LOCUS       NZ_CP073967             2042 bp    DNA     circular CON 24-AUG-2023
DEFINITION  Escherichia coli strain MB31 plasmid pYLMB31e, complete sequence.
ACCESSION   NZ_CP073967
VERSION     NZ_CP073967.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18877309
            Assembly: GCF_024585585.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2042)
  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  JOURNAL   Unpublished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 2042)
  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
            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 06:37:15
            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)                     :: 4,983
            CDSs (total)                      :: 4,858
            Genes (coding)                    :: 4,586
            CDSs (with protein)               :: 4,586
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 272
            CDSs (without protein)            :: 272
            Pseudo Genes (ambiguous residues) :: 0 of 272
            Pseudo Genes (frameshifted)       :: 90 of 272
            Pseudo Genes (incomplete)         :: 179 of 272
            Pseudo Genes (internal stop)      :: 68 of 272
            Pseudo Genes (multiple problems)  :: 61 of 272
            Pseudo Genes (short protein)      :: 4 of 272
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073967.1.
            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..2042
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MB31"
                     /isolation_source="Cloacal sample"
                     /host="Poultry"
                     /db_xref="taxon:562"
                     /plasmid="pYLMB31e"
                     /geo_loc_name="Cuba: Santa Cruz del Norte"
                     /collection_date="2015"
                     /genotype="ST167"
                     /note="Broiler"
     gene            complement(join(1755..2042,1..681))
                     /gene="mobV"
                     /locus_tag="KFU79_RS24755"
                     /old_locus_tag="KFU79_24530"
     CDS             complement(join(1755..2042,1..681))
                     /gene="mobV"
                     /locus_tag="KFU79_RS24755"
                     /old_locus_tag="KFU79_24530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_025766223.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRVEREKQRQMRSRGMGGMER"
                     /name="mobV"
     gene            1365..1691
                     /locus_tag="KFU79_RS24760"
                     /old_locus_tag="KFU79_24535"
     CDS             1365..1691
                     /locus_tag="KFU79_RS24760"
                     /old_locus_tag="KFU79_24535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001614210.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_001070513.1"
                     /translation="MNQAALITIANELNHDQMRVLMALLAELDYENYIQVAQIDIAEAL
                     TMQKTNVSRAVKNLIDFGIILEGPKIGRSKTYRLNPQFGWKGTVSNHKKALKNGLSVIQ
                     GGRT"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(1759..2042)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.684"
                     /coverage="96.0"
                     /evalue="9.27e-31"
ORIGIN
        1 tagacgtttg gctatggctg cctgatcttc cacgtctttg gtgaaaatgc ccttccgcaa
       61 tacacgcggc tccagcgcct ccggcgagat cgatacctgg ctacgggtgc cacggtttat
      121 cgattcgtag tagtgctgaa ctgtctgatg cgtggcgcgg cttccctcga tgccgcgctc
      181 aagacccagt ttttttactg attcagcgta ggtgctctga tcttcacgca tctttgaccg
      241 cccgccaata aactctttcg cggacagccg tccatcctgc gtcaatggca ccacgaacgc
      301 agacaggtgc ggggtggcct cgtcccggtg aaccaccgcc gccacaacac gatccttccc
      361 gtatttcttc tccagccatt gctcagagcg ggcgaaaaac tccgcctgct gccgtggtgt
      421 ggcctctttc caccactcag ggcttgctgt cataacgtat tcaacggcca gtaccgcatc
      481 tttacggcgt ttttccggca gcagctcccg cacacgcccc attgcctgat ccgttgattt
      541 ggacacagag cagtagtttt ctggtgtccg ttcagcgtta gcgttcggcg tctcacgctc
      601 tcggtagcag tgctgcaacg cgctggccac gcttcccatt cccgtcagct ttttgcagcg
      661 cattatcgcg tagttcgcca tgttcccccc tgattccggc attcattcag ccaggcgggg
      721 gagcgcattg cgatacctcc ggcgggccac tatcaagatg atagtgtact cactagactt
      781 tgcttcgcaa aatcgttcgg gaagctgcgc ttccaaaggt caaaatcaac ggcggtctgg
      841 caggtggaag gcgtcgctcc gcgtcacctc ccaccactgc caagcctgtt ttatccggtg
      901 agtcgtcaag ggtaaatggc actcgctacg ctcgcccttg acgaaatcag gcaatgaata
      961 tcgtttttga aagagcagga accgctcgcc gcaagaacgg attagggagc ggcatcgccg
     1021 cgagtctgtc cgttcgagga agcggaattt ccacttcccg tacatagaaa ttcgttcgca
     1081 ccgaacgggc agaaaaacgc ctgattttgc cgatgtatga gtacggagag taataagata
     1141 cagaagggga tgtctcggaa gccgcgccac aagcggaaag tttttgacaa tagttatctc
     1201 tagagataac ttagttatct tgagagataa ctatttttcc tgaaattgga gatttttaga
     1261 tgcggagaat cacgcaggta gaccaaagta caggggagga attaggtggt tttgtagcag
     1321 tgattcgtcc caaacaaaag tcatcattcc agaggcactt tactatgaat caagccgcgc
     1381 taattaccat tgccaatgag ctaaaccatg accagatgcg tgtactgatg gccttgctcg
     1441 cagagctgga ttacgagaac tacatccagg tcgcgcagat agatattgca gaagcgctga
     1501 ctatgcaaaa aacaaatgtc agtcgtgcgg taaaaaacct gattgatttc gggatcatac
     1561 tggaaggacc gaagattggg cggagcaaaa cgtaccgcct aaatccccag ttcggctgga
     1621 aaggtactgt cagcaaccac aaaaaagcac tgaaaaacgg cctcagcgtt atacagggcg
     1681 gcagaacctg atctctggaa tgccgcaaat ggcgtcattt tgcggcgtta gccctatcct
     1741 gcatcgcatc aaaactaacg ctccataccg cccatgccac gcgatcgcat ctgtcgctgt
     1801 ttctcacgtt caacacgctg ctgtttctcc ttctcctggt tttgctgctt aaaccgctga
     1861 gccatcatca ggatttcggt catctgctct ctggaaagcc ccttaaaagg ctctgtgacg
     1921 ctctgtaggc gtttctgctg cgcatccata gtcttctgta gctcacgcgc tctttttgcg
     1981 ttctgggcgc tctgagaggc catagcgatg gttcctgcaa agccatcgtt cactgcgtgg
     2041 ct
//
