LOCUS       CP063728                2699 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18MD05VL07 005213EC plasmid pVPS18EC0676-5,
            complete sequence.
ACCESSION   CP063728
VERSION     CP063728.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533952
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2699)
  AUTHORS   Tate,H., Li,C., Nyirabahizi,E., Tyson,G.H., Zhao,S.,
            Rice-Trujillo,C., Jones,S.B., Ayers,S., M'ikanatha,N.M., Hanna,S.,
            Ruesch,L., Cavanaugh,M.E., Laksanalamai,P., Mingle,L.,
            Matzinger,S.R. and McDermott,P.F.
  TITLE     A National Antimicrobial Resistance Monitoring System Survey of
            Antimicrobial-Resistant Foodborne Bacteria Isolated from Retail Veal
            in the United States
  JOURNAL   J Food Prot 84 (10), 1749-1759 (2021)
   PUBMED   34015113
REFERENCE   2  (bases 1 to 2699)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-OCT-2020) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUN-2020
            Assembly Method                   :: HGAP v. 4
            Assembly Name                     :: Microbial Assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 457x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 13:20:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.13
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,057
            CDSs (total)                      :: 4,934
            Genes (coding)                    :: 4,826
            CDSs (with protein)               :: 4,826
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 43 of 108
            Pseudo Genes (incomplete)         :: 68 of 108
            Pseudo Genes (internal stop)      :: 23 of 108
            Pseudo Genes (multiple problems)  :: 23 of 108
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..2699
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18MD05VL07 005213EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0676-5"
                     /geo_loc_name="USA:MD"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            272..427
                     /gene="pspF"
                     /locus_tag="IO773_01470"
                     /pseudo=""
     CDS             272..427
                     /gene="pspF"
                     /locus_tag="IO773_01470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309907.2"
                     /note="transcriptional activator for pspABCE which are
                     induced in response to phage proteins, membrane altering
                     stresses, and impaired proton expor; incomplete; partial on
                     complete genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="phage shock protein operon transcriptional
                     activator"
                     /name="pspF"
     gene            521..1165
                     /locus_tag="IO773_01475"
     CDS             521..1165
                     /locus_tag="IO773_01475"
                     /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="QOX30757.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     gene            complement(1667..1903)
                     /locus_tag="IO773_01480"
     CDS             complement(1667..1903)
                     /locus_tag="IO773_01480"
                     /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="QOX30756.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     ARG             522..1162
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(2069..2242)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          2215..2697
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.564"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 cagccactgg taactgattt agaggagtta gtcttgaagt tatgcgcctg ttaaggctaa
       61 actgaaagaa cagatttggt tactgcgctc ctcgtaagcc agttaccacg gttcaaagag
      121 ttgctgctct gagaaccttc gaaaaaccgc cttgcagggc ggttttttcg tttacagagc
      181 aagagattac gacgccacag aaaggatctc aagaagatcc ttcaccgtaa tggaaatcta
      241 tccaatccga gcacatagga tacacatcgt tataacgctg gatctgcgtg aattccagca
      301 gcagcaagag aaagactttc tacaaaccag cttacagcag gctaaattta accagaaaaa
      361 agccgctgaa ttactgggtc tgacttatca tcagctacgt gccttgctga agaaacacca
      421 gatctaatac gcatttgcag gtgtcatact ggcgggtttg acgcataacg tcataaggtt
      481 taccatggcg tcattactgt ataaaaacac aggcatagat atgactctgg cattagttgg
      541 cgaaaaaatt gacagaaatc gcttcaccgg tgagaaagtt gaaaatagta cattttttaa
      601 ctgcgatttt tcaggtgccg acctgagcgg cactgaattt atcggctgcc agttctatga
      661 tcgcgaaagt cagaaagggt gcaattttag tcgcgcaatg ctgaaagatg ccattttcaa
      721 aagctgtgat ttatcaatgg cagatttccg caacgtcagt gccttgggca ttgaaattcg
      781 ccactgccgc gcacaaggcg cagatttccg cggtgcaagc tttatgaata tgatcaccac
      841 gcgcacctgg ttttgcagcg catatatcac taatactaat ctaagctacg ccaatttttc
      901 gaaagtcgtg ttggaaaagt gtgagctgtg ggaaaaccgc tggatgggga ctcaggtact
      961 gggtgcgacg ttcagtggtt cagatctctc cggcggcgag ttttcgactt tcgactggcg
     1021 agcagcaaac ttcacacatt gcgatctgac caattcggag ttaggtgact tagatattcg
     1081 gggtgttgat ttacaaggcg ttaagttaga cagctaccag gcatcgttgc tcatggagcg
     1141 gcttggcatc gctgtgattg gttagttcag cgtttacacc gggagatgcg tttgacgatt
     1201 tacttttaac cagtacgact cctggcaagc attgtgaaac gttttctcca gtggacgaat
     1261 atcctgacct accgcatcaa cgacatgcca tctaatgctg cattctggac aggaatttga
     1321 tgaatatcta accaattcat tttcgcgaga acaacgaata accactcccg aatcatgaag
     1381 ccatgtctta acgaaaatat ggctaactca tagcaaaaaa aaagccccct aagggctttt
     1441 ttttgtacct gacggtcaga ccgattaaac ataacatccc ttgcccgcac ccccgcaggc
     1501 gccctcagcg caatcctgct gcatcagggc cgtttccagc acctttcctc accagtatcc
     1561 cggaaaaacg cccctgatga tttctgcgcg actgcatggc tatgcacgca ggtgaatggc
     1621 aggtgatttc gcagcgtcag caccactaaa ccgccaaaag ccaaaatcag cggcgcggcg
     1681 cgcgcggacg tgaccaggca aaatcggact gctgccgctc atcctcacgt aatgcacgct
     1741 ggcggtcggc gtaacgctgc aactcaattt gcgcacgcgc tctgttcagg acgatgtgcc
     1801 ggttaggctg atttagcttt ttacctgacg ctctttcagc tgcggcaaca gcatcatcaa
     1861 gaaatttttt ctctgcaggc gtcaagtttg tcagtctggc cataacgttc tccagtcaga
     1921 ataaatcagc acagtctgcc agacacagta gaaacgatga agcgccagcg acggtgaaag
     1981 gcagtcagaa acggtgaacg ggagcggatt ttaatccggt gccgtgaggc gttggacaag
     2041 ccgcaggcgc gtcattagct tttagccggt ttcggggcgc agccctgaac cagtcacgta
     2101 gcgctagcgg agtgtatact ggctgactat gttggcacgg atgtggaaat cagtgaagtg
     2161 cttcatgtag caggagaaaa aaggcggcac cagcgcgtca gcaggatatg tagtacagga
     2221 tatattccgc ttcctcgctc actgactcgc tgcgctcggt cgttcggctg cggcgagcgg
     2281 tgccggctta caggcggggc ggaaatttcc tgggagatac caggaaggag cttaacaggg
     2341 aagagataag gccgcggcga agccgttttt ccataggctc cgcccccctg acaaacatca
     2401 tgaaatctga cgctcaaatc agtggtggcg aaacccgatg cggcttaaag ataccaggcg
     2461 tttccccctg gtggctccct cgtgctcccc cgcattcctg cctttcggtt taccggtgtc
     2521 attccgctgt tatggccgcg tttatctcat tccacgcctg acactcagtt ccgcgaaggc
     2581 agttcgctcc tggatggact gtatgcacga accccccgtt cagtccgact gctgcgcctt
     2641 atccggtaac tatcatcttg agtccaaccc ggaaagacac gacttatcgc cactggcag
//
