LOCUS       NZ_CP073838             6455 bp    DNA     circular CON 16-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1262351 plasmid p2B1262351,
            complete sequence.
ACCESSION   NZ_CP073838
VERSION     NZ_CP073838.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699876
            Assembly: GCF_019329505.1
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                   :: 254x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329505.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 07:57:37
            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)                     :: 2,681
            CDSs (total)                      :: 2,600
            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)              :: 79
            CDSs (without protein)            :: 79
            Pseudo Genes (ambiguous residues) :: 0 of 79
            Pseudo Genes (frameshifted)       :: 41 of 79
            Pseudo Genes (incomplete)         :: 44 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
            CP073838.1.
            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="B1262351"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1262351"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(103..747)
                     /locus_tag="KFV42_RS13265"
                     /old_locus_tag="KFV42_13275"
     CDS             complement(103..747)
                     /locus_tag="KFV42_RS13265"
                     /old_locus_tag="KFV42_13275"
                     /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(1064..1681)
                     /locus_tag="KFV42_RS13270"
                     /old_locus_tag="KFV42_13280"
     CDS             complement(1064..1681)
                     /locus_tag="KFV42_RS13270"
                     /old_locus_tag="KFV42_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_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            complement(1878..2567)
                     /locus_tag="KFV42_RS13275"
                     /old_locus_tag="KFV42_13285"
     CDS             complement(1878..2567)
                     /locus_tag="KFV42_RS13275"
                     /old_locus_tag="KFV42_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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            complement(2582..2752)
                     /locus_tag="KFV42_RS13280"
                     /old_locus_tag="KFV42_13290"
     CDS             complement(2582..2752)
                     /locus_tag="KFV42_RS13280"
                     /old_locus_tag="KFV42_13290"
                     /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(2742..3227)
                     /locus_tag="KFV42_RS13285"
                     /old_locus_tag="KFV42_13295"
     CDS             complement(2742..3227)
                     /locus_tag="KFV42_RS13285"
                     /old_locus_tag="KFV42_13295"
                     /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            3606..4196
                     /locus_tag="KFV42_RS13290"
                     /old_locus_tag="KFV42_13300"
     CDS             3606..4196
                     /locus_tag="KFV42_RS13290"
                     /old_locus_tag="KFV42_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            complement(4432..5925)
                     /locus_tag="KFV42_RS13295"
                     /old_locus_tag="KFV42_13305"
     CDS             complement(4432..5925)
                     /locus_tag="KFV42_RS13295"
                     /old_locus_tag="KFV42_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(6049..6279)
                     /locus_tag="KFV42_RS13300"
                     /old_locus_tag="KFV42_13310"
     CDS             complement(6049..6279)
                     /locus_tag="KFV42_RS13300"
                     /old_locus_tag="KFV42_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"
ORIGIN
        1 tcatcttatc attctcgttt atatgttctt gaatgtttgc aatcaaaaaa gcacctgacc
       61 aattaaggtt agatgctttt tgtctattaa ataatcctaa aactatttaa aacgttcgat
