LOCUS       NZ_CP100509             1593 bp    DNA     circular CON 22-JUL-2023
DEFINITION  Escherichia coli strain LH50-c plasmid pLH50-c-i, complete sequence.
ACCESSION   NZ_CP100509
VERSION     NZ_CP100509.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29499317
            Assembly: GCF_024223415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1593)
  AUTHORS   Biggel,M.
  TITLE     ESBL-producing Enterobacteriaceae from poultry
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1593)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JUL-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/22/2023 02:51:37
            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)                     :: 5,935
            CDSs (total)                      :: 5,818
            Genes (coding)                    :: 5,517
            CDSs (with protein)               :: 5,517
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 301
            CDSs (without protein)            :: 301
            Pseudo Genes (ambiguous residues) :: 1 of 301
            Pseudo Genes (frameshifted)       :: 131 of 301
            Pseudo Genes (incomplete)         :: 169 of 301
            Pseudo Genes (internal stop)      :: 69 of 301
            Pseudo Genes (multiple problems)  :: 59 of 301
            Pseudo Genes (short protein)      :: 4 of 301
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100509.1.
            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..1593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LH50-c"
                     /isolation_source="pooled poultry feces"
                     /host="Gallus gallus domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pLH50-c-i"
                     /geo_loc_name="Switzerland"
                     /collection_date="2022"
                     /collected_by="Institute for Food Safety and Hygiene,
                     University of Zurich"
     gene            join(844..1593,1..240)
                     /locus_tag="NLZ13_RS29570"
                     /old_locus_tag="NLZ13_29575"
     CDS             join(844..1593,1..240)
                     /locus_tag="NLZ13_RS29570"
                     /old_locus_tag="NLZ13_29575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_011117490.1"
                     /translation="MKNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYNPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(2..158)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.367"
                     /coverage="100.0"
                     /evalue="3.77e-75"
ORIGIN
        1 gtggctgatc ctgaatggtt cctcgaactg acccgccaga cgcacaagcg ccgctttgtg
       61 gcgaccggcg gcgcactcaa agacgtgctg aaactcgatc aggaaaccga cgccgacatg
      121 gtgatcgggg atgatatttc cgagggcgac gatgacggtt cacgcatcgc gttcgagtgg
      181 aaaaccgagg tcagaaagta ccgtcgctca ccgacgaaag ataaaactga atcaggctag
      241 cggggtgtcg gggcgaagcc ctgacacccc gccaacgcct cacggcacgc gaaaaaattc
      301 cgcgtaccgc tcaccgttct tgaactcgtc aaacagaaaa tcgcggggcc ccgcgcctcc
      361 ggcgtgggtt ccgattttgt gattgacgac ggcacgggga aaacgctggg gatggtggtt
      421 ggtgtcacgg agtgaggcca accacctgta agacggtttt ttgttgttca caaaatcggg
      481 gtgaaagtct gtggatgaga tgggtgtaag tgggtggggt tgggaggttt tgggttactg
      541 aaaatccagc tcaaaattca agcaaatctc gcgcgcgatc cttgtattta tacttaaggg
      601 ataactctag gattcaaatt ggcctccagc ccttgtcccg caaggcttga gggcacattt
      661 gctccgaaat gggtttagaa gtattctgtc ggaagtggtc gcgttaaaag cgacccccgc
      721 aacgagggca atcgttcggg ggcgtgacca cctgtagaaa ttcgaattag tgacacgaca
      781 acacaggtga tatggcaatg ataacacgtc agatgagcca tcgcccacaa tcgggtggtg
      841 cgcatgaaaa accctaaact ccagtacctc actgattatt ccccctctga cgcgccctgg
      901 gacgcacaca gaagcgtttc tgacgacgtg ggagggattt acctgcttgc ggccgaatat
      961 gagcgctacg gggctcgtat ggcctcctgt ggcggtttac tgcgtttcgg gtggtctacc
     1021 ctcaaggaaa ccggagaaac gcgtctgagg ctgcgtgagg cgcatttctg ccgtgtccgg
     1081 cactgtcctg tctgccagtg gaggcgctcc ctgatgtggc aagcccgttt ctaccagtcc
     1141 ctgccgcgta tcgtggcgga ttaccctgat gcccgctgga tgttcctgac cctgaccgtg
     1201 cgcaactgtg cgattgggga actgggcgag atgctgaacc ggatgaatgc agcttttcag
     1261 cgtatgaagg ttcgcaagga gttcctgcct gttcagggct ggatccgcac aacggaagtt
     1321 acccgcggca gcgacggcag cgcgcatccc cacttccaca ccctgatgat ggtgccgccc
     1381 tcaatgctat ctggtgacgg gtacgtaaaa catgctcgct gggttgaact ctggcgggag
     1441 tgcctgcggg tcagttacaa cccgaatgtt gatgtccggg cagtaaaacc ccgtaagcca
     1501 aaggatggcg agtccttagc ctgcgcgacc gctgaactgg tgcgcggcgc agtggccgaa
     1561 accctgaaat attccacgaa gccggctgac atg
//
