LOCUS       NZ_CP065783             1933 bp    DNA     circular CON 18-AUG-2023
DEFINITION  Enterococcus faecium strain 16-021 plasmid p16-021_6, complete
            sequence.
ACCESSION   NZ_CP065783
VERSION     NZ_CP065783.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16988091
            Assembly: GCF_018517105.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1933)
  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 1933)
  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                     :: MAR-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 05:34:24
            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)                     :: 2,862
            CDSs (total)                      :: 2,771
            Genes (coding)                    :: 2,662
            CDSs (with protein)               :: 2,662
            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)              :: 109
            CDSs (without protein)            :: 109
            Pseudo Genes (ambiguous residues) :: 0 of 109
            Pseudo Genes (frameshifted)       :: 38 of 109
            Pseudo Genes (incomplete)         :: 68 of 109
            Pseudo Genes (internal stop)      :: 22 of 109
            Pseudo Genes (multiple problems)  :: 16 of 109
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065783.1.
            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..1933
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="16-021"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p16-021_6"
                     /geo_loc_name="France: Caen"
                     /lat_lon="49.18 N 0.36 W"
                     /collection_date="2016-02"
                     /collected_by="NRC for Enterococci"
     gene            complement(join(<1781..1933,1..30))
                     /locus_tag="I8F57_RS14185"
                     /old_locus_tag="I8F57_14180"
                     /pseudo=""
     CDS             complement(join(<1781..1933,1..30))
                     /locus_tag="I8F57_RS14185"
                     /old_locus_tag="I8F57_14180"
                     /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            complement(230..1195)
                     /locus_tag="I8F57_RS14190"
                     /old_locus_tag="I8F57_14185"
     CDS             complement(230..1195)
                     /locus_tag="I8F57_RS14190"
                     /old_locus_tag="I8F57_14185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305967.1"
                     /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_044384225.1"
                     /translation="MSKKGTIINEWEKLTAPSNRRLSVDDKVHPLKLSWSIDRITIVGK
                     LKENIYYHTPNDVLILDFEQLMRLNEGNGYLRSVSNNGWQLLDQHEENIAYIEILKWQE
                     GKGRIDFNPNKISQFLASSMKNFIHDLFIEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRNGKLETAYWGSRSSERQIRMYNKKLEQEKKRKIVPKEIVSWWRLEMQLRRG
                     KATDWHAMVRESLDSFASPHYLPGDVKPVDRIMIKGLNQDHSEWAYISRNLKYRLRKLL
                     KEESQNDELTNHLRETFAESADDLKKELDTWLLGLDVTEE"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          complement(234..1112)
                     /name="rep_cluster_2146"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.206"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 caaagagtaa cattttccta attgtgacat ggctgtcaca attccaaatg ctctccgagg
       61 gtattcgctg tcacaagtga caacgaaaaa aggagccgaa agcgtgtcac gctctcaact
      121 ccttttacgc tttattttgc ttcacgcaaa ataatcgctt atcgtaaact cacgtcatta
      181 aacattgacg taaatttact ctcactcatc tgacttttct tattcggtat cactcctctg
      241 ttacgtctag ccctagaagc catgtgtcta attctttttt taaatcgtct gccgattctg
      301 caaaggtttc tcgcaaatga ttcgtcaatt catcattttg gctttcttct ttcaacaatt
      361 tgcgcaatct atatttcaaa tttctgctaa tatacgccca ctctgaatga tcttgattca
      421 gcccttttat cataattcta tcaacaggtt ttacatctcc aggcaagtaa tgaggacttg
      481 caaagctatc taaactttcc cgaaccatcg catgccaatc tgttgctttg ccacgtctta
      541 gctgcatttc taaccgccac caactcacga tttcttttgg cacaattttt cttttcttct
      601 cttgttccag ttttttatta tacatccgaa tttgacgttc agaagagcga gatccccaat
      661 atgccgtctc taattttcca ttccgtccat aaataggctt aaaagaaact ggatcaacta
      721 cccgatattg tgtaataaac tcatcaggta catcgataat gtcgcaagca atatctgcac
      781 gtgaaaagtg aggttcgata aacaaatcat gaataaaatt tttcatggaa ctagctaaga
      841 attgactaat cttattcgga ttgaagtcta tacgcccttt cccctcttgc cattttaaaa
      901 tttcaatata agcaatattc tcttcatgtt ggtctaacaa ctgccaacca ttattactaa
      961 cagatcttaa ataaccgtta ccttcattta ggcgcataag ctgttcaaaa tctaaaatca
     1021 acacatcatt tggagtgtga taataaatat tttctttcag ttttccgacg attgtaattc
     1081 gatcgattga ccaacttaat tttagggggt gtaccttatc gtcaacactt aaccgcctgt
     1141 tagagggggc tgttaatttt tcccactcat ttatgatcgt gcctttttta ctcaaattta
     1201 gttcctcctc aaagaaaaaa gagacttctg gaaagaattt tcaaaagttc acgtaactct
     1261 taaaaattca ttaccaaaaa atctctagtc ttgaagaaac ctaaaaatat tcgtataatg
     1321 attaagaagt tacggagcta gtgtgattag tttccgtaaa ggtcgagagt gcgtcaacac
     1381 tgctcgacta tttttttact cttttttctc attttctttg attatagcac tcctctagaa
     1441 aaaataaaaa gacctcaggg aatttcattc cccgaacccc ttgagcctcc tcctgccgaa
     1501 atagaatggc gctgccagca tttatttcgt tcagctatcg gctacacaat ctaacacgac
     1561 cgttccgcta ccagtcgcct tacaggctcc attttcgctc ctctaacgtg tttcaccgat
     1621 tgtgccgata actaaacgaa ataaacgcta aaaccgctca gaacgcaaaa tatgccattt
     1681 tagagctatt gtagaaaatg tagtttgaaa tgcaattttc ttctttcagc tttttatttc
     1741 ccacttgtaa atctgctaat tattttctac cagacaaacc attgattttt tggctatcag
     1801 ttaactcacg attattatga gaaatgcttg tattttttgt tccctttttg aacgaaatac
     1861 taaaccccaa gttaaacccc tccttcgcgc tgtcgccaat aaaaagagtg taaacctttc
     1921 tgttactctt tga
//
