LOCUS       CP057758                3971 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB16-C08 plasmid pRHB16-C08_8, complete
            sequence.
ACCESSION   CP057758
VERSION     CP057758.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148134
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3971)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 3971)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: RH02 T2-C08
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 74.1494556741556x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:30:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 6,063
            CDSs (total)                      :: 5,939
            Genes (coding)                    :: 5,713
            CDSs (with protein)               :: 5,713
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 0 of 226
            Pseudo Genes (frameshifted)       :: 70 of 226
            Pseudo Genes (incomplete)         :: 133 of 226
            Pseudo Genes (internal stop)      :: 42 of 226
            Pseudo Genes (multiple problems)  :: 15 of 226
            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..3971
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB16-C08"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB16-C08_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(680..820)
                     /locus_tag="HVX17_30295"
     CDS             complement(680..820)
                     /locus_tag="HVX17_30295"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMM30826.1"
                     /translation="MSLSDRELARIIATERHSTPLRAGAAMAELKRRGYANAEEIKALL
                     K"
                     /name="hypothetical protein"
     gene            complement(1022..2221)
                     /locus_tag="HVX17_30300"
     CDS             complement(1022..2221)
                     /locus_tag="HVX17_30300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558175.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /protein_id="QMM30827.1"
                     /translation="MLSGFTPRPLKRLFTANQCWTSFLDAGGLRDIEVEAVTKMLACGT
                     RILGVKEFGCDNPDCQHVKYLTNSCGSRACPSCGKKATDLWTATQLNRLPDCDWVHLVF
                     TLPDTLWPVFESNRWLLNDVCRLAVENLLYAARKRGLEPGIFCAIHTYGRRLNWHPHVH
                     VSVTCGGLNKHGQWKKLSFLKDAMRSRWMWNMRQLLLKAWSEGMAMPESLSHITTESQW
                     RSLVLKSGGKYWHVYMSKKTAGGRNTARYLGRYLKKPPIAASRLAHYNGGASLSFRYLD
                     HKTGETATETLTQRELVARMKQHIPEKFFKMVRYFGFLANRVCGEKLPQVYRALGMDKP
                     EPVAKVCYAQMVKQFLSRDPFECVLCGCRMVYRRAIAGLNVSGLKKNARDISLLRYMPA
                     "
                     /name="IS91 family transposase"
     gene            complement(2231..2419)
                     /locus_tag="HVX17_30305"
     CDS             complement(2231..2419)
                     /locus_tag="HVX17_30305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957857.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMM30828.1"
                     /translation="MLTRKSIDTVLLSVGAEKLSQREWDWMKMLKPMDPPPAMVTTSIL
                     KRRGDTAALTLLQDTGV"
                     /name="hypothetical protein"
     gene            complement(2434..2616)
                     /locus_tag="HVX17_30310"
     CDS             complement(2434..2616)
                     /locus_tag="HVX17_30310"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMM30825.1"
                     /translation="MGFWDKAFDVAKTVGKAAWEETKAANEPRQPGGCKLKTAPVRPVV
                     AARPAEYVCSEDLFY"
                     /name="hypothetical protein"
     gene            complement(3682..3876)
                     /locus_tag="HVX17_30315"
     CDS             complement(3682..3876)
                     /locus_tag="HVX17_30315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QMM30829.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          170..414
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.683"
                     /coverage="88.0"
                     /evalue="1.55e-95"
     Typing          3527..3609
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.79e-36"
ORIGIN
        1 ctgtcctgtt tttttaggac gtatcatggc acagcatatc aactgataaa taatccctgt
       61 gcagtgcagc cgctgttgca taaaatttcg ctctgcgtcg agtgtttctt aatcaataat
      121 tccgctgata ctccggaaaa acgcgagtct gttctcatgc ctgaaatgcc acaccccacg
      181 caaaactaac tttttgctga tttttcttta atatcattga gttatgtttg tggatttata
      241 ttgtttaaat ctgatttatt taaaacagcg tcgttaacgc agctacaaca ccgcgccgac
      301 accgctttgt aggggtggta ctgactattt tcataaaaaa catcgtttta tattaggggt
