttaat tcctcaatat cttttttaat
     2581 tgtttctact gtttccattt ttatgcctcc ttttatagtt ctttgttttc aagaaacttt
     2641 ttaacattat ctgaagtgat aatatatttt cgtcctattt tactggcttt aatttctcca
     2701 atttttatgt attttctaac tgttctaata ttcatatcta acaactgggc tacttcattg
     2761 actgtatatg tttcaattct cattataagt acccccgttt tcattgatac agttacgtaa
     2821 atcctcagtg cttacatcag aaaaatcaat attataatta atattactat cgtcctgata
     2881 accttctaac cattcattag gcttacggtt cttcaaccaa aatattatag ctgttacatt
     2941 aggtttaacg tgttttatat actttatcgt agtaccatca ctatttactt ttgtttcttc
     3001 atactcaaaa cctaatgcac attttaaaag tgtattttcc acttcataat ccacgacttc
     3061 ttttcctttt tttatagtgt cgtaaatttc gctatattta ttttgccatt tataaaatgt
     3121 agcttgatga atgcccatat tttgagcaat ttgtttattg cttaatcctt ttcttgccca
     3181 accttgtaat aacgtcagcc cttcagaggt aagccaataa tctactttag gctttgcacc
     3241 tctttttaat ttttccataa gttacctcct tataagtgaa ttttataggg gtttattgtt
     3301 tctttgcccc ttatggctaa tttaatattt aattcaatat atcttttctc gtttttcttt
     3361 attttcttca cttttccatt aatagaaaaa accttataaa cagctttata tcaaggcttt
     3421 atctgtatct attataccac aataagtgag gtttcgcgtg tgtatcagca catattcatg
     3481 ctattatttt aattaggaat atagctattt aataagagaa taatatggcg ttataggtag
     3541 cgttaatacc catcattaag gcattaaagg cttaatatta ttattgtcgc cttttaccta
     3601 taaatgccta aatgaaaggc tttaggtgta aaaaatatgc aacaaccaaa tgaattaagc
     3661 actaaaaatg caagtcaatt tttaaacata tctgtgtcat ctatgcgttt atatgctaaa
     3721 actatggaga gcttaggcta tgaatttaaa acagtagaaa atgcacgtcg tttcactaaa
     3781 tacgatttgc aaattattta tgaggcaatg gaacgtttta aacttgttgg aggaacaatg
     3841 aaacaatcac tacactatac gattgttaaa tatgaacaag ggcaagaaat tgctgacgct
     3901 atgccacaaa ctacaaagaa aaatagaaaa gtctctgatg aattagaagc attacaaact
     3961 aatatgatca atgaagttag taataatcta aaaacagaat tagtaaaaca gtacaatgaa
     4021 ttaagtaaaa ctattaaaaa tagccaagca caatcaagtg aaataaaata tattaaagct
     4081 gattaccaaa cgttaaatga taaatataat gctttgcttg atgaaaataa gaagttaaaa
     4141 gaagaaaata aaagacttca tgaagaaatg aataagctaa aaagtaaaag cttgtgggaa
     4201 ttaagaaaat ggaaaaaaga acgctaataa agtggaatta aatataaagg catttaaaga
     4261 gctatataga gcatttaaat tttatgaatg gtttttataa ctaaaactat ataattgctg
     4321 aatatggctc tctaaattat gttataattt gaattgaaga taaataaaaa agataagtta
     4381 ctgctatgct tttattattg catgtatatg ttctttcatt tatactttaa attgtaaatt
     4441 caattaaaaa aagacaaact cactaaagag cttgtttgaa tttctcaaac tgtcgtctag
     4501 taagattgtc tttaatatat tcatagttta taacattatt ctgataagct cttataagta
     4561 tatcagtagt actgacggtt ttttcgtctg ctttaattaa aactttgtga tgggagtttt
     4621 ggttaaagct tttttttatg ctataaacgt tggttttact aaataagtga ccttttatct
     4681 cactcataac tggatcaatt acatggtttt cttcaatgct aattctattt agctgttgta
     4741 gttcctcaag gtatcgcttt agcttacttc tattgctatt gttaccgtaa ttaatcataa
     4801 ctgagtaggc catatagaac gttttttcgc ctaatggttg atgcctttta gcatgtatca
     4861 acattgatgt atagagtttc attaaatgtg tctttctcaa agctaataca tctttaagtt
     4921 catcagcata taaataaaca tctctattta taccacctaa cgtgatatta gttctatata
     4981 catatttagc aatttttttt gtttcattca taatatgttt ctcagatgat tgtattaaat
     5041 ctttatgctg tcttttacta taaaacataa tttcattgat ttttgctatc gtatcttcaa
     5101 catcataacc ttgacccttt aaatatatag caatcaacaa tgtatatttg tttctactat
     5161 caggataaac aagagtatta gtctctaaca tttcaataat gttttcttta gcatgagtaa
     5221 cttcataggt actaaaatct aatgaattta atacgccatt gagtaactta gcctcatctt
     5281 ctttcataaa cttacatagc tcatatgtat aatcttcaat ttgtaactcg tacaagtcct
     5341 taagttgtaa cttctcttta aataattttg tatttatctg tttaatatta tgaatagttt
     5401 ctaaaggttt tcttttgaat ttaggtgtag aaggatcaac aaaataacat tgctttcctg
     5461 tcactctatg aatacctaaa ggtaatttaa caccttgtgt atgtgtaggt ctaaattcaa
     5521 tatcagaagg tttatagtta tttctttcca aaacttcacg ataaaatgct tttaaataac
     5581 taacatgtat aagatcgtca aaaaataaat aaacatgata acctttattc ccactatcaa
     5641 ctacttcaag gttgttatca gatagtccaa aatcagttat taaagatagt cttaggttta
     5701 acacatcatt acgagcctgt gctttattag atttacctgt atctacatca aaacataaaa
     5761 acttagtaaa tacttctcca ctaaatatac ctacggtttt aatcccttta atatgactaa
     5821 ctaaatcatt atcacataaa ccattaggta tatgtctata agagccatct tctcgttgtt
     5881 caatatgttt ctgtttacta ctgacaaaat acttcttaag agcctgcaca agtgaataat
     5941 aattatcttg tgccataata tactcctttg taaaaatata ataataagat agatatcaat
     6001 acatagtaca tagtgttatc ttttgtacat aagcataata tttttatata actgtgctaa
     6061 atatattatc tgaatgcttc taataacctt gtttaattaa gaatttctca agcttatcta
     6121 agtttttttt accgaaatta tgatgtttgt tgacgtaacg acgcatattg gtataactta
     6181 cgtctatctc tgaagaaata agtttaaact taggctcata attctcacgc caaaacttta
     6241 ataatctatc acgaatttca atattacgct ctgccattac ttctttatgt tcttttgttg
     6301 ctgttggcat tgttctacac ctccttaaac ataatatgtt tttatgatac atttattata
     6361 ataataaaac aacatttttg tggtacttat tttattactc taaaataaat gctttgttct
     6421 tatttgttaa acatacatat aagatactgt cgttt
//
