LOCUS       CP057227                6760 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB32-C18 plasmid pRHB32-C18_3, complete
            sequence.
ACCESSION   CP057227
VERSION     CP057227.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148321
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6760)
  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 6760)
  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                     :: RH13 T3-C18
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 152.268423951769x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:26:46
            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)                     :: 4,748
            CDSs (total)                      :: 4,631
            Genes (coding)                    :: 4,546
            CDSs (with protein)               :: 4,546
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 85
            CDSs (without protein)            :: 85
            Pseudo Genes (ambiguous residues) :: 0 of 85
            Pseudo Genes (frameshifted)       :: 46 of 85
            Pseudo Genes (incomplete)         :: 39 of 85
            Pseudo Genes (internal stop)      :: 19 of 85
            Pseudo Genes (multiple problems)  :: 18 of 85
            CRISPR Arrays                     :: 2
            ##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..6760
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB32-C18"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB32-C18_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5669..6760,1..1545)
                     /locus_tag="HVZ04_23725"
     CDS             join(5669..6760,1..1545)
                     /locus_tag="HVZ04_23725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012443154.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DEAD/DEAH box helicase family protein"
                     /protein_id="QME83969.1"
                     /translation="MAKKPKSAGREKLLFNKLKQFDEPGLFHDNYQTPDYIQANLKDIL
                     RPYQHSALRYLHYTQRKRDDALLHYRHLLFHMATGAGKTMVMAGTILYLFKEFGYQNFI
                     FFVHTDAIIQKTRENLLNPQSPKYLFSHELEIDGEKITIAPVDIFPSVPERNTIYLKLS
                     TIHKMHDELNSYRENSITYEDLKEIPLVLLGDEAHHFNAGTKARGKSKTSPENEEQTWE
                     RTIENILDLRPDNRLFEFTATIDLANKDIGQKYRDKVVYQYDLKQFMSDGYSKKVMLLE
                     ANQNDSDKMLDAVLLSQYRKLTAADHGITGFKPVILFKSNKIAISKAKQEEFSQLIAAM
                     TPESIRRHLANKKLQLSSDTSIWHKVIQRYADSDLVTVTGQIQEDFNDFNLLNVNKSDL
                     LEENPVLLNTLEEVDNPVRAVFAVAKVNEGWDVLNLYDIVRISEQASSSKTSTDSEAQL
                     IGRGARYYPFIYDGQRSFTRRFDNSTKDLSVLEQLHYHTINEPAYIKTLHASLEQADID
                     VHQDGGGTVEHARLKEDFKKSAVYQAGKLYFNEVEEIERSSRNWETYSLETRFEIQYQI
                     ACEESLDNLTGTKGGIIKPEPLVLDERFYRKAMQRISFYALDNLKRFFPKLTGIREFIR
                     SDAYLGKLKITVSVPQSLDFTTVPAKDKLHLLENVLLRISENVRRNDQKVKGTYRFISQ
                     PVKEVIKDYSLHIDPSVAINQKITAAPTIGKKWYVYDNAILNQLEHRLIKMLEAFMPKL
                     KARYDDIYVLRNDEQSTRFKLTEFGGVRGFMPDFIMILTRHSDNTYWQVFLEPKGDDRL
                     LDDAWKERMLETLNDRERIVIDENEHVRLVGIKFFANSQMDVFVSDMQNKLNDGESLET
                     SSLSLPL"
                     /name="DEAD/DEAH box helicase family protein"
     gene            complement(2725..2919)
                     /locus_tag="HVZ04_23730"
     CDS             complement(2725..2919)
                     /locus_tag="HVZ04_23730"
