LOCUS       NZ_CP073983             2579 bp    DNA     circular CON 24-AUG-2023
DEFINITION  Escherichia coli strain MB19 plasmid pYLMB19b, complete sequence.
ACCESSION   NZ_CP073983
VERSION     NZ_CP073983.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18877305
            Assembly: GCF_024585665.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2579)
  AUTHORS   Lopez-Dorta,Y., Brilhante,M., Hernandez-Fillor,R.E., Baez,M.,
            Espinosa,I. and Perreten,V.
  TITLE     Molecular epidemiology of Extended-Spectrum Beta-Lactamase-producing
            Escherichia coli from food-producing animals in Cuba using
            whole-genome sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2579)
  AUTHORS   Lopez-Dorta,Y., Brilhante,M. and Perreten,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-APR-2021) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3012, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler v. 0.4.8; Canu v. 2.1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/24/2023 06:43:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,912
            CDSs (total)                      :: 4,788
            Genes (coding)                    :: 4,604
            CDSs (with protein)               :: 4,604
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 69 of 184
            Pseudo Genes (incomplete)         :: 107 of 184
            Pseudo Genes (internal stop)      :: 40 of 184
            Pseudo Genes (multiple problems)  :: 33 of 184
            Pseudo Genes (short protein)      :: 4 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073983.1.
            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..2579
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MB19"
                     /isolation_source="Cloacal sample"
                     /host="Poultry"
                     /db_xref="taxon:562"
                     /plasmid="pYLMB19b"
                     /geo_loc_name="Cuba: Santa Cruz del Norte"
                     /collection_date="2015"
                     /genotype="ST226"
                     /note="Broiler"
     gene            complement(join(2568..2579,1..186))
                     /locus_tag="KFU84_RS24385"
                     /old_locus_tag="KFU84_24185"
     CDS             complement(join(2568..2579,1..186))
                     /locus_tag="KFU84_RS24385"
                     /old_locus_tag="KFU84_24185"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_012772747.1"
                     /translation="MEIYPIRAHRIHIVITLDLREFQQQQEKDFLQTSLQQAKFNQKKA
                     AELLGLTYHQLRALLKKHQI"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(399..512)
                     /locus_tag="KFU84_RS24390"
                     /old_locus_tag="KFU84_24190"
     CDS             complement(399..512)
                     /locus_tag="KFU84_RS24390"
                     /old_locus_tag="KFU84_24190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032667588.1"
                     /translation="MHEPPVQSDCCALSGNYHLESNPERHDLSPLAAATGN"
                     /name="hypothetical protein"
     gene            1212..1448
                     /locus_tag="KFU84_RS24395"
                     /old_locus_tag="KFU84_24195"
     CDS             1212..1448
                     /locus_tag="KFU84_RS24395"
                     /old_locus_tag="KFU84_24195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012772745.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     gene            complement(1830..2474)
                     /locus_tag="KFU84_RS24400"
                     /old_locus_tag="KFU84_24200"
     CDS             complement(1830..2474)
                     /locus_tag="KFU84_RS24400"
