LOCUS       CP057426                6676 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB27-C09 plasmid pRHB27-C09_4, complete
            sequence.
ACCESSION   CP057426
VERSION     CP057426.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148259
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6676)
  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 6676)
  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                     :: RH04 T2-C09
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 191.788268809151x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 08:25:55
            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)                     :: 4,933
            CDSs (total)                      :: 4,814
            Genes (coding)                    :: 4,634
            CDSs (with protein)               :: 4,634
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 180
            CDSs (without protein)            :: 180
            Pseudo Genes (ambiguous residues) :: 0 of 180
            Pseudo Genes (frameshifted)       :: 64 of 180
            Pseudo Genes (incomplete)         :: 110 of 180
            Pseudo Genes (internal stop)      :: 29 of 180
            Pseudo Genes (multiple problems)  :: 22 of 180
            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..6676
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB27-C09"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB27-C09_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(6447..6676,1..472)
                     /locus_tag="HVY42_24625"
     CDS             join(6447..6676,1..472)
                     /locus_tag="HVY42_24625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMH11304.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAASSEL
                     QKNLIITAEEYFNSFPDMGRKNAEIQLQEAVDRLWDRSILLKDDEKREEFRWIQRRAQY
                     LKGEAKVQITFSDSVMPYLTQLQGQFTKVIIKNISRLSRSYSIRIYELLQQFRSTGERI
                     ISLDDFRSMLDICDKYQTYKSLNQQLLKPCIDELNLKSDLLVTVETIKKGRTVVALHFR
                     FKEDKQIKIPS"
                     /name="replication initiation protein"
     gene            833..1951
                     /locus_tag="HVY42_24630"
     CDS             833..1951
                     /locus_tag="HVY42_24630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000164328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MFS transporter"
                     /protein_id="QMH11305.1"
                     /translation="MAKLYFYLVLAASLSALSTDMIVPALPELQKAFNADYSLIQLSIS
                     GFLIVFAFSQLISGTIGDYFGKVRVMTICLIIFLIGSIVCFMANNLNMLLLGRILQAIG
                     AGAGPVISKAIAKESFPPLKLKRALSDISSTSAIIPLIAPLAGALILDYYNWNVIFIVM
                     GAFSILTILLSPKESNKQEKKTHQDNVKFVTKDFICGTILVSLMLSSLFCYISISPALF
                     MSDYGLNTFNYSVVFSLSVLFFIIGNQLSKIEKISNPWILFPLNAISVTPFLILNDAFI
                     ICVIGAMIFNLTLGAYYPIANFIALQINGSRTGLAASITGFTQTVSAGTISFLSVKISD
                     NGVSLGTTLSISCLILALLSIFVTIIIGNNKK"
