LOCUS       NZ_CP065763             1979 bp    DNA     circular CON 18-AUG-2023
DEFINITION  Enterococcus faecium strain 18-276 plasmid p18-276_9, complete
            sequence.
ACCESSION   NZ_CP065763
VERSION     NZ_CP065763.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16988099
            Assembly: GCF_018516925.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1979)
  AUTHORS   Dejoies,L., Sassi,M., Schutz,S., Moreaux,J., Zouari,A., Potrel,S.,
            Collet,A., Lecourt,M., Auger,G. and Cattoir,V.
  TITLE     Genetic features of the poxtA linezolid resistance gene in human
            enterococci from France
  JOURNAL   J Antimicrob Chemother 76 (8), 1978-1985 (2021)
   PUBMED   33895846
REFERENCE   2  (bases 1 to 1979)
  AUTHORS   Dejoies,L., Sassi,M., Schutz,S., Zouari,A., Potrel,S., Collet,A. and
            Cattoir,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-DEC-2020) Rennes1 University, U1230, 2 avenue du
            Professeur Leon Bernard, Rennes 35043, France
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: NOV-2020
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 250x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/18/2023 05:29:46
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,896
            CDSs (total)                      :: 2,805
            Genes (coding)                    :: 2,703
            CDSs (with protein)               :: 2,703
            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)              :: 102
            CDSs (without protein)            :: 102
            Pseudo Genes (ambiguous residues) :: 0 of 102
            Pseudo Genes (frameshifted)       :: 36 of 102
            Pseudo Genes (incomplete)         :: 68 of 102
            Pseudo Genes (internal stop)      :: 22 of 102
            Pseudo Genes (multiple problems)  :: 18 of 102
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065763.1.
            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..1979
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="18-276"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p18-276_9"
                     /geo_loc_name="France: Corbeil-Essonnes"
                     /lat_lon="48.6131 N 2.4659 W"
                     /collection_date="2018-05"
                     /collected_by="NRC for Enterococci"
     gene            140..>322
                     /locus_tag="I8F55_RS14375"
                     /old_locus_tag="I8F55_14380"
                     /pseudo=""
     CDS             140..>322
                     /locus_tag="I8F55_RS14375"
                     /old_locus_tag="I8F55_14380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002313295.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            903..1919
                     /locus_tag="I8F55_RS14380"
                     /old_locus_tag="I8F55_14385"
     CDS             903..1919
                     /locus_tag="I8F55_RS14380"
                     /old_locus_tag="I8F55_14385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299382.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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="WP_002299382.1"
                     /translation="MANENQLSEIQSKIEGRGAEKRTTINQLEKLNRISNRRLSVQGTT
                     TPLKLNWSIDRITIVGKLNDTIAYWTKNGVVFVDFEQLMRLNENQGYLKSVGINGWQLF
                     DQYGEDIAYIEILKFHEGKGRIDFNPNKIGQFLASSMKGFIHDLFLDPHFSRADIACDI
                     VDVPDDFITQYRIVDPISFKPIYGRSGKLETAYWGSRASERQVRLYNKKLEQERKKVIV
                     PKEIDTWWRLEMQLRRGKATDWHAMVQESLDSFASPHFLPIDIKPIDKIVIDGLIAEPS
                     NWSIIARHTKYKYRNLLKQESQNDELTNHLRETFKESADELKKELDTWLLGLDVTEK"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          904..1913
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atttacgata agcgattatt ttgcgtgaag caaaataaag cgtaaaagga gttgagagcg
       61 tgacacgctt tcggctcctt ttttcgttgt cacttgtgac agcgaatacc ctcggagagc
      121 atttggaatt gtgacagcca tgtcacaatt aggaaaatgt tactctttgt caaagagtaa
      181 cagaaaggtt tacactcttt ttattagcga cagcgtgaag gaggggttca ccttagggtt
      241 tagtatttcg ttcaaaaagg gaacaaagaa tacaagcatt tctcataata atcgtgagtt
      301 aactgatagc caaaaaatca atggtttgtc tggtagaaaa taattagcag atttacaagt
      361 gggaaataaa aagctgaaag aagaaaattg catttcaaac tacattttct acaatagctc
      421 taaaatggca tattttgcgt tctgagcggt tttagcgttt atttcgttta gttatcggca
      481 caatcgttaa aacacgttag aggagcgaaa atggagcctg taaggcgact ggtagcggaa
      541 cgatcgtgtt agattgtgaa aaccgatagc tgaatgaaat aaacagcggg tgcgcccttt
      601 ccatttcggc aggaggaggc tcaaggggtt cggggaatga aattccctga ggtcttttta
      661 tttttttagg aggagtgcta taatcaaaga aaacgagaaa aaagagcaaa ataaaagccg
      721 agcagtgcgc taacactctc gactatttac ggaaactact tcacctagct ccgtaactca
      781 ggttcattat acgaatattt ttaggtttct tcaagctaga gatttttgga tatgaatttt
      841 tagggttacg tgaactctgg aaattctttc caaaagtctc ttttttcgtt tggaggacga
      901 aaatggcaaa tgaaaatcag ttgagtgaaa ttcaatcaaa aattgaaggt cgaggggcag
      961 aaaaaagaac aacgataaat cagctcgaaa aacttaaccg tatttctaac aggcggttaa
     1021 gtgtgcaagg tacgaccacc cccctaaaat taaattggtc gattgatcga attacaattg
     1081 tcggaaaact gaatgatacc atagcttatt ggacgaaaaa tggagttgtt tttgtcgatt
     1141 tcgagcaatt aatgcgtttg aacgaaaatc agggatattt gaaatcagtt gggataaacg
     1201 gctggcaatt attcgatcaa tatggagaag atattgcgta tatcgaaata cttaaatttc
     1261 atgaaggaaa aggtcgtatt gattttaatc cgaataagat aggccagttt ttagctagtt
     1321 ccatgaaagg attcattcat gacctatttt tagatccgca tttttcccgg gcggatattg
     1381 cctgcgatat tgtagatgtg ccggatgact ttattactca gtatcgtatt gtagacccga
     1441 tttcttttaa gccaatctac ggccgttctg gcaagctaga aacagcgtac tggggcagtc
     1501 gtgccagtga gcgccaagtg cgactgtaca acaaaaagct agagcaggaa cgaaaaaaag
     1561 taatcgtgcc aaaagaaatc gatacgtggt ggcggttaga aatgcagcta agacgtggca
     1621 aagcaacgga ttggcatgcg atggttcagg aaagcttaga tagttttgca agcccgcatt
     1681 ttttgccgat tgatataaaa cctattgata aaatagttat tgatggtttg atagctgagc
     1741 cttctaattg gtcgataatt gctagacata caaaatataa atatcggaat ttgctgaagc
     1801 aagaaagtca aaatgatgag ttaacgaatc atttacgaga gacttttaag gaatctgcag
     1861 acgaattaaa aaaagaattg gatacgtggc ttttggggtt ggatgtgaca gagaagtgat
     1921 accgaataag aaaagtcaga tgagtgagag taaatttacg tcaatgttta gtgacgtgg
//
