LOCUS       NZ_CP067253             6200 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Escherichia coli strain ESBL_DR28 plasmid pESBL_DR28c, complete
            sequence.
ACCESSION   NZ_CP067253
VERSION     NZ_CP067253.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17214844
            Assembly: GCF_017639045.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6200)
  AUTHORS   Biggel,M.
  TITLE     Characterization of fosA carrying plasmids from multidrug resistant
            Enterobacteriaceae food and environmental isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6200)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore MinIon
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 03:29:40
            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)                     :: 4,860
            CDSs (total)                      :: 4,741
            Genes (coding)                    :: 4,497
            CDSs (with protein)               :: 4,497
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 244
            CDSs (without protein)            :: 244
            Pseudo Genes (ambiguous residues) :: 0 of 244
            Pseudo Genes (frameshifted)       :: 84 of 244
            Pseudo Genes (incomplete)         :: 158 of 244
            Pseudo Genes (internal stop)      :: 52 of 244
            Pseudo Genes (multiple problems)  :: 49 of 244
            Pseudo Genes (short protein)      :: 4 of 244
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP067253.1.
            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..6200
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ESBL_DR28"
                     /isolation_source="imported food: chilli pepper"
                     /db_xref="taxon:562"
                     /plasmid="pESBL_DR28c"
                     /geo_loc_name="Switzerland: Zurich"
                     /collection_date="2014"
                     /collected_by="ILS, University of Zurich"
     gene            complement(501..650)
                     /locus_tag="JJB16_RS23910"
                     /old_locus_tag="JJB16_23905"
     CDS             complement(501..650)
                     /locus_tag="JJB16_RS23910"
                     /old_locus_tag="JJB16_23905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1839..2654
                     /gene="sul2"
                     /locus_tag="JJB16_RS23915"
                     /old_locus_tag="JJB16_23910"
     ARG             1840..2651
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2715..3518
                     /gene="aph(3'')-Ib"
                     /locus_tag="JJB16_RS23920"
                     /old_locus_tag="JJB16_23915"
     ARG             2716..3515
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            3518..4354
                     /locus_tag="JJB16_RS23925"
                     /old_locus_tag="JJB16_23920"
     CDS             3518..4354
                     /locus_tag="JJB16_RS23925"
                     /old_locus_tag="JJB16_23920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480968.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(<4461..4865)
                     /locus_tag="JJB16_RS23930"
                     /old_locus_tag="JJB16_23925"
                     /pseudo=""
     CDS             complement(<4461..4865)
                     /locus_tag="JJB16_RS23930"
                     /old_locus_tag="JJB16_23925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /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="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(4909..5298)
                     /locus_tag="JJB16_RS23935"
                     /old_locus_tag="JJB16_23930"
     CDS             complement(4909..5298)
                     /locus_tag="JJB16_RS23935"
                     /old_locus_tag="JJB16_23930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            5516..5956
                     /locus_tag="JJB16_RS23940"
                     /old_locus_tag="JJB16_23935"
     CDS             5516..5956
                     /locus_tag="JJB16_RS23940"