                     /name="MFS transporter"
     gene            1948..3171
                     /locus_tag="HVY42_24635"
     CDS             1948..3171
                     /locus_tag="HVY42_24635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001104444.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminotransferase class I/II-fold pyridoxal
                     phosphate-dependent enzyme"
                     /protein_id="QMH11306.1"
                     /translation="MNWQKKKIERSIKYQTRVFNEHINELVITRRNGKVITVNDGREMI
                     EFVSCSYLGLETHENLKHAIANAIERFGVQLSVARTRVKVDLFEQLEDRLNKIMNGAHT
                     LTFNAVTPCHLAVLPLLASGTLPNYKFNKIPYFILEKTAHATLQINRGLLQQFGEIIRI
                     DFQHKNDIEKAFKYASINNMVPISISDSVGSMGGVAPVEFIVRMANRFDGYAYIDDAHG
                     TSIYGKNGSGYVMSCLDNKLDDRIIIAGSLSKAFGSHGGFIACNYPDTINFIKTYGTTY
                     AFGGPPSLPGIAACIAAADLHLDGTVSSRQNELQQVIKYFDDKFNETEVINKGTTMPIR
                     GLLIGNEEKAITICKKMHDRGFATTVAMYPTVEEGKAILRCAISAIHTRENIDSLHKNF
                     IECINELG"
                     /name="aminotransferase class I/II-fold pyridoxal
                     phosphate-dependent enzyme"
     gene            complement(3241..5460)
                     /locus_tag="HVY42_24640"
     CDS             complement(3241..5460)
                     /locus_tag="HVY42_24640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029330.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QMH11307.1"
                     /translation="MAIYHLSMKIISRKNGYSAVASAAYRSGSVIPDDRTGLTHDYTRK
                     RGVDDAVILTPENAPSWCADRSVLWNAVEKAEQRRDSQLAREIELAIPREISRDVARET
                     VLAFVRENFVSQGMIADVAFHHMDRTNPHAHIMLTTRAVGETGFSGKVRDWNDRTLAET
                     WRASWADHANRALANAGYLEEIDHRSYERQGLEKAPGLHLGKAACAMEKRGMETERGEQ
                     NRLINSLNLEIQVSRTQLALRKVQETQRKRELSDAARRAAEALNLTIPAANASADTLRE
                     FIATLPQECGNAWEMTPEFVAMNGKANDIKREGNALVKERDILEKEMTGLRKAHPVASI
                     LSELPLMTWAEPEYRKRQLRFWKLEKQIESLRRTYRAVKERDIPARRQAFETQWNTWIS
                     PGMAELKEKLSAREAERHREEAEAEARRKEQEYDARLKHHDNHRLSRETALAGVITGLG
                     RAREPGTGMITRYMILSNRAGEFTVWGDELADYPQSVYDQVNVYLSPGGAVMVTDIHSG
                     LSESHETLARPERVRMYSGATVRHVLEQMRQGGPSYGFPALPHHWPDNFYFSDDRRPTA
                     SPLPSAHRVDVTAYAAPEQLMPVVFSTERNSRTLNLLLCKGPEEMLVGFVRLEDELRPV
                     LALPSPDYSHLMVSIITENGIHLAGYGEAINRDADTPYPPEPKLMQFRLKGCQDTLFAA
                     INKPEEMPDYLFRQLGFNQTWHEWKRDEQHRQQQRRPGHYRGMSM"
                     /name="MobA/MobL family protein"
     gene            5639..5917
                     /locus_tag="HVY42_24645"
     CDS             5639..5917
                     /locus_tag="HVY42_24645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="QMH11308.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAAMLARVRRP
                     EEAQLRAFLLQFLRKEVTRQADVNRIQPLINELEKLPGPPVKPQKNG"
                     /name="mobilization protein"
