LOCUS       NZ_CP131833             2189 bp    DNA     circular CON 25-APR-2024
DEFINITION  Enterococcus faecium strain 2016C07-254 plasmid p2016C07-254-8,
            complete sequence.
ACCESSION   NZ_CP131833
VERSION     NZ_CP131833.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36766201
            Assembly: GCF_038441105.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2189)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Rapid Diagnostics and Real-time Genomic Surveillance System for
            Pathogens from Culture
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2189)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JUL-2023) National Institute of Infectious Diseases
            and Vaccinology, National Health Research Institutes, No. 35, Keyan
            Road, Zhunan Town, Miaoli County 350, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 28-SEP-2022
            Assembly Method                   :: CCBGpipe v. 1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology :: Oxford Nanopore MinION and Illumina iSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038441105.1-RS_2024_04_25
            Annotation Date                   :: 04/25/2024 19:54:46
            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)                     :: 3,049
            CDSs (total)                      :: 2,960
            Genes (coding)                    :: 2,846
            CDSs (with protein)               :: 2,846
            Genes (RNA)                       :: 89
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 67
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 114
            CDSs (without protein)            :: 114
            Pseudo Genes (ambiguous residues) :: 0 of 114
            Pseudo Genes (frameshifted)       :: 39 of 114
            Pseudo Genes (incomplete)         :: 61 of 114
            Pseudo Genes (internal stop)      :: 29 of 114
            Pseudo Genes (multiple problems)  :: 12 of 114
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP131833.1.
            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..2189
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="2016C07-254"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p2016C07-254-8"
                     /geo_loc_name="Taiwan"
                     /collection_date="2016"
                     /collected_by="NHRI"
     gene            join(1797..2189,1..573)
                     /locus_tag="Q7580_RS15240"
                     /old_locus_tag="Q7580_15165"
     CDS             join(1797..2189,1..573)
                     /locus_tag="Q7580_RS15240"
                     /old_locus_tag="Q7580_15165"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /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: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_002305972.1"
                     /translation="MSKRGTIINEWENLTALSNRRLSVQTLTTPLKIQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRLNENNGYVKSVGLNGWQIVDKHDENIAYIEILKYQE
                     GQGRIDFNPNKISQFLAGSMKNFIHDLFLEPHFSRADIACDIIDVPDDFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQETKRKIVPPEIKTWWRLELQLRRG
                     KATDWYAMVHESLDSFASPHFLPTDTKHTDRIMIAGLISDQNLWAGLARHTKYKYRNLL
                     KKESQSDELVNHLRETFSESADVLKKELDTWLLGLDVTEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            1032..>1214
                     /locus_tag="Q7580_RS15245"
                     /old_locus_tag="Q7580_15170"
                     /pseudo=""
     CDS             1032..>1214
                     /locus_tag="Q7580_RS15245"
                     /old_locus_tag="Q7580_15170"
                     /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"
ORIGIN
        1 tttttagaac cacatttctc acgtgctgat attgcttgcg acattatcga tgtgcctgat
       61 gattttatta cgcaatatcg tgtggttgac cctgtttcat tcaaaccaat ctatgggcgg
      121 tctgggaagc tggaaacggc atattggggt agtcgtgcca gtgagcgaca aataaggatg
      181 tacaacaaaa aattggaaca agaaaccaaa cggaaaattg taccaccgga aataaaaact
      241 tggtggcgac tggaattgca gttacggcgt ggaaaagcta ctgattggta tgcgatggtt
      301 catgaaagtt tagacagttt cgcaagtcct cattttttgc cgactgatac aaagcatact
      361 gatagaatta tgattgcagg attgatttca gatcaaaatt tatgggctgg cttggctcgt
      421 catacaaaat ataaatatcg aaatttgttg aaaaaagaaa gccaaagtga tgagttagtt
      481 aatcatttac gagagacatt ttcggaatcg gcagatgttt tgaaaaaaga attggatacg
      541 tggcttttgg ggttggacgt gacggaagaa tgagtggatg aatttttgtc cactttttta
      601 ttttcagcac aagtcggcat ggtgggtcgt gcgtttgcag caagagcgaa aaaacgctaa
      661 cgaatccgca aatgccgact tggataaaac agttgcgcaa agagacttgg ctttttataa
      721 taaatttagg gatatcccag tgtcactctt tggggtaatt cgggggaagg agttacccct
      781 cactctggaa aattagagcg aagcagacga gattatccca atgaatatga cggcttactc
      841 ggagtgatac cgagtaaaaa agtcagataa gtgagagtaa atttacgtca atgtttaaga
      901 taagcgatta ttttgcgtga agcaaaataa agcgtaaaag gagttgagag cgtgacacgc
      961 tttcggctcc ttttttcgtt gtcacttgtg acagcgaaaa ccctcggaga gcgtttggaa
     1021 ttgtgacagc catgtcacaa ttaggaaaat gttactcttt gtcaaagagt aacagaaagg
     1081 tttacactct ttttattagc gacagcgcga aggaggggtt caccttaggg tttagtattt
     1141 cgttcaaaaa gggaacaaag aatacaagca tttctcataa taatcgtgag ttaactgata
     1201 gccaaaaaat caatggtttg tctggtagaa aataattagc agatttacaa gtgggaaata
     1261 aaaagctgaa agaagaaaat tgcatttcaa actacatttt ctacaatagc tctaaaatgg
     1321 catattttgc gttctgagcg gttttagcgt ttatttcgtt tagttatcgg cacaatcgtt
     1381 aaaacacgtt agaggagcga aaatggagcc tgtaaggcga ctggtagcgg aacgatcgtg
     1441 ttagattgtg aaagccgata gctgaatgaa ataaacagcg ggtgcgccct ttccatttcg
     1501 gcaggaggag gctcaagggg ttcggggaat gaaattccct gaggtctttt tattttttta
     1561 ggaggagtgc tataatcaaa gaaaacgaga aaaaagagca aaataaaagc cgagcagtgc
     1621 gctaacactc tcgactattt acggaaacta cttcacctag ctccgtaact caggttcatt
     1681 atacgaatat ttttaggttt cttcaagcta gagatttttg gatatgaatt tttagggtta
     1741 cgtgaactct ggaaattctt tccaaaagtc tctttttctt tgaggaggaa caaaatttga
     1801 gtaaacgtgg cacgatcata aatgagtggg aaaatttaac agccctatct aacaggcggt
     1861 taagtgtgca aactttgacc acccccctta aaatacagtg gtcaattgac cgaattacca
     1921 ttgttggaaa actcaaagag aatatttatt atcacacgca aaatgatgta ttgattttag
     1981 actttgaaca gttaatgcga ctgaatgaaa ataatggtta tgttaaatct gttggtctaa
     2041 atggttggca aattgtggat aagcatgatg agaatattgc ttacattgaa attttgaaat
     2101 atcaagaagg gcaagggcga attgacttta acccaaataa aattagccaa tttttggcgg
     2161 gttcgatgaa gaactttatc catgattta
//