                     /old_locus_tag="KFU84_24200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrB19"
                     /protein_id="WP_012954666.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     ARG             complement(1834..2474)
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          874..1047
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(404..895)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 tttcttcagc aaggcacgta gctgatgata agtcagaccc agtaattcag cggctttttt
       61 ctggttaaat ttagcctgct gtaagctggt ttgtagaaag tctttctctt gctgctgctg
      121 gaattcacgc agatccagcg ttataacgat gtgtatccta tgtgctcgga ttggatagat
      181 ttccattacg gtgaaggatc ttcttgagat cctttctgtg gcgtcgtaat ctcttgctct
      241 gtaaacgaaa aaaccgccct gcaaggcggt ttttcgaagg ttctcagagc agcaactctt
      301 tgaaccgtgg taactggctt acgaggagcg cagtaaccaa atctgttctt tcagtttagc
      361 cttaacaggc gcataacttc aagactaact cctctaaatc agttaccagt ggctgctgcc
      421 agtggcgata agtcgtgtct ttccgggttg gactcaagat gatagttacc ggataaggcg
      481 cagcagtcgg actgaacggg gggttcgtgc atacagtcca tccaggagcg aactgccttc
      541 gcggaactga gtgtcaggcg tggaatgaga taaacgcggc cataacagcg gaatgacacc
      601 ggtaaaccga aaggcaggaa tgcgggggag cacgagggag ccaccagggg gaaacgcctg
      661 gtatctttaa gccgcatcgg gtttcgccac cactgatttg agcgtcagat ttcatgatgt
      721 ttgtcagggg ggcggagcct atggaaaaac ggcttcgccg cggccttatc tcttccctgt
      781 taagctcctt cctggtatct cccaggaaat ttccgccccg cctgtaagcc ggcaccgctc
      841 gccgcagccg aacgaccgag cgcagcgagt cagtgagcga ggaagcggaa tatatcctgt
      901 actacatatc ctgctgacgc gctggtgccg ccttttttct cctgctacat gaagcacttc
      961 actgatttcc acatccgtgc caacatagtc agccagtata cactccgcta gcgctacgtg
     1021 actggttcag ggctgcgccc cgaaaccggc taaaagctaa tgacgcgcct gcggcttgtc
     1081 caacgcctca cggcaccgga ttaaaatccg ctcccgttca ccgtttctga ctgcctttca
     1141 ccgtcgctgg cgcttcatcg tttctactgt gtctggcaga ctgtgctgat ttattctgac
     1201 tggagaacgt tatggccaga ctgacaaact tgacgcctgc agagaaaaaa tttcttgatg
     1261 atgctgttgc cgcagctgaa agagcgtcag gtaaaaagct aaatcagcct aaccggcaca
     1321 tcgtcctgaa cagagcgcgt gcgcaaattg agttgcagcg ttacgccgac cgccagcgtg
     1381 cattacgtga ggatgagcgg cagcagtccg attttgcctg gtcacgtccg cgcgcgccgc
     1441 gccgctgatt ttggcttttg gcggtttagt ggtgctgacg ctgcgaaatc acctgccatt
     1501 cacctgcgtg catagccatg cagtcgcgca gaaatcatca ggggcgtttt tccgggatac
     1561 tggtgaggaa aggtgctgga aacggccctg atgcagcagg attgcgctga gggcgcctgc
     1621 gggggtgcgg gcaagggatg ttatgtttaa tcggtctgac cgtcaggtac aaaaaaaagc
     1681 ccttaggggg cttttttttt gctatgagtt agccatattt tcgtgcgaat ttttcatcgg
     1741 aatcgcatag ataaataata aactcaataa acgcgatgat cgcgggtaaa agtaaatcgt
     1801 caaacgcatc tcccggtgta aacgctgaac taaccaatca cagcgatgcc aagccgctcc
     1861 atgagcaacg atgcctggta gctgtctaac ttaacgcctt gtaaatcaac accccgaata
     1921 tctaagtcac ctaactccga attggtcaga tcgcaatgtg tgaagtttgc tgctcgccag
     1981 tcgaaagtcg aaaactcgcc gccggagaga tctgaaccac tgaacgtcgc acccagtacc
     2041 tgagtcccca tccagcggtt ttcccacagc tcacactttt ccaacacgac tttcgaaaaa
     2101 ttggcgtagc ttagattagt attagtgata tatgcgctgc aaaaccaggt gcgcgtggtg
     2161 atcatattca taaagcttgc accgcggaaa tctgcgcctt gtgcgcggca gtggcgaatt
     2221 tcaatgccca aggcactgac gttgcggaaa tctgccattg ataaatcaca gcttttgaaa
     2281 atggcatctt tcagcattgc gcgactaaaa ttgcaccctt tctgactttc gcgatcatag
     2341 aactggcagc cgataaattc agtgccgctc aggtcggcac ctgaaaaatc gcagttaaaa
     2401 aatgtactat tttcaacttt ctcaccggtg aagcgatttc tgtcaatttt ttcgccaact
     2461 aatgccagag tcatatctat gcctgtgttt ttatacagta atgacgccat ggtaaacctt
     2521 atgacgttat gcgtcaaacc cgccagtatg acacctgcaa atgcgtatta gatctggtg
//