      361 gctgctagcg gcgcggtgtg tttttttaca ggatgcccct gggggcgctg ctaggggtgt
      421 ctattcagat atatagcaat gagtcaggga ttcacgaact gaaaatgtcc gaaaatgtgt
      481 ctcatgggca ctgtatgcgc ccaaaccgat cgtcattcac tttcatgcat agctatgcag
      541 tgagctgaaa gcgatcctga cgcatttttc cggtttaccc cggggaaaac atctcttttt
      601 gcggtgtttg cggcagaatc gcgttcagcg cgttttagcg gtgcgtacaa tgcgacgtta
      661 tggtaaatgg agtctatggt tattttagga gggcttttat ttcttcggca ttagcatagc
      721 ctcttctttt taactcagcc attgcagcgc cagctcttaa tggtgtgctg tggcgttctg
      781 ttgcaatgat tcttgctagt tcgcgatcgc tgagtgacac tacctcttct ctgtactgct
      841 tggctcgttc acgtatagga aattgaaaaa ccagtcgata ccattgtcca cgccttatgc
      901 cacgtgagcc tttctgcttt tcccaccact ccggtggttt ccctctctgt atggtcgatt
      961 tttataccgt aacaggctgt tttttatact ttcaccgatt cccgggcaca cttagcctgt
     1021 gtcaggccgg catatacctc agtagactga tatcccgcgc gtttttcttc agccctgata
     1081 cattcagccc cgcaatggcc cggcggtata ccatccggca gccacacagc acgcattcga
     1141 acgggtcacg actcaggaac tgtttcacca tttgtgcata gcacactttc gccactggtt
     1201 ccggtttatc catccccagt gcacggtaca cctgcggcag cttctctcca cacacacggt
     1261 tggcaaggaa cccgaagtac ctcaccatct taaaaaactt ctccgggatg tgctgtttca
     1321 tcctcgcgac cagctcacgc tgtgtcagcg tttccgtcgc cgtttctccc gttttgtggt
     1381 ccaggtaacg gaagctcagg cttgcccctc cgttgtaatg agccagtcgg gaagccgcta
     1441 ttggtggctt cttcagataa cgacccaggt agcgtgccgt attccgccct ccggctgtct
     1501 tcttcgacat gtacacatgc cagtattttc cgccggattt cagcaccagg cttctccact
     1561 gtgattccgt cgtgatatgt gacaacgact ccggcattgc catcccctct gaccacgctt
     1621 tcagaagcag ctgccgcata ttccacatcc accgtgaacg catcgcgtct ttcaggaagc
     1681 tcagcttttt ccactgacca tgcttattca gacctccaca ggttacagac acatgtacat
     1741 gcggatgcca gttgagacga cggccatacg tgtggatggc gcagaagata ccgggttcca
     1801 gcccccgttt tcgggcggca tacagcagat tctccaccgc cagacggcac acgtcattca
     1861 gcagccagcg gttgctttcg aacaccggcc acagcgtgtc cggcagggtg aagaccagat
     1921 gtacccagtc gcagtcagga agacgattca gctgtgttgc tgtccacagg tctgtggcct
     1981 tctttccgca ggacgggcag gcacggctgc cgcatgagtt ggtcaggtac tttacgtgct
     2041 gacagtccgg gttatcacac ccgaactctt ttacacccag tatccgtgtg ccgcaggcca
     2101 gcattttggt gacggcttca acctcgatat cgcgcagacc gcccgcatcc aggaaggacg
     2161 tccagcactg gttggctgtg aacagacgtt tcagagggcg gggagtaaaa ccggacaaca
     2221 tgaggatgga ttaaaccccg gtatcctgta gcagggtaag ggctgctgta tcgccacggc
     2281 gcttcaggat ggaggtcgtc accatcgcag gtggtgggtc catgggtttg agcattttca
     2341 tccagtccca ttctcgttgt gagagcttct cagcaccaac agagagcaga actgtatcga
     2401 tacttttgcg ggtcaacata aggggatgag tccttaataa aacaggtcct cagagcatac
     2461 atattctgcg gggcgtgcgg caacaacagg acgaaccggg gcggttttca atttgcagcc
     2521 gccaggctgc cgtggttcat ttgcagcttt tgtttcttcc catgcagctt ttcctacggt
     2581 tttagctaca tcaaaagctt tatcccagaa tcccatagtg gtctccttta tccaatcgga
     2641 gatgttgata ttctgcggct acggcatttt gggcagtagt ctggtgtccc ataacctgct
     2701 ctgctagtcc attcatgctt acaatccaag cacttagctc tatatattgt tggtgccatc
     2761 ttccacctct gttaaacaaa gaattgtata gtgcactcta cataatccgt ttaattggtg
     2821 tcaacgatgt gctggaggac ggctatcagg ttgctcttag tgttactaag aacatgataa
     2881 ctatcaaaaa aaagcaataa aagcctaatg cccccgtggt gggtaatgta taaatcacgg
     2941 ggagcgtagc gaccttcgtc tagatcgttt ctttgttttt cttaccttgc aacggcttga
     3001 ttttgtgggt gaagtgccag acgtttgcaa tcacacttta cctcttacag ctccttagtt
     3061 gctcatttta tcaggtgcta gttatcgtac agcgagacgg ggcagagctt aactctttcg
     3121 cggttaagtt acgtttccac cagttgcctg tttatcctgc cggagtccgg ggcgtagacc
     3181 tgagcatcta aggtgcagat atgggtttaa tgtcgttgaa tggtattaag ctggtagtga
     3241 caatactagc cagccctgct aggatttaga ttgctacgtc tgatcctggc aggtatctgc
     3301 aaagaattag agtaccgaag ccctgtgatt ctgtcacggg gcttttgtac atttagcgca
     3361 tgaagatcat tttgatcatg tcagatcgtt ttcaccgctc gccgcagccg aacgaccgag
     3421 cgtagcgagt cagtgagcga ggaagcggaa gtgcgcctga tgcggcattt tctccttacg
     3481 catctgtgcg gtatttcaca ccgcatatgg tgctctttct tataatctgc actgatgccg
     3541 catagttaag ccagtataca ctccgctatc gctacgtgac tgggtcaggg cttcgccccg
     3601 acacccgctg acgcgccctg gcgggcttgt ctgctgccga aaacgctcgc ggacaagccg
     3661 tgagcgcctc cgtcagcttc gttatgttcc tgtttcactt tcggtctcaa agcgaacctg
     3721 gatgctgttc tggagttctt ccgcgagttc gtgcagtcgt tcgcacatgg ccgcctgttc
     3781 gtcggcatcc agagcatcca gtttttcaag cagtgtcagg ctctggcttt tgataaatcg
     3841 cgccatattc agcgcagttt gttgctgttt gttcaccttc cgttgttctc cgtcagtacc
     3901 gggtgtcggg tggaccctga ccaggtggta attgtaagac gttgcgggcg acggtattac
     3961 aattgcacat c
//