                     /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="QME83970.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3799..5664
                     /locus_tag="HVZ04_23735"
     CDS             3799..5664
                     /locus_tag="HVZ04_23735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006816428.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="QME83971.1"
                     /translation="MQTELIKELNKVLKAFPQFWNGEELQRSMVSDAISQKQPDLIKAL
                     VDNEKVRSVYGVDIDGIFIFDFDKLCGLLKYKEYWANSFTKYRNKVGLTSEGKYLDYSS
                     DVVLDFPFKDCILEGGMTKENQGKDEIYYNEIIAMDEVDSLLSPKAFTNAKRYTKEGVK
                     ENITKFNDDENLIIKGNNLIALHSIKKLYAGKVKLIYIDPPYNTGSDSFKYNDRFNRST
                     WLTFMKNRLEVAKEMLSDDGFIFIQCDDNESAYLKVLCDSIFGEENYRNSIYWHRTYAG
                     KTVKSKLPWNTDTILFYSKKESSLLEPYTAELSAADIKSYNKDDFDGRGKYNTVSLQKT
                     SSPGPQTTYDYIDNTGKKWSCPEKGWRMTKEKLKALENDNRLYITDKTIREKYYLKERK
                     EIGKQIDNFWHDIGNLNRVSDVAFIDGQKTEKLMQRIISLASKENDIVLDFHLGSGTSA
                     AAAHKMGRRYIGIEQMDYINEITVPRLQKVIEGEQGGISKDVNWQGSGSFVYVELVELN
                     AYFIHEIQKAQSTEELEKLFAVMKTEAYLNYQVALENVLSAEYEVDGILHKVAFSELEL
                     HEQKQLLIEILDKNQLYVNVSDMEDSDLNISESDKAFTRSFYGME"
                     /name="site-specific DNA-methyltransferase"
     Typing          2560..2645
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          2956..3054
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          3179..3434
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.248"
                     /coverage="89.0"
                     /evalue="2.69e-98"
     Typing          complement(1989..2542)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.075"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aaagtgattc agcgttacgc tgacagtgat ttagtgacgg tgactggaca aattcaggag
       61 gactttaacg actttaacct gctgaacgtc aacaagtcag acctgctgga ggaaaacccc
      121 gtcctgctga atacactgga agaagtcgat aatccagtga gagccgtctt tgctgtcgcg
      181 aaggtgaatg aaggctggga cgtacttaac ctctacgata ttgttcgcat aagcgagcag
      241 gcgagcagca gcaaaaccag cacggacagc gaagcgcagc ttattgggcg aggtgcgcgt
      301 tactacccgt tcatttatga cggtcaacgt agcttcaccc gccgttttga taacagtacg
      361 aaggatttga gcgtactgga gcaactgcac tatcacacca tcaatgaacc ggcgtacatc
      421 aaaacactgc acgcctctct ggagcaggcg gacattgacg tgcatcagga tggcggaggt
      481 acggttgaac acgccagatt gaaagaagac tttaaaaagt ccgccgtgta tcaggcgggt
      541 aagctgtact ttaacgaagt ggaagagatt gagagaagca gccgaaactg ggaaacctac
      601 tcgctggaaa cacgctttga aatacagtat cagatcgctt gcgaggagtc gctggacaac
      661 ctgacaggca caaagggggg gatcataaaa ccggaaccac tggtactgga cgagcgtttt
      721 taccgcaagg cgatgcaaag aatcagcttt tacgcgctag ataacctgaa acgcttcttc
      781 ccgaaactga caggtattcg ggagttcata cgcagtgacg cctatcttgg taagctgaaa
      841 atcaccgtca gcgtaccgca gtcactggat ttcaccaccg taccggcaaa agataagctg
      901 cacctactgg aaaacgtttt gctgcgtatc tcagagaatg tgcgtcgcaa tgaccagaag
      961 gtaaaaggca cgtaccgatt tatcagccag ccggtgaaag aggtgattaa agattacagt
     1021 ttgcatattg acccgtcggt agccattaac cagaaaatca ccgccgctcc caccattggt
     1081 aaaaaatggt acgtgtacga taatgcgata ctaaatcagc ttgagcatcg tctgataaaa
     1141 atgctggaag cattcatgcc gaagctaaaa gcgcgttatg acgatattta cgtactgcgt
     1201 aacgacgagc agtcaacgcg ctttaagctc acggagttcg gcggcgtgcg tgggtttatg
     1261 ccagatttca tcatgatact gacgcgccat tcagacaaca cttactggca ggtgttcctt