     Typing          5103..5461
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.833"
                     /coverage="100.0"
                     /evalue="8.65e-164"
     Typing          5462..5635
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="100.0"
                     /evalue="2.58e-81"
     Typing          complement(3245..5460)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.663"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcggctgtgg gacagatcga tccttctcaa ggatgacgag aagcgagagg aatttcgttg
       61 gatacaacgt cgtgcgcaat acctgaaagg cgaagcaaag gtacagatca ctttttctga
      121 ttctgtgatg ccatacctaa cgcaactaca agggcaattc acaaaggtga taattaagaa
      181 tatatcaaga ttatcaagaa gttacagtat taggatttac gagttgctcc agcagtttcg
      241 cagtacaggt gagcgcatta tttcacttga tgactttcgt tcaatgcttg atatttgtga
      301 taaatatcaa acatataaat ctcttaacca acagttatta aaaccctgca ttgatgaatt
      361 aaacctgaaa agtgatctgc ttgttactgt tgagacaatt aagaaggggc gtacggttgt
      421 agcactacat tttcgcttca aggaagataa acagatcaaa atcccctcat aaaccgacct
      481 aaaacgcaat ctgacgcaaa aaagtggata tggacgtaga aaccctcacc caaataagaa
      541 aacgcgtcag aatcgttttc aggggcctgc ataactatgc acgaaagcga tgctcgatcg
      601 gtttcgaccg ttccgaaggg cgaacaggtc aaaatgacaa gttttctccc accggatgga
      661 agattctgca cggggatttt ttatcccctt ccatcaacct gaatatgcat ctgggagtac
      721 ccattagttt ctgatcaaat actatcgcag tgctatctta aaatataaaa catttcaatg
      781 gtgtaagaat tttaaatatg ataaataaag atatttttat caggggttaa ttatggcaaa
      841 attatatttt taccttgttc ttgctgcatc attatcggca ttatcaactg acatgattgt
      901 gcctgcgtta ccagaactac agaaagcatt taatgctgac tactcattaa ttcaactaag
      961 tattagtgga tttcttattg tatttgcatt tagtcaactg atatcaggaa ccataggtga
     1021 ttattttgga aaagtacgcg taatgactat atgcttaatt atttttctta ttggtagtat
     1081 tgtatgtttt atggccaata atttaaatat gcttcttttg ggtagaattc tacaggcaat
     1141 aggtgcaggt gccggacctg taatatcaaa agcaattgca aaagagtctt ttccaccact
     1201 aaagctaaaa agagcacttt ctgacatatc atcaacaagt gcgataatac cattaatagc
     1261 acctctggcc ggagcattaa tacttgatta ttataactgg aatgtaatat ttattgtaat
     1321 gggtgcattt agcattctaa ccatactcct gtcacctaaa gagtctaata aacaggagaa
     1381 aaaaacacat caagataatg taaaatttgt gactaaagat ttcatctgcg ggacaatact
     1441 cgtttcacta atgctaagct cactattttg ctacatatca atatcacctg cactatttat
     1501 gagcgattat ggattaaata catttaacta ctctgttgtt ttttccctgt cagttttgtt
     1561 tttcatcatt ggaaaccaat tatcaaaaat cgaaaaaata tcaaacccat ggatcttatt
     1621 tcccctaaac gcaatatcag tcacaccttt tcttatatta aatgatgctt ttataatatg
     1681 tgttattgga gcaatgattt tcaatttaac tcttggcgca tactatccaa tagctaattt
     1741 catcgcatta cagataaacg gttcacgaac tggtttggca gcatcaatta caggctttac
     1801 tcaaacagta agcgcaggga caattagttt cctttcagta aaaataagcg ataatggagt
     1861 ttctttggga accactttaa gtattagctg tcttattctt gcattattgt caatattcgt
     1921 aaccattatt atagggaata ataaaaaatg aattggcaaa agaaaaagat agaacgttca
