LOCUS       NZ_CP124361             3004 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0093 plasmid pAVS0093-B, complete
            sequence.
ACCESSION   NZ_CP124361
VERSION     NZ_CP124361.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34375047
            Assembly: GCF_029990275.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3004)
  AUTHORS   Biggel,M.
  TITLE     Genomic characteristics of ESBL-producing Escherichia coli ST131
            isolated from the water ecosystem in a defined region in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3004)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) 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 Name                   :: GCF_029990275.1-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:29:46
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,122
            CDSs (total)                      :: 5,012
            Genes (coding)                    :: 4,759
            CDSs (with protein)               :: 4,759
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 253
            CDSs (without protein)            :: 253
            Pseudo Genes (ambiguous residues) :: 0 of 253
            Pseudo Genes (frameshifted)       :: 102 of 253
            Pseudo Genes (incomplete)         :: 183 of 253
            Pseudo Genes (internal stop)      :: 53 of 253
            Pseudo Genes (multiple problems)  :: 72 of 253
            Pseudo Genes (short protein)      :: 1 of 253
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124361.1.
            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..3004
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0093"
                     /isolation_source="environmental-WWTP"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0093-B"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2020-08-10"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(191..1051)
                     /locus_tag="QJP83_RS25555"
                     /old_locus_tag="QJP83_25555"
     CDS             complement(191..1051)
                     /locus_tag="QJP83_RS25555"
                     /old_locus_tag="QJP83_25555"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032489893.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="broad-spectrum class A beta-lactamase TEM-1"
                     /protein_id="WP_000027057.1"
                     /translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
                     ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRVDAGQEQLGRRIHYSQNDLVEYS
                     PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
                     EPELNEAIPNDERDTTMPAAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
                     LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
                     LIKHW"
                     /name="broad-spectrum class A beta-lactamase TEM-1"
     gene            complement(<1700..1855)
                     /locus_tag="QJP83_RS25560"
                     /old_locus_tag="QJP83_25560"
                     /pseudo=""
     CDS             complement(<1700..1855)
                     /locus_tag="QJP83_RS25560"
                     /old_locus_tag="QJP83_25560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_414878.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-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"
     gene            complement(2167..>2259)
                     /locus_tag="QJP83_RS25565"
                     /old_locus_tag="QJP83_25565"
                     /pseudo=""
     CDS             complement(2167..>2259)
                     /locus_tag="QJP83_RS25565"
                     /old_locus_tag="QJP83_25565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_414879.3"
                     /note="incomplete; partial in the middle of a contig;
                     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"
     ARG             complement(195..1051)
                     /name="blaTEM-1"
                     /gene="blaTEM-1"