      121 aagtttgtct atttcgtaca taagtgtttc ttcatgttgc tttatttgtt cttttgctga
      181 ttctggtaat gaatctctaa tattttcttg tgtttcaatt aattcaagta aagtattata
      241 ataagcaact tgaatttcaa tcgcgcttat tagttctaaa tcatcttgta tcttttcaaa
      301 atctcttggt attaaacttt ctatattctt ttccctaata tcttttatct ttgttcccat
      361 gttttttaat tcattttcta aatctagctt tttaatttca tcaaaaatat ttatttgtgt
      421 ccttttataa ttactcttga aacctattag tttttgtata gaatcttttg tttctgtttt
      481 taacaattgt tgtatcttat aactttgttc atttttatta tctttaaata gcttaatatt
      541 tgatttgtat gatttatagg aaatgataat actcaaagta gttgttatta aaacaaacac
      601 taatgtagcc ccgtctatag cattaggata ttttttaaag aatttttcaa gattatccaa
      661 ttgccatata aataagccca caacgactaa tggcagaccg atatacaaaa accaacttac
      721 aattttattt attgttttca tgttcatttt cattattcct tttttattca caagatcaat
      781 tatataaaac tttacaattt ttaacacatt attttatggt ggttgtaatc actcatgacg
      841 gtacccgaaa atgtataaat attaatttta taagtgtata ccgaacacga taaacagcgt
      901 ggttatgcga ttgtatattt tatgtatatt gaacaagtaa ctacgaacac tatagatccc
      961 gtcaatacaa tgtttatgga agttatttag tttacataat tatgtattat aggtagtgga
     1021 aatgtatacc ttatacaata tatatcattt ctttgtttat ttattatttt atttgaactt
     1081 caggattaag cgaatcatta aatttcactt ttgcttcacc tacatcaatt ccatcttctt
     1141 taaatttaat atataattta tcaaaatatc cattaaatcc gccctctatc tcatttcttc
     1201 cagtaaagtt tgaagatatg tgttctgtac gatattttag ttcactgttg ctatagtctt
     1261 ctttaccttt taaatcaacg gtaatgatca cattaggttt tttatcttgg ttatatattt
     1321 gagtattaac tttatactct ttaatatctt gactagttaa actatttagt agcgtcatag
     1381 attccttaat atcttcatat acttgtttat ctaagcttgg atcatcgtaa tattcgtgac
     1441 tatttgaagt gtcttcgtta ttatttttta aacttctatc attattctca tgacttttat
     1501 ttttatcttt actgctactt tgttttttat tcttttttac atcagtcctt tttttatcgc
     1561 tattctcatg acttttatga ttatcttcac tacctaaatt agaaaaggac aaatatatta
     1621 aaatacctaa cattataaat actataacca acgttatttt agaacctcta ttttttttca
     1681 atttttcctc cgctaatcta catttttaat taagatttat ctgttaaagc acgtttgtta
     1741 atatccaaaa tacaaaaaat tataacttca aaaaattact acaagggtca aatgtgtaag
     1801 ctctatgttg caaccattaa accaataccc ctgttaaatg tttttcaatg ctcagaaatc
     1861 gttatctcag cacttattta actaattttc ccaatcataa aatcaaacat catcttttta
     1921 ttactagaag ctgatttatt atttctaagt ttattcttta acccttctat ttctttatac
     1981 tctttaggaa cattgctttt tttgatcgcc tcaaaattca tttttacata agttttcagt
     2041 ttgtctcgtt caacatttga gatgtactta ttatttcgta tattgttaat cagcaagccc
     2101 tcattgttta ataaagcatt agcatataaa taatcatgct tagcttgttt tatatgctcg
     2161 tctagttgcc actctctatt attattttta tctgtaaaca aattcatcat ttcattttga
     2221 attttgctga ataaaaaatt atatctttca aagtcatatt gtgttttcgg ttctagtgtt
     2281 gcctttgaac tttcttctag ttttaatatt ctttcttcaa tattttttcc tagttctttt
     2341 gattgctcat caaatttatt aagggtatcg taaattcctt ttaatttatc ttgtttatat
     2401 gtattgatcg tttctgctaa cgcttcatct gtatacttat ctttgtattt agttttaata
     2461 tcttcaatac cttgtatata gtcttttttc ttatcaatat caatagtatt tttagcacgc
     2521 ttatttaatt cctcaatatc ttttttaatt gtttctactg tttccatttt tatgcctcct
     2581 tttatagttc tttgttttca agaaactttt taacattatc tgaagtgata atatattttc
     2641 gtcctatttt actggcttta atttctccaa tttttatgta ttttctaact gttctaatat
     2701 tcatatctaa caactgggct acttcattga ctgtatatgt ttcaattctc attataagta
     2761 cccccgtttt cattgataca gttacgtaaa tcctcagtgc ttacatcaga aaaatcaata
     2821 ttataattaa tattactatc gtcctgataa ccttctaacc attcattagg cttacggttc
     2881 ttcaaccaaa atattatagc tgttacatta ggtttaacgt gttttatata ctttatcgta
     2941 gtaccatcac tatttacttt tgtttcttca tactcaaaac ctaatgcaca ttttaaaagt
     3001 gtattttcca cttcataatc cacgacttct tttccttttt ttatagtgtc gtaaatttcg
     3061 ctatatttat tttgccattt ataaaatgta gcttgatgaa tgcccatatt ttgagcaatt
     3121 tgtttattgc ttaatccttt tcttgcccaa ccttgtaata acgtcagccc ttcagaggta
     3181 agccaataat ctactttagg ctttgcacct ctttttaatt tttccataag ttacctcctt
     3241 ataagtgaat tttatagggg tttattgttt ctttgcccct tatggctaat ttaatattta
