LOCUS       CP035665                3008 bp    DNA     circular BCT 20-APR-2023
DEFINITION  Enterococcus faecium strain UAMSEF_20 plasmid unnamed5, complete
            sequence.
ACCESSION   CP035665
VERSION     CP035665.1
DBLINK      BioProject: PRJNA518133
            BioSample: SAMN10863493
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3008)
  AUTHORS   Udaondo,Z., Abram,K., Kothari,A. and Jun,S.R.
  TITLE     Top-Down Genomic Surveillance Approach To Investigate the Genomic
            Epidemiology and Antibiotic Resistance Patterns of Enterococcus
            faecium Detected in Cancer Patients in Arkansas
  JOURNAL   Microbiol Spectr, e0490122 (2023) In press
   PUBMED   36995227
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 3008)
  AUTHORS   Jenjaroenpun,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-FEB-2019) Biomedical Informatics, University of
            Arkansas for Medical Sciences, 4301 W Markham St, Little Rock, AR
            72205, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2019
            Assembly Method                   :: Unicycler v. 0.4.4
            Assembly Name                     :: UAMS_Efae_0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 580.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 02/05/2019 10:04:23
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.7
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 3,478
            CDSs (total)                      :: 3,385
            Genes (coding)                    :: 3,057
            CDSs (with protein)               :: 3,057
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 328
            CDSs (without protein)            :: 328
            Pseudo Genes (ambiguous residues) :: 0 of 328
            Pseudo Genes (frameshifted)       :: 188 of 328
            Pseudo Genes (incomplete)         :: 104 of 328
            Pseudo Genes (internal stop)      :: 74 of 328
            Pseudo Genes (multiple problems)  :: 34 of 328
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from Tip's lab.
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..3008
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="UAMSEF_20"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA:Arkansas"
                     /collection_date="2018-09-26"
     gene            complement(269..364)
                     /locus_tag="EWH22_00565"
     CDS             complement(269..364)
                     /locus_tag="EWH22_00565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000493114.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type I toxin-antitoxin system Fst family toxin"
                     /protein_id="QCV42340.1"
                     /translation="MCFVFTNFICSLLVGLLSALFSYWLNNRNKK"
                     /name="type I toxin-antitoxin system Fst family toxin"
     gene            1017..1736
                     /locus_tag="EWH22_00570"
     CDS             1017..1736
                     /locus_tag="EWH22_00570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311815.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RepB family plasmid replication initiator
                     protein"
                     /protein_id="QCV42341.1"
                     /translation="MDEKTELTVKYQNELNLVPLKNFNAKQMDLFFALCARMKDRGLKK
                     VRFSFEELKELSDYKMTATKAFVGDLEKLYKDMLNLTYRTEDEDSIRYFVLFTGFEINK
                     TKKFVEVSVNPDLEYIINGLTAEFSRFELSAFTSLRSTYAKTLFRLLMQYRSTGYYVVR
                     IEEFRSLMDIPEYYQMGNIDQKVLNPALRELKKYFNDLKVTKIKAKKGNKIAKLEFTFS
                     SLTSDLPKISLRNWLEE"
                     /name="RepB family plasmid replication initiator protein"
     gene            complement(1873..2289)
                     /locus_tag="EWH22_00575"
     CDS             complement(1873..2289)
                     /locus_tag="EWH22_00575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QCV42342.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNRPKNHQKETSQTVTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(2292..2576)
                     /locus_tag="EWH22_00580"
     CDS             complement(2292..2576)
