LOCUS       NZ_CP051618             5631 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli O25b:H4-ST131 strain 2017_APHA plasmid
            pAPHA_2017_3, complete sequence.
ACCESSION   NZ_CP051618
VERSION     NZ_CP051618.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14594834
            Assembly: GCF_014217155.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O25b:H4-ST131
  ORGANISM  Escherichia coli O25b:H4-ST131
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5631)
  AUTHORS   Duggett,N.A., Randall,L., Lemma,F., Teale,C. and Anjum,M.F.
  TITLE     First detection of the pandemic Escherichia coli ST131 blaCTX-M-27
            fimH30(R) human clone in pigs from United Kingdom
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5631)
  AUTHORS   Duggett,N.A., Randall,L., Lemma,F., Teale,C. and Anjum,M.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-APR-2020) Bacteriology, Animal and Plant Health
            Agency, Woodham Lane, New Haw, Addlestone, Surrey KT15 3NB, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50x
            Sequencing Technology             :: Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:45:11
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,042
            CDSs (total)                      :: 4,932
            Genes (coding)                    :: 4,717
            CDSs (with protein)               :: 4,717
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 215
            CDSs (without protein)            :: 215
            Pseudo Genes (ambiguous residues) :: 0 of 215
            Pseudo Genes (frameshifted)       :: 77 of 215
            Pseudo Genes (incomplete)         :: 162 of 215
            Pseudo Genes (internal stop)      :: 35 of 215
            Pseudo Genes (multiple problems)  :: 52 of 215
            Pseudo Genes (short protein)      :: 3 of 215
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051618.1.
            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..5631
                     /organism="Escherichia coli O25b:H4-ST131"
                     /mol_type="genomic DNA"
                     /strain="2017_APHA"
                     /isolation_source="cecal sample"
                     /host="Pig"
                     /db_xref="taxon:941322"
                     /plasmid="pAPHA_2017_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
                     /genotype="ST131"
     gene            complement(1169..1360)
                     /locus_tag="HHM36_RS24855"
                     /old_locus_tag="HHM36_24875"
     CDS             complement(1169..1360)
                     /locus_tag="HHM36_RS24855"
                     /old_locus_tag="HHM36_24875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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="WP_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1425..1748
                     /locus_tag="HHM36_RS24860"
                     /old_locus_tag="HHM36_24880"
     CDS             1425..1748
                     /locus_tag="HHM36_RS24860"
                     /old_locus_tag="HHM36_24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1957..>2388
                     /locus_tag="HHM36_RS25345"
                     /pseudo=""
     CDS             1957..>2388
                     /locus_tag="HHM36_RS25345"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            2426..2956
                     /locus_tag="HHM36_RS24870"
                     /old_locus_tag="HHM36_24890"
     CDS             2426..2956
                     /locus_tag="HHM36_RS24870"
                     /old_locus_tag="HHM36_24890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            2963..3196
                     /locus_tag="HHM36_RS24875"
                     /old_locus_tag="HHM36_24895"
     CDS             2963..3196
                     /locus_tag="HHM36_RS24875"
                     /old_locus_tag="HHM36_24895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            3677..4729
                     /locus_tag="HHM36_RS24880"
                     /old_locus_tag="HHM36_24900"
     CDS             3677..4729
                     /locus_tag="HHM36_RS24880"
                     /old_locus_tag="HHM36_24900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            4731..5597
                     /locus_tag="HHM36_RS24885"
                     /old_locus_tag="HHM36_24905"
     CDS             4731..5597
                     /locus_tag="HHM36_RS24885"
                     /old_locus_tag="HHM36_24905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     Typing          994..1075
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          350..537
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          1739..3300
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ataccgtgcc aaatgcacgt aaaaaacggg agcgtttctg gtgtcggaat gtaaccaagg
       61 gggtcagagg cgcgctaaaa cgctctcagg ggagtcaaat agagacgttt gtaacaaaaa