     1321 gaaccgaagg gggatgaccg tctgctggat gacgcatgga aagaacggat gctcgaaaca
     1381 ctgaatgaca gggagcgcat tgtaattgat gaaaatgagc acgtcagact ggttgggatt
     1441 aaattctttg ccaatagcca gatggacgtt tttgtcagcg acatgcagaa caagctgaat
     1501 gatggagaat cgctcgaaac ctcctcgctc tccctaccac tgtaagtcac gacaataaaa
     1561 taacggagca ttacgctccg ttattttatt gttatctcga actacctccc agggaggtga
     1621 tgattgctcc tgtaatggtt gcattgtttg ttcttgctgt tgcgaatcat tagttttgaa
     1681 tggtggttaa aaaccgttcg ctatgtttat gcctgggggg gggatgaggg ggaaaagatt
     1741 caaggatcct cttgtgatcc tttttttctg cgcgtaatct gcagcctgta aacgaaaaaa
     1801 ccaccctggc aggtggtttt tcgaaggtta gctaatcctg gcagattatc taaccgggta
     1861 actggcttgg aggagcgcag tcaccaaaat ctgttctttc agtttagcct taacaggtgc
     1921 ataacttcaa gacaaactcc tctaaatcag ttaccagtgg ctgctgccag tggcgataag
     1981 tcgtgtctta ccgggttgga ctcaagacga tagttaccgg ataaggcgca gcggtcgggc
     2041 tgaacggggg gttcgtgcac acagcccagc ttggagcgaa cgacctacac cgaaccgaga
     2101 taccaacagc gtgagctatg agaaagcgcc acgcttcccg aagggagaaa ggcggacagg
     2161 tatccggtaa gcggcagggt cggaacagga gagcgcacga gggagcttcc agggggaaac
     2221 gcctggtatc tttatagtcc tgtcgggttt cgccgactct gacttgagcg tcgatttttg
     2281 tgatgctcgt caggggggcg gagcctatgg aaaaacgcca gcggcgcggc ctttttccgg
     2341 ttcctgctct tttgctcaca tgttctttcc ggccttatcc cctgattcgg tggataatct
     2401 aattactgtc tttgcgtgag ttgataccgc tcgccgcagc cgaacgaccg agcgtagcga
     2461 gtcagtgagc gaggaagcgg aagagcgtcg gaagttgcat tttctcctta cgcatctgtg
     2521 cggcatttca catcggttat ggtgtacttt tcatacaatc tgcactgatg ccgcatagtt
     2581 aagccagtat acactccgct atcgctacgt gactgggtca tggctgcgcc ccgacacccg
     2641 ctaaaacccc ctgacgcgcc ctgacgggct tgtctgctga cgaaaacgcc cacgggaaag
     2701 ccgtgaccgc ctccgtcagc ttcgttatgt tcctgtttca ctttcggcct caaagcgaat
     2761 ctggatgctg ttctggagtt cttctgcgag ttcgtgcagt cgttcgcaca tggccgcctg
     2821 ttcgtcggca tccagagcat ccagtttttc aagcagtgtc aggctctggc ttttgataaa
     2881 tcgcgccata ttcagcgcag tttgttgttg tttgttcacc ttccgttgtt ctccgtcagt
     2941 tccgggtgtc ggggggaccc tgagcaggtg gtaattgtaa gacgttgcgg gcgacggtat
     3001 tacaattgca catcctgtcc tgtttcttta ggacgtatca tggcacagca tatcaactga
     3061 taaataatcc ctgtgcagtg cagccgctgt tgcataaaat ttcgctctgc gtcgagtgtt
     3121 tcttaatcaa taattccgct gatactccgg aaaaacgcga gtctgttctc atgcctgaaa
     3181 tgcccacacc ccacgcaaaa acaagttttt gctgattttt ctttataaat agagagttat
     3241 gacaaattag ttcttcttgc tctctttgtg atatttaaaa aagcggtgtt ggcgcagcta
     3301 caacaccgcg ccgacaccgc tttttagggg tggtactgac tattttcata aaaaacatca
     3361 tcttatatta ggggtgctgc tagcggcgcg gtgtgttttt ttacaggacg cccctggggg
     3421 cgctgctagg ggtgtctgtt cagatatgta gcaatgagtc agggattcac gaactgaaaa
     3481 tgtccgaaaa tgtgtctcat gggtactgta tgcgcccaaa ccgatcgtca ttcactttca
     3541 tgcatagcta tgcagtgagc tgaaagtgat cctgacgcat ttttccggtt taccccgggg
     3601 aaaacatctc tttttgcggt gtttgcggca gaatcgcgtt cagcgcgttt tagcggtgcg
     3661 cgcaagagcg tttatgttaa atactactcg ttctggtgca ttttcccgca actgaatcca
     3721 actcatcgct gttgggttcc agcgccgaac gctatacctt acaatcattc caatatttaa
     3781 cagtcataag gccatgacat gcagaccgaa ttaataaaag aacttaacaa ggttttaaaa
     3841 gcgttcccgc aattctggaa tggagaggaa ttacaacgtt caatggtgag tgacgctatc
     3901 agtcaaaagc agccagatct tatcaaggca ttagtcgata atgaaaaagt ccgctctgtt
     3961 tatggtgtgg atattgatgg catttttatc tttgattttg acaaattatg tggtcttcta
