LOCUS       CP063646                1979 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-2-1 plasmid pZA2-1_07, complete
            sequence.
ACCESSION   CP063646
VERSION     CP063646.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483150
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1979)
  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 1979)
  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                   :: 336.3x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:41:31
            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)                     :: 3,018
            CDSs (total)                      :: 2,927
            Genes (coding)                    :: 2,804
            CDSs (with protein)               :: 2,804
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 44 of 123
            Pseudo Genes (incomplete)         :: 70 of 123
            Pseudo Genes (internal stop)      :: 23 of 123
            Pseudo Genes (multiple problems)  :: 13 of 123
            ##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..1979
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ICU-2-1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA2-1_07"
                     /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            complement(join(1360..1979,1..397))
                     /locus_tag="IQN02_15085"
     CDS             complement(join(1360..1979,1..397))
                     /locus_tag="IQN02_15085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299382.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="UOC57253.1"
                     /translation="MANENQLSEIQSKIEGRGAEKRTTINQLEKLNRISNRRLSVQGTT
                     TPLKLNWSIDRITIVGKLNDTIAYWTKNGVVFVDFEQLMRLNENQGYLKSVGINGWQLF
                     DQYGEDIAYIEILKFHEGKGRIDFNPNKIGQFLASSMKGFIHDLFLDPHFSRADIACDI
                     VDVPDDFITQYRIVDPISFKPIYGRSGKLETAYWGSRASERQVRLYNKKLEQERKKVIV
                     PKEIDTWWRLEMQLRRGKATDWHAMVQESLDSFASPHFLPIDIKPIDKIVIDGLIAEPS
                     NWSIIARHTKYKYRNLLKQESQNDELTNHLRETFKESADELKKELDTWLLGLDVTEK"
                     /name="replication protein"
     gene            complement(957..1160)
                     /locus_tag="IQN02_15090"
     CDS             complement(957..1160)
                     /locus_tag="IQN02_15090"
                     /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="UOC57254.1"
                     /translation="MSQLGKRYSLSKSNRKVYTLFISDSVKEGFTLGFSISFKKGTKNT
                     SISHNNRELTDSQKINGLSGRK"
                     /name="hypothetical protein"
     Typing          complement(2..397)
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.985"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcttattcgg attaaaatca atacgacctt ttccttcatg aaatttaagt atttcgatat
       61 acgcaatatc ttctccatat tgatcgaata attgccagcc gtttatccca actgatttca
      121 aatatccctg attttcgttc aaacgcatta attgctcgaa atcgacaaaa acaactccat
      181 ttttcgtcca ataagctatg gtatcattca gttttccgac aattgtaatt cgatcaatcg
      241 accaatttaa ttttaggggg gtggtcgtac cttgcacact taaccgcctg ttagaaatac
      301 ggttaagttt ttcgagctga tttatcgttg ttcttttttc tgcccctcga ccttcaattt
      361 ttgattgaat ttcactcaac tgattttcat ttgccatttt cgtcctccaa acgaaaaaag
      421 agacttttgg aaagaatttc cagagttcac gtaaccctaa aaattcatat ccaaaaatct
      481 ctagcttgaa gaaacctaaa aatattcgta taatgaacct gagttacgga gctaggtgaa
      541 gtagtttccg taaatagtcg agagtgttag cgcactgctc ggcttttatt ttgctctttt
      601 ttctcgtttt ctttgattat agcactcctc ctaaaaaaat aaaaagacct cagggaattt
      661 cattccccga accccttgag cctcctcctg ccgaaatgga aagggcgcac ccgctgttta
      721 tttcattcag ctatcggttt tcacaatcta acacgatcgt tccgctacca gtcgccttac
      781 aggctccatt ttcgctcctc taacgtgttt taacgattgt gccgataact aaacgaaata
      841 aacgctaaaa ccgctcagaa cgcaaaatat gccattttag agctattgta gaaaatgtag
      901 tttgaaatgc aattttcttc tttcagcttt ttatttccca cttgtaaatc tgctaattat
      961 tttctaccag acaaaccatt gattttttgg ctatcagtta actcacgatt attatgagaa
     1021 atgcttgtat tctttgttcc ctttttgaac gaaatactaa accctaaggt gaacccctcc
     1081 ttcacgctgt cgctaataaa aagagtgtaa acctttctgt tactctttga caaagagtaa
     1141 cgttttccta attgtgacat ggctgtcaca attccaaacg ctctccgagg gatttcgctg
     1201 tcacaagtga caacgaaaaa aggagccgaa agcgtgtcac gctctcaact ccttttacgc
     1261 tttattttgc ttcatgcaaa atattcgctt atcgtgaatt tacgtcacta aacattgacg
     1321 caaatccact ctcactcatc tgacttttct tattcggtat cacttctctg tcacatccaa
     1381 ccccaaaagc cacgtatcca attctttttt taattcgtct gcagattcct taaaagtctc
     1441 tcgtaaatga ttcgttaact catcattttg actttcttgc ttcagcaaat tccgatattt
     1501 atattttgta tgtctagcaa ttatcgacca attagaaggc tcagctatca aaccatcaat
     1561 aactatttta tcaataggtt ttatatcaat cggcaaaaaa tgcgggcttg caaaactatc
     1621 taagctttcc tgaaccatcg catgccaatc cgttgctttg ccacgtctta gctgcatttc
     1681 taaccgccac cacgtatcga tttcttttgg cacgattact ttttttcgtt cctgctctag
     1741 ctttttgttg tacagtcgca cttggcgctc actggcacga ctgccccagt acgctgtttc
     1801 tagcttgcca gaacggccgt agattggctt aaaagaaatc gggtctacaa tacgatactg
     1861 agtaataaag tcatccggca catctacaat atcgcaggca atatccgccc gggaaaaatg
     1921 cggatctaaa aataggtcat gaatgaatcc tttcatggaa ctagctaaaa actggccta
//