                     /old_locus_tag="JJB16_23935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011161230.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     ARG             3519..4351
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(686..859)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          783..1388
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggggacgcaa tttattgcgt ggccgtgaag cgttgccggc gcagccggaa aacccgctgt
       61 cagcacgttc aggaaggggg tgatgtacaa atggcacaga ggatgaaagt gacgtatgag
      121 ctgaaggaat gatgtaaaag tgatgtataa gtgatgtaaa agtgatgtat gaactgaagg
      181 agcgatgtaa ttctgtagtc aggaagaata acccgttcat gcaggcatga acgatacagt
      241 gaggaacgct ttttttgtca cgatctcccc ttaacctgcg taaatcaccc gccatggttg
      301 attatttttc aacctcaaaa tggtcataca cctaacgcag ccgcgatttt catcgcaact
      361 gcatgaatta aaagaaaaaa aaggaatatt tcgttttcac gagtaatacc cgggtattaa
      421 aaatccactg taattacatg aaaataaaga aataaaaggt aataccggag tattaccacg
      481 tacgcgggca agcgaaaaag ctataacgct tcccggccga caggcgaccc aaaatccaca
      541 ggggcatgca ggttctcttc agtaacctgc gccattaaat caaaaaggtc atattcgccg
      601 ggaagctgcg tatcagtcga atccagttgt tcatcatatt cagatggcat ggggtgatat
      661 ccagtagctg agaggttgtt agcgggtttc ggggcgcagc cctgaaccag tcatgtagcg
      721 ctagcggagt gtatactggc ttactatgtt gccacgattg cgaaaatcag tgaagtgctt
      781 catgtggcag gagaaaaaag gcagcaccgg cgcgtcagca gaatatgcga tacaggagat
      841 attccgcttc ctcgctcact gactcgctac gctcggtcgt tcggctgcgg cgagcggtac
      901 cggcttacgg acggggacgg aaatttcctg gaagatacca ggaagacact tagcaaagaa
      961 gagataaggc cacggcgaag ccgtttttcc ataggctccg cccccctgac aagcatcgca
     1021 aaatctgacg ctcaaatcag tggtggcgaa acccgacagg actataaaga tcccaggcgt
     1081 ttccccctgg tagctccctc gtgcgctctc ctgttcctgc ctttcggttt accggtgtca
     1141 ttccgctgtt atggccgcgg tttctcattc cacgcctgac actcagttcc gtgaaggcag
     1201 ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgaccgc tgcgccttgt
     1261 ccggtaacta tcaacttgag tccaacccgg aaagacacga caaaacgcca ctggcagcag
     1321 ccattagtaa caggagtgca cgagaagata gattaagagg tcttgaagta gaggcctgac
     1381 tgcggctaca ctgaaagaac agttttggta atggcggtct cgtgaaccct gttaccgggt
     1441 taagcagttc cccaactgac ttaaccttcg aacaaaccgc ctccccaggc ggttttttcg
     1501 tttacagagc aagagattac gattcattga aaaggatctc aagaagatcc tttgtagatt
     1561 actatcaatt aatcttccga acatgacacc agtcactgtt gattacggtt aaaccgctcc
     1621 gtaacaggtt tccctcgtat tggtgacttg cagcaccaaa gaagcaaaaa agataaatat
     1681 atctacttat tgagagatga tatatttatt tccaaaatgc tacagataca tcatcatgaa
     1741 acggatcacc gcaaacaggt tactcgcctg gggattccct ttcgacccga gcatccgtat
     1801 gagactcatg ctcgattatt attattatag aagcccccat gaataaatcg ctcatcattt
     1861 tcggcatcgt caacataacc tcggacagtt tctccgatgg aggccggtat ctggcgccag
     1921 acgcagccat tgcgcaggcg cgtaagctga tggccgaggg ggcagatgtg atcgacctcg
     1981 gtccggcatc cagcaatccc gacgccgcgc ctgtttcgtc cgacacagaa atcgcgcgta
     2041 tcgcgccggt gctggacgcg ctcaaggcag atggcattcc cgtctcgctc gacagttatc
     2101 aacccgcgac gcaagcctat gccttgtcgc gtggtgtggc ctatctcaat gatattcgcg
     2161 gttttccaga cgctgcgttc tatccgcaat tggcgaaatc atctgccaaa ctcgtcgtta
     2221 tgcattcggt gcaagacggg caggcagatc ggcgcgaggc acccgctggc gacatcatgg
     2281 atcacattgc ggcgttcttt gacgcgcgca tcgcggcgct gacgggtgcc ggtatcaaac
     2341 gcaaccgcct tgtccttgat cccggcatgg ggttttttct gggggctgct cccgaaacct
     2401 cgctctcggt gctggcgcgg ttcgatgaat tgcggctgcg cttcgatttg ccggtgcttc
     2461 tgtctgtttc gcgcaaatcc tttctgcgcg cgctcacagg ccgtggtccg ggggatgtcg
     2521 gggccgcgac actcgctgca gagcttgccg ccgccgcagg tggagctgac ttcatccgca
     2581 cacacgagcc gcgccccttg cgcgacgggc tggcggtatt ggcggcgctg aaagaaaccg
     2641 caagaattcg ttaactgcac attcgggata tttctctata ttcgcgcttc atcagaaaac
     2701 tgaaggaacc tccattgaat cgaactaata ttttttttgg tgaatcgcat tctgactggt
     2761 tgcctgtcag aggcggagaa tctggtgatt ttgtttttcg acgtggtgac gggcatgcct
     2821 tcgcgaaaat cgcacctgct tcccgccgcg gtgagctcgc tggagagcgt gaccgcctca
     2881 tttggctcaa aggtcgaggt gtggcttgcc ccgaggtcat caactggcag gaggaacagg