     1981 atcaaatacc aaacaagagt atttaatgaa catataaatg aactagtgat caccagaaga
     2041 aatggtaagg taatcactgt taatgatggg agggagatga ttgagtttgt gtcatgctct
     2101 tatcttggac tggaaacaca tgaaaatcta aaacatgcaa tcgctaatgc aattgaaaga
     2161 tttggagtcc aactttcggt cgccagaacg cgcgtaaaag tagatttatt cgagcaactg
     2221 gaagatagat taaataaaat aatgaatggg gcgcatacat taacatttaa tgcggttact
     2281 ccatgccatt tagctgtact cccacttctt gcatcaggaa cactacctaa ttacaagttt
     2341 aataaaatac catattttat tttagagaaa acagcgcatg caacattgca aataaataga
     2401 gggctattac aacagttcgg tgaaataatc aggattgact ttcaacataa aaatgatata
     2461 gaaaaagcgt ttaaatatgc ttcaataaat aacatggtac caatatctat atctgatagt
     2521 gtcggttcga tgggtggggt agctcctgtc gaatttattg ttagaatggc taacagattt
     2581 gatgggtatg cttacattga tgatgctcat ggcacgtcaa tatatgggaa aaatggctcc
     2641 ggatatgtaa tgtcttgtct ggataacaaa cttgatgaca gaattattat cgctggttca
     2701 ttatctaaag cgtttggttc tcatggtggc tttattgcat gcaattatcc tgacaccata
     2761 aactttataa aaacgtatgg aactacctat gcttttggtg ggccaccatc attaccagga
     2821 attgctgcat gtatcgcagc agcagattta cacctcgatg gcacagtatc ctcgcgtcaa
     2881 aatgaattac aacaagttat aaaatacttt gatgacaaat ttaacgaaac cgaagtcata
     2941 aacaaaggga ctacaatgcc aatacgtgga ttgttaattg gcaatgaaga aaaagctata
     3001 acgatatgca aaaaaatgca tgatcgtggt tttgctacaa ccgttgctat gtatcctaca
     3061 gtggaagagg gaaaggcgat tctacgttgt gcaatatcag ctattcatac ccgagaaaat
     3121 atagatagcc tacataaaaa ctttatagaa tgtattaacg aactgggtta gtaaatatca
     3181 tggcctcttt atagagaggc catctatttc attttttatg gcatatagct gtccctgaca
     3241 ttacatactc atgccccggt agtgtccggg gcgtcgttgt tgttgcctgt gctgttcgtc
     3301 ccgcttccat tcatgccagg tctgattaaa tccgagttga cggaagagat aatccggcat
     3361 ctcttccggt ttgttgatgg cagcaaaaag cgtgtcctga cagcccttaa gcctgaactg
     3421 catcagcttc ggttccggtg ggtacggagt atcagcatca cggtttatgg cctcaccgta
     3481 gcctgccagg tgtatcccgt tctctgtgat gatgcttacc atcagatgac tgtaatccgg
     3541 cgacggaagc gcaagaacgg gacgcagctc gtcctccagg cgcacaaaac cgacaagcat
     3601 ttcctccggc cctttgcaca acagcagatt cagcgtcctg ctgtttcgct ctgtcgaaaa
     3661 gacaacgggc atgagttgct ccggtgccgc ataagcggtg acgtccaccc ggtgcgctga
     3721 cggcagcgga gaggctgtgg gcctgcggtc atcgctgaaa taaaaattat ccggccagtg
     3781 atgcggcagc gccggaaaac cgtaagaggg ccccccctgg cgcatctgtt ccagtacatg
     3841 ccggaccgtc gcaccggaat acattctcac acgctcaggc cgggccagcg tctcatgaga
     3901 ttctgacagc cccgaatgta tatccgtgac catcacggcc ccacctggcg acagataaac
     3961 attcacctgg tcataaacac tctggggata atccgccagt tcatcacccc ataccgtgaa
     4021 ttctccggct ctgttactca gtatcatgta gcgggttatc atgcccgttc ccggctctct
     4081 ggcacgcccc agccccgtaa taaccccggc taatgccgtt tcacggctca ggcgatgatt
     4141 atcatggtgt ttcagccgtg cgtcatattc ctgttccttc cggcgcgctt ccgcttcggc
     4201 ttcctccctg tgccgctccg cttcccgtgc tgacagtttt tctttcagct ctgccattcc
     4261 cggcgaaatc cacgtattcc actgcgtttc aaaggcctga cgacgggcgg gaatgtcccg