                     /locus_tag="EWH22_00580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QCV42343.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
     Typing          1018..1736
                     /name="rep_cluster_1763"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtttttttag cttggaccaa tgaaatacac caaaaactaa ataaaacgtc ttaaatcgaa
       61 aaatacgagc tctcagagcg actttatttg taaatgttgc atataagaaa taattacgga
      121 ttttagactt ttgtaggata tttttgaaat aaatatttat ttctgttata atttgattgc
      181 aaataagtga acacgaaaca cacgaaatcc ccagagaggt cggattctct ggggattttt
      241 ttgtgggctg agtcgcctta attaagtttt acttcttgtt tcggttattc aaccagtaac
      301 tgaacaaagc gcttaaaagc ccaacaagaa gggagcaaat aaagttagtg aacacgaaac
      361 acacctcctt ccagtcgcaa gactgtcgga taggcgacaa tcaattatac aataaaaaag
      421 caaaaataag cctaagtttt ttattgcctt ggggttgtta gggcttgccc tgaccgcctg
      481 taaggcgctt tagaacgaag gacatagttt ttatcgaatc ttgtcttaga acggcttaga
      541 cgagctctca ggacgccaca aaggagtccc taatgaatta tttttggcga aggagcctaa
      601 aggcgactgc tgcaagtaaa atgtgagagc gtagcgatca ctccttctta cagcgaccat
      661 agggagctag attggcagtt taatatcatg cgcgaacctg tttattttaa aaagtgggtg
      721 attttttggc gggaaatttt gctcgcgcgc gcgcgtttat tttatttatt ttttaaagat
      781 tttttagaac cctttttagg gggcagttga gccttactct cccaacggat acagaagggt
      841 actaacaact ttttatctga gtactaacaa ctttttatct gagtactaac aactttttat
      901 ctgagtacta acaacttttt atctgagtac taatatcctt ttgtataata acaaccaacc
      961 tatttacgag ttggttgtta aaggttatta tttatttgta aggggggaag aaaggaatgg
     1021 atgaaaaaac ggaattaaca gtcaaatatc aaaatgaatt gaatttagta ccgctgaaaa
     1081 atttcaatgc taagcagatg gatttatttt ttgcattatg cgctcgtatg aaagatcgtg
     1141 gtttgaaaaa agttagattt tctttcgagg aattaaaaga gttaagtgat tataagatga
     1201 ctgctacaaa agcctttgtc ggtgatttag aaaagctcta taaagatatg cttaatctta
     1261 cttaccgtac tgaagatgag gattctattc gctactttgt tttgtttact ggttttgaaa
     1321 tcaataaaac aaaaaagttt gttgaagtca gtgttaatcc ggacctagaa tatattatta
     1381 atggtttaac agctgaattt agtagatttg aattatctgc tttcacgtcg ttgcgttcta
     1441 cgtatgcaaa aactctattc cgactgctta tgcagtaccg ttctactggt tattatgtag
     1501 ttcgtattga agagtttagg agcttaatgg atatcccaga atactatcaa atgggtaaca
     1561 ttgatcaaaa agtattaaat cctgcattac gagaactaaa aaaatacttc aatgatctta
     1621 aagtcacaaa aataaaagca aaaaagggca ataaaatcgc caaattagaa tttacttttt
     1681 caagcctaac gtcagatttg ccaaagattt ctctgcgtaa ctggttagaa gaataaataa
     1741 aaaagaactc gcccccctta cattaagcaa gtagacaagt cccttacaac cgactaagat
     1801 tgctagtaca ttctagcata ttgtatgggg cttctaaata aaaaacagat aggaataact
     1861 cctatctgtt ttttatcgtt ttagaaaatt tgttgggtcg aaatttctag aagtgactgt
     1921 ttgactggtt tctttttgat gattctttgg tcgatttcga tttgatggat ttagtttagc
     1981 ttcgattttt tctttcactt cttgatatac tttagaattt gtgccaataa gaacgcctgt
     2041 atcttttaga tataaatcag caaattctgc gatgatttca gtcatgatgg aaatttcttt
     2101 tcccatagca tttagttttg cctgattgct ggtagtggtc gtgttggtat cgggttcata
     2161 actcatacat aaaaagcgaa tggcttccga gtagttattg atatctggat ttttttcgat
     2221 gatggaatct aaaacgtcaa catgactagg gtacaaagta acatgttttt ggacagaagt
     2281 ttttctcatg gttatatcat tcctccgata agcatttcaa tgatttgatt atttgtgtag
     2341 acatactcgc ttaatatttg agtattttct gtttggatag caataaattt atcgagcaat
     2401 aaatcgaatt ggtctttttt gtaagtcgta agttgacggt caaaatcact ttcgattaaa
     2461 acttttagat atttatttcg actccatttt tctcctgttt tattcgtgag ttcttggcaa
     2521 cgtttgtcta ttgttgcaac aaactttgga tcaatattcc gaactaaaat gtccataaaa
     2581 aatctccttt tgcaattatg tataatttat gtataccata caaatactat atttgtatag
     2641 ctgttttttg ccaaaatgct atacataagc tacccacgat ggcgaaaaag tgatatcaaa
     2701 tttttttctg agaaacgtga taggcacagc ctatctaccc acttttttta gaaagtgggt
     2761 acacgtttcc ttatgctctt taaaattcgg gggggagtgc tgcacgtgta atcgataacc
     2821 aaatttaaca gacgaaaaat tgttggaata taaaaatatg acacccgaaa gaaaacgatc
     2881 gttggaaaaa ttaatgcaac tagtgaacga agacggcgga atttcagacg cagcttttga
     2941 cgcatggagc gaatttcatg gagaatataa ttaagtgggt ttaaatggct ctaaaatcgc
     3001 ttctaaga
//
