LOCUS       NZ_CP075713             1599 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC2018-607 plasmid pSTEC2018_607-p.
ACCESSION   NZ_CP075713
VERSION     NZ_CP075713.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993387
            Assembly: GCF_016403625.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1599)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Distribution of virulence factors, antimicrobial resistance genes
            and phylogenetic relatedness among Shiga toxin-producing Escherichia
            coli serogroup O91 from human infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1599)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-MAY-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
REFERENCE   3  (bases 1 to 1599)
  AUTHORS   Stevens,M.J.A., Stephan,R. and Nusch-Inderbinnen,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2020) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2021
            Assembly Method                   :: unicycler v. 0.4.9b
            Assembly Name                     :: STEC2018-607
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Illumina MiniSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/27/2023 06:12:10
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,666
            CDSs (total)                      :: 5,550
            Genes (coding)                    :: 5,293
            CDSs (with protein)               :: 5,293
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 100 of 257
            Pseudo Genes (incomplete)         :: 139 of 257
            Pseudo Genes (internal stop)      :: 55 of 257
            Pseudo Genes (multiple problems)  :: 37 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075713.1.
            Bacteria and source DNA available from Institute Food Hygiene and
            Safety, University Zurich.
            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..1599
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC2018-607"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_607-p"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            <1..210
                     /locus_tag="JFX52_RS28035"
                     /old_locus_tag="JFX52_28035"
                     /pseudo=""
     CDS             <1..210
                     /locus_tag="JFX52_RS28035"
                     /old_locus_tag="JFX52_28035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000750516.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="shufflon system plasmid conjugative transfer
                     pilus tip adhesin PilV"
                     /name="shufflon system plasmid conjugative transfer pilus
                     tip adhesin PilV"
     gene            complement(1348..>1599)
                     /locus_tag="JFX52_RS28045"
                     /old_locus_tag="JFX52_28045"
                     /pseudo=""
     CDS             complement(1348..>1599)
                     /locus_tag="JFX52_RS28045"
                     /old_locus_tag="JFX52_28045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001454113.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-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 gtgtggaggg cattaggtgg aaagctcaag gttactcaac tttccagcac tggttacttg
       61 gggcaatttg acttttgtgc cattgccaga atgggaaatg ctgaggattc tcattactgc
      121 caggtagtcg agagtccatc tggttcacga aaatggtaca aatacgagca caagacaggt
      181 tgtattgcgt cctgtgtaac tctcaattaa gtttggtatc caaatactga aaatacccct
      241 gagccacaag agtagttttg ggccggataa gaggtgatct gataagttgc gccagcaggg
      301 acagcaaaag agatgaatgc tgtcttccca taagatgggt tattactcgc atttgtgcta
      361 atcaatgccc ctgcaacgta tccctgcaat ctggatgtgt tagcacaatc tcccccggcg
      421 gaaccaccat tccctccaga ggcgtaaaca aacagcgtac cacttcccgt attgcgacca
      481 gtaaatgatc ctcggtgtga tccaagatta ctgtaactac cgttagagga accggaagtt
      541 ctccacacac cggattggca cggaggccag tgccaatccg gtcggtggtc tggtggcaat
      601 aaagtgaact actccgcctg taagtggtat caatcatctg tagcaatgaa tcacttcatt
      661 ggcgggaaaa gtggaggatc tatctactac aaacccattc aatgcccgac cggatttatc
      721 atgacaggta cacgcatgta tggcattggt gatagcgttg atgaggaaca cgttgatgct
      781 tattgttgcc ccttcggtta aatcccagca ccaggaagat tcaggcatgt aacagtaatt
      841 gtgccgccgg actcataatt tccccacgca taattattca cataccaaac cttgttttgg
      901 tcggagtata cctgctgaaa cccaccaaaa ggcgcaccat taaggtatgt ccacgaacag
      961 tacgcatgta cgccaatgct cagatttcgg gtgtttttcc cgatattgta cgtactggta
     1021 gtgaagttca cttttgccgt tgtccagata ccggattggc actggcctcc gtgccaatcc
     1081 ggttcgtgga aatcaatagg ttcatctgcg ccgtggacat cagtaacatc cttcaccttg
     1141 tacccaacca caacgaaggc tctaggaaaa ttcaaacttt gcgttaatac atatcgcata
     1201 gatggaaagg aaaccgcgat gacgcgtgtc tggcctacag acaatccaga tgcaaacggc
     1261 gagatgaact ggagtgcgta taacggtacg ttatatggca gctactacat cactgttcac
     1321 tgcttccgct aattcatacc agaatactca ctgacacaat gcataagtag tgactgaata
     1381 atactgattc tggttggtgt tttggctgca accagctacc catgcactgt taccggaggg
     1441 ggaagaacgc ttgagaatgg catttgaaaa gctgcacatt ccaccacctc ctgtaacttt
     1501 ctttcctgaa gggcaagtcg cggtggcaat tggctgattc cagtcacttg ctgtcgcagt
     1561 aaccatctgt actgtaccgc cgccattttt ctgccacgt
//