                     /gene_name="broad-spectrum class A beta-lactamase TEM-1"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          2256..2765
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.737"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 acggcaaaag caccgccgga catcagcgct atctctgctc tcaggggtct gacgctcagt
       61 ggaacgaaaa ctcacgttaa gggattttgg tcatgagatt atcaaaaagg atcttcacct
      121 agatcctttt aaattaaaaa tgaagtttta aatcaatcta aagtatatat gagtaaactt
      181 ggtctgacag ttaccaatgc ttaatcagtg aggcacctat ctcagcgatc tgtctatttc
      241 gttcatccat agttgcctga ctccccgtcg tgtagataac tacgatacgg gagggcttac
      301 catctggccc cagtgctgca atgataccgc gagacccacg ctcaccggct ccagatttat
      361 cagcaataaa ccagccagcc ggaagggccg agcgcagaag tggtcctgca actttatccg
      421 cctccatcca gtctattaat tgttgccggg aagctagagt aagtagttcg ccagttaata
      481 gtttgcgcaa cgttgttgcc attgctgcag gcatcgtggt gtcacgctcg tcgtttggta
      541 tggcttcatt cagctccggt tcccaacgat caaggcgagt tacatgatcc cccatgttgt
      601 gcaaaaaagc ggttagctcc ttcggtcctc cgatcgttgt cagaagtaag ttggcagcag
      661 tgttatcact catggttatg gcagcactgc ataattctct tactgtcatg ccatccgtaa
      721 gatgcttttc tgtgactggt gagtactcaa ccaagtcatt ctgagaatag tgtatgcggc
      781 gaccgagttg ctcttgcccg gcgtcaacac gggataatac cgcaccacat agcagaactt
      841 taaaagtgct catcattgga aaacgttctt cggggcgaaa actctcaagg atcttaccgc
      901 tgttgagatc cagttcgatg taacccactc gtgcacccaa ctgatcttca gcatctttta
      961 ctttcaccag cgtttctggg tgagcaaaaa caggaaggca aaatgccgca aaaaagggaa
     1021 taagggcgac acgaaaatgt tgaatactca tactcttcct ttttcaatat tattgaagca
     1081 tttaccaggg ttattgtctc atgagcggat acatatttga atgtatttag aaaaataaac
     1141 aaataggggt tccgcgcaca tttccccgaa aagtgccacc tgacgtctaa gaaaccatta
     1201 ttatcatgac attaacctat aaaaataggc gtatcacgag gccctttcgt cttcaagaat
     1261 tttataaacc gtggagcggg caatactttt gttaaatcag ctcatttttt aaccaatagg
     1321 ccgaaatcgg caaaatccct tataaatcaa aagaatagac cgagataggg ttgagtgttg
     1381 ttccagtttg gaacaagagt ccactattaa agaacgtgga ctccaacgtc aaagggcgaa
     1441 aaaccgtcta tcagggcgat ggcccactac gtgaaccatc accctaatca agtttttggg
     1501 gtcgaggtgc cgtaaagcac taaatcggaa ccctaaaggg agcccccgat ttagagcttg
     1561 acggggaaag ccggcgaacg tggcgagaaa ggaagggaag aaagcgaaag gagcgggcgc
     1621 taggcgctgg caagtgtagc ggtcacgctg cgaagcttca ccacacccgc cgcgcttaat
     1681 gcgccgctac agggcgcgtc cattcgccat tcaggctgcg caactgttgg gaagggcgat
     1741 cggtgcgggc ctcttcgcta ttacgccagc tggcgaaagg gggatgtgct gcaaggcgat
     1801 taagttgggt aacgccaggg ttttcccagt cacgacgttg taaaacgacg gccagtgaat
     1861 tgtaatacga ctcactatag ggcgaattgg gcccgacgtc gcatgctccc ggccgccatg
     1921 gccgcgggat atcactagtg cggccgcctg caggtcgacc atatgggaga gctcccaacg
     1981 cgttggatgc atagcttgag tattctatag tgtcacctaa atagcttggc gtaatcatgg
     2041 tcatagctgt ttcctgtgtg aaattgttat ccgctcacaa ttccacacaa catacgagcc
     2101 ggaagcataa agtgtaaagc ctggggtgcc taatgagtga gctaactcac attaattgcg
     2161 ttgcgctcac tgcccgcttt ccagtcggga aacctgtcgt gccagctgca ttaatgaatc
     2221 ggccaacgcg cggggagagg cggtttgcgt attgggcgct cttccgcttc ctcgctcact
     2281 gactcgctgc gctcggtcgt tcggctgcgg cgagcggtat cagctcactc aaaggcggta
     2341 atacggttat ccacagaatc aggggataac gcaggaaaga acatgtgagc aaaaggccag
     2401 caaaaggcca ggaaccgtaa aaaggccgcg ttgctggcgt ttttccatag gctccgcccc
     2461 ctgacgagca tcacaaaaat cgacgctcaa gtcagaggtg gcgaaacccg acaggactat
     2521 aaagatacca ggcgtttccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc
     2581 gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc
     2641 acgctgtagg tatctcagtt cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga
     2701 accccccgtt cagcccgacc gctgcgcctt atccggtaac tatcgtcttg agtccaaccc
     2761 ggtaagacac gacttatcgc cactggcagc agccactggt aacaggatta gcagagcgag
     2821 gtatgtaggc ggtgctacag agttcttgaa gtggtggcct aactacggct acactagaag
     2881 aacagtattt ggtatctgcg ctctgctgaa gccagttacc ttcggaaaaa gagttggtag
     2941 ctcttgatcc ggcaaacaaa ccaccgctgg tagcggtggt ttttttgttt gcaagcagca
     3001 gatt
//
