LOCUS       NZ_CP100491             2096 bp    DNA     circular CON 22-JUL-2023
DEFINITION  Escherichia coli strain LH85-a plasmid pLH85-a-E, complete sequence.
ACCESSION   NZ_CP100491
VERSION     NZ_CP100491.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29499321
            Assembly: GCF_024224055.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2096)
  AUTHORS   Biggel,M.
  TITLE     ESBL-producing Enterobacteriaceae from poultry
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2096)
  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 02:47:25
            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)                     :: 5,168
            CDSs (total)                      :: 5,047
            Genes (coding)                    :: 4,895
            CDSs (with protein)               :: 4,895
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 45 of 152
            Pseudo Genes (incomplete)         :: 114 of 152
            Pseudo Genes (internal stop)      :: 27 of 152
            Pseudo Genes (multiple problems)  :: 30 of 152
            Pseudo Genes (short protein)      :: 3 of 152
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100491.1.
            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..2096
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LH85-a"
                     /isolation_source="pooled poultry feces"
                     /host="Gallus gallus domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pLH85-a-E"
                     /geo_loc_name="Switzerland"
                     /collection_date="2022"
                     /collected_by="Institute for Food Safety and Hygiene,
                     University of Zurich"
     gene            541..1530
                     /locus_tag="NLZ16_RS25760"
                     /old_locus_tag="NLZ16_25755"
     CDS             541..1530
                     /locus_tag="NLZ16_RS25760"
                     /old_locus_tag="NLZ16_25755"
                     /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_024136759.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          1533..1614
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.59"
                     /coverage="90.0"
                     /evalue="3.37e-32"
     Typing          complement(1257..1448)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.964"
                     /coverage="100.0"
                     /evalue="6.14e-93"
ORIGIN
        1 gttcaccgtt ccctgattcg tcaaacagaa aatcgcgggg gcccgcgcct ccggcgtggg
       61 ttccgatttt gtgattgacg acggcacggg aaaaacactg gggatggtgg ttggtgtcac
      121 gcagtgagac caaccacctg caagacggtt ttttttgttg ttcacaaaat cggggtgaaa
      181 gtctgtggat gagatgggtg taagtgggtg gggttgggtg ttttgggtta ctgaaaatcc
      241 cgctcaaaat tcaagcgaat ctcgcgcgcg atccttgtat ttatacttaa gggataactc
      301 taggattcaa attcgcctcc agcccttgtg ccgcaaggcc tgaaggggga tttgtcggaa
      361 aatggttttg gagttattct gtcgggagtg gtcgcattaa aagcgacccc cgcaacgagg
      421 gcaatcgttc gggggtgtga ccacctgtag gaattcgaat tggtgatacg actaacacaa
      481 caggtgatat ggcaatgata acacgtcaga tgagccatcg cccactatcg ggtggtgcgc
      541 atgaaaaacc ctgatctcca gaacctcacg gactattccc cctcagatgc gccctgggac
      601 gctcacagaa gcgtttctga tgacgtggga gggatttacc tgcttgcagc cgaatatgag
      661 cgctacgggg cgcgtatggc cctctgtggt ggtttactgc gtttcgggtg gtctaccctc
      721 aaggaaaccg gagaaacgcg tctgaggctg cgtgaggcgc atttctgccg tgtccggcat
      781 tgtcctgtct gccagtggag gcgctccctg atgtggcaag cccgtttcta ccagtccctg
      841 ccgcgtatcg tggcggatta tcccgatgcc cgctggatgt tcctgactct gaccgtgcgc
      901 aactgtgcga tcggggagct gggcgagatg ctgaaccgga tgaatgcagc ttttcagcgc
      961 atgaaggttc gcaaggagtt ccggcctgtg cagggctgga tacgtaccac ggaagtcacc
     1021 cgcgggagcg acggcagcgc acacccgcac ttccacaccc tgatgatggt gccgcctggc
     1081 atgctaaatg ggaaaagtta cgtcaggcat gaacgctggg ttgaactctg gcgggagtgt
     1141 ctgcgggtcg attatgaccc gaatgttgat gtccgggcag tgaaacctcg taagccgaag
     1201 ggcggcgaat cgctggcctg cgcgaccgcc gaactggtgc gcggtgcggt ggccgaaacc
     1261 ctgaaatatt ccacgaagcc ggctgacatg gtggccgatc ctgaatggtt cctcgaactg
     1321 acccgccaga cgcacaagcg ccgctttgtg gcgaccggcg gcgcactcaa agacgtgctg
     1381 aaactcgatc aggaaactga cgccgacatg gtgatcggtg atgatatttc cgagggcgac
     1441 gatgacggtt cacgaatcgc gttcgagtgg aaaaccgagg tcagaaagta ccgtcgctca
     1501 ccgacgaaag ataaaactga atcaggctag cggggtgtcg gggcgcagcc ctgaccagat
     1561 ggcaattgtg atagcgtcgc gtgtgacggt attacaattg cacatcctgt cccgaaaatt
     1621 cccgccgttt ctcggttttt tgagcgtcgc agaccgcacg acaaacgaac ctaaggtgag
     1681 tttgtataag tgcgcacttc gtgagattcc ctgactgcca gtttgtcgat tgcgcggaac
     1741 ggctgcggca cgaaaacggc aaaatgattt actcgccgtt tgtgtgggtt gttttgtggg
     1801 gtgtcaatgg ggttgtggtc ttttttgtgg gttaaagtgt gggtgattgt gtgggctgtg
     1861 tgttttgagt tgtgggtgat tatgtgggtc attgtgtggg ctgtatgcac ggcatttttt
     1921 tgttctccta aaacacaggc acgataagcg gcgtacacaa aacggggcgt ttcgctccgt
     1981 cgcttgtgcc aaaggggaca cccctttgca accctgtgcg gttctacgaa cctggtcagg
     2041 actgcgcccc gacaccccgc caacgcctca cggaacgcga aaaaattccg cgtacc
//