     3301 attcaatata tcttttctcg tttttcttta ttttcttcac ttttccatta atagaaaaaa
     3361 ccttataaac agctttatat caaggcttta tctgtatcta ttataccaca ataagtgagg
     3421 tttcgcgtgt gtatcagcac atattcatgc tattatttta attaggaata tagctattta
     3481 ataagagaat aatatggcgt tataggtagc gttaataccc atcattaagg cattaaaggc
     3541 ttaatattat tattgtcgcc ttttacctat aaatgcctaa atgaaaggct ttaggtgtaa
     3601 aaaatatgca acaaccaaat gaattaagca ctaaaaatgc aagtcaattt ttaaacatat
     3661 ctgtgtcatc tatgcgttta tatgctaaaa ctatggagag cttaggctat gaatttaaaa
     3721 cagtagaaaa tgcacgtcgt ttcactaaat acgatttgca aattatttat gaggcaatgg
     3781 aacgttttaa acttgttgga ggaacaatga aacaatcact acactatacg attgttaaat
     3841 atgaacaagg gcaagaaatt gctgacgcta tgccacaaac tacaaagaaa aatagaaaag
     3901 tctctgatga attagaagca ttacaaacta atatgatcaa tgaagttagt aataatctaa
     3961 aaacagaatt agtaaaacag tacaatgaat taagtaaaac tattaaaaat agccaagcac
     4021 aatcaagtga aataaaatat attaaagctg attaccaaac gttaaatgat aaatataatg
     4081 ctttgcttga tgaaaataag aagttaaaag aagaaaataa aagacttcat gaagaaatga
     4141 ataagctaaa aagtaaaagc ttgtgggaat taagaaaatg gaaaaaagaa cgctaataaa
     4201 gtggaattaa atataaaggc atttaaagag ctatatagag catttaaatt ttatgaatgg
     4261 tttttataac taaaactata taattgctga atatggctct ctaaattatg ttataatttg
     4321 aattgaagat aaataaaaaa gataagttac tgctatgctt ttattattgc atgtatatgt
     4381 tctttcattt atactttaaa ttgtaaattc aattaaaaaa agacaaactc actaaagagc
     4441 ttgtttgaat ttctcaaact gtcgtctagt aagattgtct ttaatatatt catagtttat
     4501 aacattattc tgataagctc ttataagtat atcagtagta ctgacggttt tttcgtctgc
     4561 tttaattaaa actttgtgat gggagttttg gttaaagctt ttttttatgc tataaacgtt
     4621 ggttttacta aataagtgac cttttatctc actcataact ggatcaatta catggttttc
     4681 ttcaatgcta attctattta gctgttgtag ttcctcaagg tatcgcttta gcttacttct
     4741 attgctattg ttaccgtaat taatcataac tgagtaggcc atatagaacg ttttttcgcc
     4801 taatggttga tgccttttag catgtatcaa cattgatgta tagagtttca ttaaatgtgt
     4861 ctttctcaaa gctaatacat ctttaagttc atcagcatat aaataaacat ctctatttat
     4921 accacctaac gtgatattag ttctatatac atatttagca attttttttg tttcattcat
     4981 aatatgtttc tcagatgatt gtattaaatc tttatgctgt cttttactat aaaacataat
     5041 ttcattgatt tttgctatcg tatcttcaac atcataacct tgacccttta aatatatagc
     5101 aatcaacaat gtatatttgt ttctactatc aggataaaca agagtattag tctctaacat
     5161 ttcaataatg ttttctttag catgagtaac ttcataggta ctaaaatcta atgaatttaa
     5221 tacgccattg agtaacttag cctcatcttc tttcataaac ttacatagct catatgtata
     5281 atcttcaatt tgtaactcgt acaagtcctt aagttgtaac ttctctttaa ataattttgt
     5341 atttatctgt ttaatattat gaatagtttc taaaggtttt cttttgaatt taggtgtaga
     5401 aggatcaaca aaataacatt gctttcctgt cactctatga atacctaaag gtaatttaac
     5461 accttgtgta tgtgtaggtc taaattcaat atcagaaggt ttatagttat ttctttccaa
     5521 aacttcacga taaaatgctt ttaaataact aacatgtata agatcgtcaa aaaataaata
     5581 aacatgataa cctttattcc cactatcaac tacttcaagg ttgttatcag atagtccaaa
     5641 atcagttatt aaagatagtc ttaggtttaa cacatcatta cgagcctgtg ctttattaga
     5701 tttacctgta tctacatcaa aacataaaaa cttagtaaat acttctccac taaatatacc
     5761 tacggtttta atccctttaa tatgactaac taaatcatta tcacataaac cattaggtat
     5821 atgtctataa gagccatctt ctcgttgttc aatatgtttc tgtttactac tgacaaaata
     5881 cttcttaaga gcctgcacaa gtgaataata attatcttgt gccataatat actcctttgt
     5941 aaaaatataa taataagata gatatcaata catagtacat agtgttatct tttgtacata
     6001 agcataatat ttttatataa ctgtgctaaa tatattatct gaatgcttct aataaccttg
     6061 tttaattaag aatttctcaa gcttatctaa gtttttttta ccgaaattat gatgtttgtt
     6121 gacgtaacga cgcatattgg tataacttac gtctatctct gaagaaataa gtttaaactt
     6181 aggctcataa ttctcacgcc aaaactttaa taatctatca cgaatttcaa tattacgctc
     6241 tgccattact tctttatgtt cttttgttgc tgttggcatt gttctacacc tccttaaaca
     6301 taatatgttt ttatgataca tttattataa taataaaaca acatttttgt ggtacttatt
     6361 ttattactct aaaataaatg ctttgttctt atttgttaaa catacatata agatactgtc
     6421 gtttctatca atgattacat aacgcccaaa agtat
//
