LOCUS       CP063617                1932 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-1-1 plasmid pZA1-1_06, complete
            sequence.
ACCESSION   CP063617
VERSION     CP063617.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483154
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1932)
  AUTHORS   Both,A., Kruse,F., Mirwald,N., Franke,G., Christner,M., Huang,J.,
            Hansen,J.L., Kroger,N., Berneking,L., Lellek,H., Aepfelbacher,M. and
            Rohde,H.
  TITLE     Population dynamics in colonizing vancomycin-resistant Enterococcus
            faecium isolated from immunosuppressed patients
  JOURNAL   J Glob Antimicrob Resist 28, 267-273 (2022)
   PUBMED   35134550
REFERENCE   2  (bases 1 to 1932)
  AUTHORS   Both,A., Kruse,F., Christner,M., Huang,J., Mirwald,N., Franke,G. and
            Rohde,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2020) Institute of Medical Microbiology, Virology
            and Hygiene, University Medical Center Hamburg-Eppendorf,
            Martinistr. 52, Hamburg, Hamburg 20246, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 85.9x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:01:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.13
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 3,192
            CDSs (total)                      :: 3,099
            Genes (coding)                    :: 3,002
            CDSs (with protein)               :: 3,002
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 97
            CDSs (without protein)            :: 97
            Pseudo Genes (ambiguous residues) :: 0 of 97
            Pseudo Genes (frameshifted)       :: 29 of 97
            Pseudo Genes (incomplete)         :: 58 of 97
            Pseudo Genes (internal stop)      :: 20 of 97
            Pseudo Genes (multiple problems)  :: 9 of 97
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..1932
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ICU-1-1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA1-1_06"
                     /geo_loc_name="Germany: Hamburg"
                     /lat_lon="53.33 N 10.1 E"
                     /collection_date="2019-03-01"
                     /collected_by="Institute of Medical Microbiology, Virology
                     and Hygiene, University Medical Center Hamburg-Eppendorf"
     gene            join(1533..1932,1..566)
                     /locus_tag="IQN06_15955"
     CDS             join(1533..1932,1..566)
                     /locus_tag="IQN06_15955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305967.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="UOC51514.1"
                     /translation="MSKNGIIVNEWENLTALSNRRLNVQNLNTPLKLQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRVNEGNGYLKAVGNNGWQLLDQYEENIAYIEILKWQD
                     GKGRIDFNPNKIGHFLASSMKNFIHDLFLEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRLYNKKLEQETKRKVVPKEVETWWRLEMQLRRG
                     KATDWHNMVQESLNSFASLHFLPIDTTPTDRIMLAGLMSDQNFWSLLSRNSKYKYRELL
                     KEESQNDELTNHLRETFAESADNLKQELDTWLLGLDVTEK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            766..969
                     /locus_tag="IQN06_15960"
     CDS             766..969
                     /locus_tag="IQN06_15960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002352749.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC51515.1"
                     /translation="MSQLGKCYSLSKSNRKVYTLFISDSAKEGFNLGFSISFKKGTKNT
                     SISHNNRELTDSQKINSLSGRK"
                     /name="hypothetical protein"
     Typing          1612..1932
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.509"
                     /coverage="92.0"
                     /evalue="1.49e-105"
ORIGIN
        1 aaccacattt ctcacgtgcg gatattgctt gcgatattat cgatgtgcct gatgagttta
       61 ttacacaata tcgagtggtt gatcctgttt ctttcaagcc aatttatggg cggtctggga
      121 agctggaaac agcttattgg ggcagtcgtg ccagcgaacg acaaattcgg ctatacaata
      181 aaaaattgga acaagaaacc aaacgaaaag ttgtaccaaa ggaagttgag acttggtggc
      241 ggttagaaat gcaactacgg cgtggcaagg caaccgattg gcataatatg gttcaagaaa
      301 gtttgaatag ttttgcgagc ctgcattttt tgccgattga tacaacacct acagatagaa
      361 taatgctcgc tggtttaatg tctgatcaaa atttctggtc tcttttgtcg aggaattcaa
      421 aatataaata tcgggaattg ctgaaagaag aaagtcaaaa tgatgaattg acgaatcatt
      481 tgcgagaaac gtttgcagaa tcggcagaca atttgaaaca agaattagac acgtggcttt
      541 tgggtttgga cgtgacagag aagtgatacc gaataagaaa agtcagatga gtgagagtaa
      601 atttacgtca atgtttaatg acgtgagttt acgataagcg attattttgc gtgaagcaaa
      661 ataaagcgta aaaggagttg agagcgtgac acgctttcgg ctcctttttt cgttgtcact
      721 tgtgacagcg aataccctcg gagagcattt ggaattgtga cagccatgtc acaattagga
      781 aaatgttact ctttgtcaaa gagtaacaga aaggtttaca ctctttttat tagcgacagc
      841 gcgaaggagg ggtttaactt ggggtttagt atttcgttca aaaagggaac aaaaaataca
      901 agcatttctc ataataatcg tgagttaact gatagccaaa aaattaatag tttgtctggt
      961 agaaaataat tagcagattt acaagtggga aataaaaagc tgaaagaaga aaattgcatt
     1021 tcaaactaca ttttctacaa taactctaaa atggcatatt ttgcgttctg agcggtttta
     1081 gcgtttattt cgtttagtta tcggcacaat cggtgaaaca cgttagagga gcgaaaatgg
     1141 agcctgtaag gcgactggta gcggaacggt cgtgttagat tgtgtagccg atagctgaac
     1201 gaaataaatg ctggcagcgc cattctattt cggcaggagg aggctcaagg ggttcgggga
     1261 atgaaattcc ctgaggtctt tttatttttt ctagaggagt gctataatca aagaaaatga
     1321 gaaaaaagag taaaaaaata gtcgagcagt gttgacgcac tctcgacctt tacggaaact
     1381 aatcacacta gctccgtaac ttcttaatca ttatacgaat atttttagat ttcttcaaga
     1441 ctagagattt tttggtaatg aatttttaag agttacgtga acttttgaaa attctttcca
     1501 gaagtctctt tttctttgag gaggaacaaa atttgagtaa aaatggcata atcgtaaatg
     1561 agtgggaaaa tttaacagcc ctatctaaca ggcggttaaa tgttcaaaat ttgaacaccc
     1621 ccctaaaatt acagtggtca attgaccgaa ttactatcgt tggaaaactg aaggaaaata
     1681 tttattatca cactcaaaat gatgtgttga ttttagattt tgagcaatta atgcgggtga
     1741 atgaaggcaa tggctattta aaagcggttg ggaataacgg ctggcaatta ttagaccaat
     1801 acgaagaaaa tattgcttat attgagattt tgaaatggca agatggcaaa gggcggattg
     1861 attttaaccc gaataagatt ggtcattttt tagctagttc aatgaaaaat ttcattcatg
     1921 atttatttct ag
//