     2941 agggtgcatg cttggtgata acggcaattc cgggagtacc ggcggctgat ctgtctggag
     3001 cggatttgct caaagcgtgg ccgtcaatgg ggcagcaact tggcgctgtt cacagcctat
     3061 cggttgatca atgtccgttt gagcgcaggc tgtcgcgaat gttcggacgc gccgttgatg
     3121 tggtgtcccg caatgccgtc aatcccgact tcttaccgga cgaggacaag agtacgccgc
     3181 agctcgatct tttggctcgt gtcgaacgag agctaccggt gcggctcgac caagagcgca
     3241 ccgatatggt tgtttgccat ggtgatccct gcatgccgaa cttcatggtg gaccctaaaa
     3301 ctcttcaatg cacgggtctg atcgaccttg ggcggctcgg aacagcagat cgctatgccg
     3361 atttggcact catgattgct aacgccgaag agaactgggc agcgccagat gaagcagagc
     3421 gcgccttcgc tgtcctattc aatgtattgg ggatcgaagc ccccgaccgc gaacgccttg
     3481 ccttctatct gcgattggac cctctgactt ggggttgatg ttcatgccgc ctgtttttcc
     3541 tgctcattgg cacgtttcgc aacctgttct cattgcggac accttttcca gcctcgtttg
     3601 gaaagtttca ttgccagacg ggactcctgc aatcgtcaag ggattgaaac ctatagaaga
     3661 cattgctgat gaactgcgcg gggccgacta tctggtatgg cgcaatggga ggggagcagt
     3721 ccggttgctc ggtcgtgaga acaatctgat gttgctcgaa tatgccgggg agcgaatgct
     3781 ctctcacatc gttgccgagc acggcgacta ccaggcgacc gaaattgcag cggaactaat
     3841 ggcgaagctg tatgccgcat ctgaggaacc cctgccttct gcccttctcc cgatccggga
     3901 tcgctttgca gctttgtttc agcgggcgcg cgatgatcaa aacgcaggtt gtcaaactga
     3961 ctacgtccac gcggcgatta tagccgatca aatgatgagc aatgcctcgg aactgcgtgg
     4021 gctacatggc gatctgcatc atgaaaacat catgttctcc agtcgcggct ggctggtgat
     4081 agatcccgtc ggtctggtcg gtgaagtggg ctttggcgcc gccaatatgt tctacgatcc
     4141 ggctgacaga gacgaccttt gtctcgatcc tagacgcatt gcacagatgg cggacgcatt
     4201 ctctcgtgcg ctggacgtcg atccgcgtcg cctgctcgac caggcgtacg cttatgggtg
     4261 cctttccgca gcttggaacg cggatggaga agaggagcaa cgcgatctag ctatcgcggc
     4321 cgcgatcaag caggtgcgac agacgtcata ctagatatca agcgacttct cctatcccct
     4381 gggaacacat caatctcacc ggagaatatc gctggccaaa gccttagcgt aggattccgc
     4441 cccttcccgc aaacgacccc aaacaggaaa cgcagctgaa acgggaagct caacacccac
     4501 tgacgcatgg gttgttcagg cagtacttca tcaaccagca aggcggcact ttcggccatc
     4561 cgccgcgccc cacagctcgg gcagaaaccg cgacgcttac agctgaaagc gaccaggtgc
     4621 tcggcgtggc aagactcgca gcgaacccgt agaaagccat gctccagccg cccgcattgg
     4681 agaaattctt caaattcccg ttgcacatag cccggcaatt cctttccctg ctctgccata
     4741 agcgcagcga atgccgggta atactcgtca acgatctgat agagaagggt ttgctcgggt
     4801 cggtggctct ggtaacgacc agtatcccga tcccggctgg ccgtcctggc cgccacatga
     4861 ggcatgttcc gcgtccttgc aatactgtgt ttacatacag tctatcgctt agcggaaagt
     4921 tcttttaccc tcagccgaaa tgcctgccgt tgctagacat tgccagccag tgcccgtcac
     4981 tcccactctt acattgttcg cagtatctag gtacatgtta ttgcgtgcac cttcatgatg
     5041 tataatgtta ttaatgacag cagaaagatc gacagaatta atattcttcg tacctgggac
     5101 agttatcggg tgtcggccag tgatgagacc aaaggatgca gtataagatg aaccactact
     5161 attatcatgg ccaccattac caccaccgtt aaaactacct cccgaacttc cagagccgct
     5221 atgaccatca ttgtaggggt catttggtcc catgtgacca aaaccaccga cagtaccgct
     5281 atttaactct gtactcataa aattatcctc tttgactttt aaaaacagca aaaactgtat
     5341 ttataacaat gtgtttatat acagtattcg aaatactacg cccgtcaaaa ccacaccgtc
     5401 aacaggtttt ttgtgtattt ttcacgcctc acgggcagcc tcagaccttt tgtgttaaaa
     5461 cagtaatatg ttctgctgtt acaatacggt acacacagga gacactgtca cttttatggc
     5521 atggcacaca gttcaagaga cactgaaatt aacaggaaag tcgcgctcgc aattatatcg
     5581 tgacatggct aaaggccttg tcagctatcg cacaggaaaa aatgatcgcc gggagttcga
     5641 gaccagtgaa ctgattcggg cctatggcga gctgcgcact tctgagacac caaaaaggca
     5701 caaggaggga cactccaaat ctgtcgttag ccaggcggaa aatgctcagc tagacgtcat
     5761 tcagcagaaa ctggacgctc tgcagcagac tgttacccta atgcttgaag acaagatggc
     5821 gcgggaagca gaaaaccgcc tgcgaaatga ggagagggaa caactacagg ccgaaattag
     5881 ccgtctggct gacgcgctgg cacaggaaaa aaagcgggga ttctggtcgc ggctgtttcg
     5941 ctccggttca gagtaacagt gcaggtgact ctgatttacc ataacatctg ttatcagcac
     6001 cgcctgagag gccctcaggg cgtttctgac gggaaaccgg taaaacaggc aacaaaccac
     6061 ccgaaaaccc gccagaaacg cgcaggctct gtttttacgg catgcatgag tatgcgcaca
     6121 agtgcatagc gcggaaattc acaccattca gccggggtaa gtcctgtttc cggcgttctt
     6181 cccatccgaa aacggtgaac
//
