LOCUS       CP049998                1400 bp    DNA     circular BCT 24-SEP-2020
DEFINITION  Staphylococcus aureus strain pt214 plasmid pER05716.3A.5, complete
            sequence.
ACCESSION   CP049998
VERSION     CP049998.1
DBLINK      BioProject: PRJNA470993
            BioSample: SAMN12331031
KEYWORDS    .
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 1400)
  AUTHORS   Caban,A.B., Pak,T., Kumaresh,A., Dupper,A., Chacko,K.,
            Sullivan,M.J., Altman,D.R. and van Bakel,H.
  TITLE     PathoSPOT genomic surveillance reveals prolonged under the radar
            outbreaks of nosocomial methicillin resistant S. aureus bloodstream
            infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1400)
  AUTHORS   Caban,A.B., Pak,T., Kumaresh,A., Dupper,A., Chacko,K.,
            Sullivan,M.J., Altman,D.R. and van Bakel,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-MAR-2020) Genetics and Genomic Sciences, Icahn School
            of Medicine, One Gustave L. Levy Place Box 1498, New York, NY 10029,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2.3.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 190.163959398137x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 03/11/2020 12:46:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 2,965
            CDSs (total)                      :: 2,883
            Genes (coding)                    :: 2,780
            CDSs (with protein)               :: 2,780
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 103
            CDSs (without protein)            :: 103
            Pseudo Genes (ambiguous residues) :: 0 of 103
            Pseudo Genes (frameshifted)       :: 63 of 103
            Pseudo Genes (incomplete)         :: 31 of 103
            Pseudo Genes (internal stop)      :: 27 of 103
            Pseudo Genes (multiple problems)  :: 18 of 103
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..1400
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="pt214"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pER05716.3A.5"
                     /geo_loc_name="USA:New York City"
                     /lat_lon="40.7903114 N 73.9528738 W"
                     /collection_date="2016"
                     /collected_by="Mount Sinai Hospital"
     gene            join(1400,1..510)
                     /locus_tag="FPO77_14365"
                     /pseudo=""
     CDS             join(1400,1..510)
                     /locus_tag="FPO77_14365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_500081.1"
                     /note="frameshifted; incomplete; partial on complete
                     genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2800 domain-containing protein"
                     /name="DUF2800 domain-containing protein"
     gene            536..1093
                     /locus_tag="FPO77_14370"
     CDS             536..1093
                     /locus_tag="FPO77_14370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_500080.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2815 family protein"
                     /protein_id="QOA12257.1"
                     /translation="MKAKVLNKTKVITGKVRASYAHIFEPHSMQEGQESKYSISLIIPK
                     SDTSTIKAIEQAIEAAKEEGKVSKFGGKVPANLKLPLRDGDTEREDDVNYQDAYFINAS
                     SKQAPGIIDQNKIRLTDSGTVVSGDYIRASINLFPFNTNGNKGIAVGLNNIQLVEKGEP
                     LGGASAAEDDFDELDTDDEDFL"
                     /name="DUF2815 family protein"
     gene            1161..1400
                     /locus_tag="FPO77_14375"
                     /pseudo=""
     CDS             1161..1400
                     /locus_tag="FPO77_14375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_500079.1"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="DNA polymerase"
                     /name="DNA polymerase"
ORIGIN
        1 acggtgaagg tgagtttaaa gcaggtagtc attgtagatt ctgtaagata aagcattcat
       61 gtagaacacg tgcagaatac atgcaaaatg gtgcctcaaa agccaccaca tttgttaagt
      121 gatgaagaga ttgcagaact tttatataaa ctgcctgata tcaaaaaatg ggctgatgaa
      181 gtagaacatt atgcgtatag atcaagcgaa agaaaatgat aaaaaactat cctgggtgga
      241 agcttgtaga aggtcgttca cgaagaatga taactgatac aaaagcaatg cttgaaaagt
      301 tagttgaagc gggttataaa acctgaagat attacagaaa ccaagttact tagcattacg
      361 aatttagaaa aattaattgg taaaaaagca ttttctaaaa ttacagaggg ttttatagaa
      421 aagccgcaag gtaaattaac acttgctacc gagtcggata aacgaccagc tataaagcaa
      481 tctgctgaag atgattttga caaactataa aaatttaaaa ggacggtata taaacatgaa
      541 agcaaaagta ttaaataaaa ctaaagtgat tacaggaaaa gtaagagcat catatgcaca
      601 tatttttgaa cctcacagta tgcaagaagg gcaagaatca aagtattcaa tcagtttaat
      661 cattcctaaa tcagatacaa gtacgataaa agccattgaa caagctatag aagctgctaa
      721 agaagaagga aaagttagta agtttggagg caaagttcct gcaaatctga aacttccatt
      781 acgtgatgga gatactgaaa gagaagatga tgtcaattat caagacgctt attttattaa
      841 cgcatcaagc aaacaagcac ctggtattat tgaccaaaac aaaattagat taacggattc
      901 tggaactgtt gtaagtggtg attatattag agcttcaatt aatctatttc ctttcaacac
      961 aaatggtaat aagggtatcg cagttggatt gaacaacatt caacttgtag aaaaaggcga
     1021 acctcttggc ggtgcaagtg cagcagaaga tgatttcgat gaattagaca ctgatgatga
     1081 ggatttctta taagtcaata ggtggggttt tagccccact ttaattttaa agaaattgag
     1141 gtgtcaagaa tttgagattt atgaatatag atattgaaac atatagcagt aatgatattt
     1201 cgaaatgtgg tgcctataaa tacacagaag ctgaagattt cgaaatttta attatagctt
     1261 attcaataga tggtggagcg attagtgcga ttgacatgac taaagtagat aatgagcctt
     1321 tccacgctga ttttgagacg tttaaaattg ctctttttga tcctgctgta aaaaagtatg
     1381 cattcaatgc taatttcgaa
//
