LOCUS       NZ_CP012433              886 bp    DNA     circular CON 20-APR-2024
DEFINITION  Enterococcus faecium strain ISMMS_VRE_1 plasmid ISMMS_VRE_p5,
            complete sequence.
ACCESSION   NZ_CP012433
VERSION     NZ_CP012433.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03988632
            Assembly: GCF_001720945.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 886)
  AUTHORS   Bashir,A., Attie,O., Sullivan,M., Sebra,R., Singh,K.V., Altman,D.,
            Pak,T., Dutta,J., Chacko,K., Webster,E., Lewis,M., Hamula,C., Delli
            Carpini,K.W., Murray,B.E., Kasarskis,A., van Bakel,H. and
            Huprikar,S.
  TITLE     Genomic confirmation of vancomycin-resistant Enterococcus
            transmission from deceased donor to liver transplant recipient
  JOURNAL   PLoS One 12 (3), e0170449 (2017)
   PUBMED   28301471
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 886)
  AUTHORS   Bashir,A., Attie,O., Sebra,R., Singh,K.V., Altman,D., Pak,T.,
            Lewis,M., Dutta,J., Hamula,C., Delli Carpini,K.W., Murray,B.E.,
            Kasarskis,A., van Bakel,H. and Huprikar,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-AUG-2015) Genetics and Genomic Sciences, Mount Sinai
            School of Medicine, 1425 Madison Avenue, New York, NY 10029, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2014
            Genome Coverage                   :: 218
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001720945.1-RS_2024_04_20
            Annotation Date                   :: 04/20/2024 01:22:27
            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)                     :: 3,263
            CDSs (total)                      :: 3,169
            Genes (coding)                    :: 3,001
            CDSs (with protein)               :: 3,001
            Genes (RNA)                       :: 94
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 72
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 168
            CDSs (without protein)            :: 168
            Pseudo Genes (ambiguous residues) :: 0 of 168
            Pseudo Genes (frameshifted)       :: 79 of 168
            Pseudo Genes (incomplete)         :: 86 of 168
            Pseudo Genes (internal stop)      :: 33 of 168
            Pseudo Genes (multiple problems)  :: 27 of 168
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP012433.1.
            Bacteria available from Shirish Huprikar (shirish.
            huprikar@mssm.edu), Mount Sinai School of Medicine, One Gustave
            Levy Place,  New York, NY 10029.
            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..886
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ISMMS_VRE_1"
                     /isolation_source="human blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="ISMMS_VRE_p5"
                     /geo_loc_name="USA: New York City"
                     /lat_lon="40.7127 N 74.0059 W"
                     /collection_date="2011-05-05"
                     /collected_by="Shirish Huprikar"
     gene            complement(313..474)
                     /locus_tag="AL014_RS18010"
     CDS             complement(313..474)
                     /locus_tag="AL014_RS18010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305245.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002305245.1"
                     /translation="MKLNQLKNGRVIARFLVEVTKSGHIIIMTRRKSDKKLAKNIAECL
                     IKLSVLAK"
                     /name="hypothetical protein"
     gene            complement(690..872)
                     /locus_tag="AL014_RS16065"
                     /old_locus_tag="AL014_16085"
     CDS             complement(690..872)
                     /locus_tag="AL014_RS16065"
                     /old_locus_tag="AL014_16085"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_069314706.1"
                     /translation="MLKPFDILLFADEPTGNLDKENSTFIMNFLKNLTEKEKKAVVLVT
                     HDLNVLNYGTNIIEL"
                     /name="hypothetical protein"
ORIGIN
        1 cccacccttt cagtacgtcc tacggacgta tcgttcgcaa taccattgta cctaaaaagt
       61 acaatgagta aagctcacta aaagggtttg gcaagctcta tatttgctag ccaaatacct
      121 acgtatttag tgcaaataac cgcttgtcaa agggcgcaag ctcccccttg aatcccctca
      181 aaagccacgc tccacaatac aaaaaaagct agcaaatgct agccactttt gtaaagtttc
      241 gcttatttca ccgaagatga aattgttgct ttgcaacaaa aaacataaat gcttttttgt
      301 gtaaactact aactatttag ctaaaactga tagttttatt aaacattcag caatattttt
      361 agccaatttt ttatcagact ttcggcgagt cattatgata atatgtccac tttttgttac
      421 ttctaccaaa aatctagcaa taactctccc attcttcagt tgatttagtt tcataagtct
      481 tttgtaattg acggtttaat ttttttggca attgcaaaga ataaataagt ctatcataaa
      541 attttcatac tcttttttca ataaaatcac ttgggtgcct cctttttatt attaagtgat
      601 tatttaaatt ttgggataga gagagatgga atataaaata aaaatacccg tggtgctagt
      661 tttaaatcag ctagcatcac gggtaaaaat tataattcta taatattagt tccatagttt
      721 agaacattta agtcatgtgt tactagtaca acggcttttt tttctttttc tgttaaattt
      781 ttcagaaagt tcattataaa agttgagttt tctttatcta aatttcctgt aggttcatct
      841 gcaaataata atatatcaaa tggttttaac atatttctaa ttaatg
//