     4021 aaatacaaag aatattgggc taatagcttt actaaatacc ggaacaaagt gggattaact
     4081 agcgaaggta aataccttga ttacagttct gatgtggtgc tggattttcc tttcaaggat
     4141 tgtattcttg aaggtggaat gaccaaagaa aatcagggaa aagatgagat ttattataat
     4201 gaaatcatag caatggatga agttgactct ttgctttctc ccaaggcgtt cactaatgct
     4261 aagcgatata ccaaagaggg ggtaaaagaa aatatcacta aatttaacga tgatgaaaat
     4321 ttaataatta agggaaacaa tctcattgca ctacattcaa taaaaaaact ttacgcagga
     4381 aaagtaaagt taatttatat agacccgcct tacaatacag ggagtgatag ctttaagtat
     4441 aatgatcgat tcaatcgctc aacatggttg acattcatga aaaataggct tgaggtggct
     4501 aaagaaatgc tttccgatga tggctttatt tttattcaat gcgatgataa tgaatcagca
     4561 tatcttaaag ttttatgtga ttcaattttt ggagaagaga attatagaaa ctcaatctat
     4621 tggcatagaa cctacgcagg gaaaactgta aaaagtaagt tgccatggaa tacagataca
     4681 atattgtttt attctaaaaa agaaagttca ttattagagc catatacagc agaacttagt
     4741 gctgctgaca ttaaatccta taacaaggat gattttgatg gaaggggtaa atacaacact
     4801 gttagcttgc aaaaaacaag ctctccaggg ccgcaaacaa cttatgatta tatagataat
     4861 acaggtaaga aatggagttg ccctgaaaaa gggtggagaa tgacaaagga aaagttaaag
     4921 gctttggaaa acgacaatag gctatatatc actgacaaaa caatacgaga aaaatattat
     4981 cttaaagaaa gaaaagagat cgggaaacaa atagataatt tttggcatga cattgggaat
     5041 ttaaataggg tttccgatgt tgcttttatt gatggacaaa aaactgaaaa attaatgcaa
     5101 cggataatta gccttgcttc caaagaaaat gatatcgtct tggactttca tctcggcagc
     5161 ggaactagcg cagcagcagc ccataaaatg ggacgtcgct atatcggtat tgagcagatg
     5221 gattacatca atgagatcac cgtgccacgt ttgcaaaaag tcattgaggg tgagcaggga
     5281 ggtatctcaa aagacgtcaa ctggcagggg agcggcagct ttgtctacgt tgaactagtg
     5341 gaactgaacg cttacttcat acatgaaatc cagaaagcgc agtccacgga agaactcgaa
     5401 aaactctttg ccgtgatgaa gacagaggca tatctcaact atcaggtggc tctggaaaat
     5461 gtgctgtccg ctgagtacga agtggatggg atcctccata aggtagcatt cagtgaactg
     5521 gaactgcatg agcagaagca gcttttgatt gaaatcctag ataagaacca gctctacgtg
     5581 aatgtctctg atatggagga cagcgacctg aacatttcag agagtgataa agcctttacc
     5641 cgcagcttct acggaatgga gtgacggcat ggcgaagaaa ccgaagtcag caggtagaga
     5701 gaagctgctg tttaacaagc tgaagcagtt cgatgaacca ggactgttcc acgataacta
     5761 tcagacgccg gactatattc aggcaaacct gaaagatatc ctgcgtccct atcagcacag
     5821 cgcactgcgt tacctgcatt acacgcaacg taaacgtgat gacgcgcttc tgcattaccg
     5881 tcacctgctg tttcacatgg caaccggtgc agggaaaacg atggttatgg caggaacgat
     5941 actctatcta tttaaagagt tcgggtatca gaacttcatc tttttcgtac ataccgacgc
     6001 gattatccag aaaacgcgag agaacctact taacccgcaa tcgccgaagt acctgttcag
     6061 tcatgagctg gaaatcgacg gggaaaaaat caccatcgca ccggtagata tattcccgtc
     6121 cgtaccggaa cgcaacacga tttacctcaa gctctcgact atccataaga tgcacgatga
     6181 gctgaacagc tatcgagaga acagcattac ctacgaggat ttaaaagaaa tcccgcttgt
     6241 gctactcggt gacgaggcgc atcacttcaa cgccggcacc aaagctagag gcaagtcgaa
     6301 aacctcaccg gagaacgagg agcagacttg ggagcgtacg attgagaaca tcctcgacct
     6361 gcgaccggat aaccgcctgt tcgagttcac cgctaccatt gaccttgcaa acaaagatat
     6421 cggacagaaa taccgtgaca aggtggtata tcagtatgat ctgaagcagt tcatgtcaga
     6481 cggttactcg aaaaaggtca tgctgttgga agcaaaccag aacgacagcg acaagatgct
     6541 cgatgcggta ctgttaagcc agtaccgtaa actgacggca gcagatcacg gcatcaccgg
     6601 ctttaaaccg gtcattctgt tcaagtcgaa taagattgcg atatcaaagg cgaagcagga
     6661 ggagttttcg caactgattg ccgccatgac acctgagagc atcagacgtc atctggctaa
     6721 caaaaaactc cagctcagct ctgacaccag tatctggcat
//