     4321 ttctttcacg gccctgtagg tacggcgaag agattcaatc tgtttctcta gtttccagaa
     4381 gcggagttgt cttttgcggt attccggttc agcccatgtc atcaggggaa gctctgacag
     4441 gatggacgct accggatggg cttttctgag tccggtcatc tctttttcga gaatatcccg
     4501 ctctttcacc agcgcattcc cctcacgttt gatgtcgttt gccttcccgt tcatcgccac
     4561 gaactccggt gtcatctccc atgcgttccc gcattcctgc ggcagtgtgg caatgaattc
     4621 ccgcagggta tccgctgagg cattcgcggc gggaatggtc agattaaggg cttccgctgc
     4681 gcgacgtgcg gcatcgctga gttcccgctt acgctgcgtt tcctgaacct tcctgagcgc
     4741 cagctgcgtg cgggaaacct gtatttccag gttaaggctg ttaatcaggc ggttctgctc
     4801 accgcgttct gtttccattc cccgtttctc catcgcacag gcagcctttc cgaggtgaag
     4861 gcccggcgct ttctccagtc cctgacgctc gtatgaacga tggtctatct cttccaggta
     4921 accggcgttc gcaagcgctc tgttcgcatg gtcagcccat gacgcgcgcc acgtctcggc
     4981 gagtgtccgg tcgttccagt ccctgacctt tcctgagaat cccgtttccc cgacagctct
     5041 cgtggtcagc atgatgtgcg catggggatt ggtccggtcc atgtgatgga acgccacatc
     5101 ggcaatcatg ccctggctga caaagttttc cctgacaaaa gcgagaacgg tttcccgtgc
     5161 gacatcgcgg gaaatctctc ggggaatggc aagttcaatc tcccttgcca gctgggagtc
     5221 ccggcgctgt tcggctttct cgaccgcatt ccagagaacg gaacggtcag cacaccatga
     5281 cggtgcattc tcaggggtga gaatgaccgc atcatcaacg ccgcgtttac gggtgtaatc
     5341 gtgggttaat ccggtacggt catcgggtat gacagagccg gaacggtagg cagcagaagc
     5401 aacggcactg taaccgtttt ttcgcgaaat gattttcatg ctgagatgat aaatcgccat
     5461 ttctgccgta atgccttttt gccgttttct tttagcgtcg cagaccgcac acaatcgaaa
     5521 cgaagtgaag attgtataag tgcgcacttc gtgatgtgcc gtgcattatg ccagttcggt
     5581 tttgcaacta ccagtgacgc gctaaaatgc gatttttcac cgcgcacgga atcacaaaat
     5641 gagcagaaca ctcgaacaga agattgccga agctgaggcc agattgcagc gcctgaaggc
     5701 gaagagccgg agcctggaca cggcgcaaaa agtcattgtg ggggcagcca tgctggcaag
     5761 ggtacggagg ccggaagagg cacaactgcg tgcgttcctg ctccagttcc tgcgaaagga
     5821 agtcacaaga caggccgatg tgaaccggat acagccgctg attaacgagc tggagaagct
     5881 acccggacca cctgtaaaac cgcaaaagaa cggttgatct ctttccgctc gccgcagccc
     5941 cagcgaccga gcgttagcga gtaagtgggc gaggaagcgg cagaagtgca gttgctgaat
     6001 gtgacacata cgcactgttt tcagaaaggt gatcctctct gaacccgcat gaatactgga
     6061 tttccacagg tttgcacgtt gtttttgcag aacgcggcaa actgattttt ttaacgtatt
     6121 gtttttttta gtgttttttt tttgcgcttt gagttttcaa caggcacgcc gttaagtttt
     6181 taaatcttgt ttttatatac ttgtttttat acttgttttt aggtgtcgat tttgccttta
     6241 aaatcatatt gttacagagg taaaggtaat atgatttaag gtaaaggtaa tatgatttaa
     6301 ggtgtttagg taatatgatt taaggtaaag gtaatatgat ttaaggtgtt atccacagaa
     6361 atagggattg aaaaaaaaat atatattgcc ttttcgtatt ggttatgttt attttttgtg
     6421 tattgccttt ttctcggaga tgcactatgt ccgatctgat tgcctataaa tccaatgcgt
     6481 tagttgaggc cagttataag ctcaccttac aagaacaacg tttcttgttg ctttgtatca
     6541 gtcgattgaa atcaggagct gatgcagcat catcggagtt gcaaaaaaat ctgataatta
     6601 cggcggagga gtatttcaat tcattccctg atatgggcag aaaaaacgct gagattcagt
     6661 tacaggaagc tgttga
//