      121 gatcaaagga tcctcttgag atcctttttt tctgcgcgta atctgctgcc tgtaaacgaa
      181 aaaaccgcct tgcagggcgg tttgatcgaa ggttaagtca gcttgcagac tgcttaacca
      241 ggtaactgtc ttatgcgaga cgagtcacca aaattgttct tctagtgtag ccgcactccg
      301 gcagccactt caagtactct ctaaatatct cgcacatgac ttttaccaat ggctgctgcc
      361 agtggcgctt tgtggtgtct tttccgggtt ggacccaaga gaacagttac cggagaaggc
      421 gcagcagtcg ggctgaacgg ggggttcctg catacagccc agcccggagc gaactgccta
      481 agtcgccccg agataccaga agacgtgagc tatgagaaag cgccacgtgt cccgtaaggg
      541 agaaaggcgg aaaaggtatc cggtaatcga tatggcggga acgtgggggc gcaggaggga
      601 gcgattcacc ggaaacggtg atgatcttta agccacgtcg ggtttcgcca ccgctggcgg
      661 atttcatggt tgagccgcaa ggctcccaca gatgcaccga aaaagtgtct gttttgtgaa
      721 gtccgtcagg ggggcggagc ctatggaaaa agcgcctccg gcgcggcctt tcccggggtt
      781 tcgttttttg cgcacatgtt ctttcctggt ttatccccgg gttctgtgga taacagggtt
      841 agcgtttttg agaaaggaga gtccgctcgc cgcagccgaa cgaccgagcg tagcgagtca
      901 gtgagcgagg aagcggaaga gcgcctgaac tggcattttc tccttacgca tctgtgcggc
      961 atttcacacc ggacatggcg cacttttcat acaatccgca ctgatgccga atggttaagc
     1021 cagtatacac tccgctatcg ctacgtgact gggtcagggc ttcgccccga caccccaaag
     1081 gtcaacggcc tgacgcgccc tggcgggctt gtctgctccc ggcatccgct cacagacaag
     1141 ctgtgaccgt ctccgggagc tgcatgtgtc agcggttttc accgtcatcc ccgaagcgtg
     1201 cgaggcaact gcggtaaagc tcatcggcgt ggtcgtgaag cgattcacag atgtctgcct
     1261 gttcatccgc gtccagttcg ttgagcttct ccagcagcgt taatgtctgg cctctgatga
     1321 agcgggccat gttaagggcg gttttttcct gtttggtcac tgatgcctcc gtgtaagggg
     1381 gggttctgtt catgggggta atgataccga tgaaacgcga gaggatgctc acgatacggg
     1441 ttactgatga tgaacatgcc cggttactgg aacgctgtga gggtaaacaa ctggcggtat
     1501 ggatgcggcg ggtctgcctg ggtgagccgg ttgcccgttc cgggaagctg ccgacactgg
     1561 caccgccgtt actgcgtcag ctggccgcca tcgggaataa ccttaaccag acagcgagga
     1621 aggtgaacag cgggcagtgg tcttccggtg accgggttca ggtggtggcc gcactgatgg
     1681 ccatcgggga tgagctgcgc cggctgcgtc tggcggtcag ggaacagggg gcgcgggatg
     1741 atagttaagt ttcatgccag gggaaaaggt ggtggcagtg gtccggttga ttacctgctg
     1801 ggaagggagc gtaaccggga aggggcaacg gtgcttcagg ggaatccgga agaggtccgg
     1861 gaactcatcg atgccacgcc atttgcgaag aaatacacgt caggtgttct gtcgttcgcg
     1921 gagaaggagc tgccgcctgg agggcgtgaa aaagtgatgg cgagctttga gcgtgtactg
     1981 atgcccggtc tcgagaaaaa tcagtacagc atcctgtggg tggagcacca ggacaaggga
     2041 cggcttgagc tgaattttgt cattccgaac atggagctac agaccggaaa acgcctccag
     2101 ccgtactacg accgggcaga caggccgaga attgatgcct ggcagacgct ggtgaatcac
     2161 cattacggtc tgcatgaccc caacgccccg gagaaccgcc ggacgctgac ccttcctgat
     2221 aacctgccgg aaacgaaaca ggcgcttgct gagggcgtca cacgcgggat agacgcgctt
     2281 taccatgccg gagagataaa aggccgtcag gatgtgattc aggcgctcac agaggcgggg
     2341 cttgaagtgg tcagggtgac gcgaagcagt atcagcattg cagacccgaa cggcgggagg
     2401 aatatcagac tgaaaggagc gttttatgag caatctttta cagacgggcg cggagttcga
     2461 gaaaaagctg aaagagagag ccgaatctac agagaaaatg ctgaacgacg agttcaggaa
     2521 gctcgaagaa tctgtaaaca gggaactgac ctcaaacgaa tctttaatca ggaacgctat
     2581 caacgaccat acaacagccc tgaaagaact gctggagagg tatcagaaaa cgaccgtcga
     2641 tacgatggac gcgcactgga aaaccgtact gaaaatgagc gtgaaacgct ggctgtggct
     2701 gattatcgtc tcagtactga tgtttgccac gaccgggagt ctgctgtggt accagggcat
     2761 gaagataaac gcgaatatga atattctccg cgagcagaaa gagagtctgg agaagctgaa
     2821 cgcgaagaca tggggcgtgc gttatcacga ggacagcaac ggacgttttc tggtgttgcc
     2881 gaaggggatg aaagccgaaa cgaactggac gaaggacaac ggcaaactga acgcagtgag
     2941 actggtgcag gagtgacaga gcatgacgga gctggaaaga catttgctga acgcattaga
     3001 gcaactgcaa caggactata tgcagcggct gaacgaatgg gagaacgcct tcgtggaatt
     3061 gcagaaaatg ttttcgctta cgcaacggga caacgcgatg ctgaacgggc gagtcatgca
     3121 gttgagtcag caggtgcagc acttgagcga gcggacagaa cgcttgagcc agttatacag
     3181 cgagaacagg agataaggga tgaacggctg atgcaggaac gcgaacatga gttatctctg
     3241 gagcgggagc gtcagccgga aatccaggag cggacactgg atggcccttc gctgggatgg
     3301 tgaaaccatg aaaaatgacg tgttcagtgg attaaggcgg gctaatgtgg cctgtagcat
     3361 ctggttgcat aggtattcat gcggttaaaa tttatcaggt gcgatcgcgg cagtttttcg
     3421 ggtggtttgt tgccattttt acctgtctgc tgccgtgatc gcaccgaacg cgttttggcg
     3481 gtgcgtacaa tgcgacgtta tggtaaatgg agcggatttt caggaaggag tgatactaac
     3541 aactcgaaca ctgtgcaaat aatgattttt ttaaaatatc ggtaacgata ataaattatt
     3601 tcgttttacg ccggtaataa atataatgta gtttcagtat ataaaaaaat atatgaggtg
     3661 tcttgtggga gctttcatga atcttcaaca acgtataaat aaactaccac aattatcatc
     3721 cagtttttca tttggaaaag atattgataa tattcattca tttatcttta acgaaacttc
     3781 taaagataaa attgaagatt tactaagaaa atgggtgtca ggcaatcagc cctgtgtatt
     3841 tggtaaattg gcaagcaaga aaattaaagg gcttgatttc catttatcta ttgtaaatag
     3901 cccccaacta tataatgatg atggtcattt gtttgatttt ttgcgtaatg aaagagttcg
     3961 ttttaaagaa cgcgcaagaa gaggagaggt cagtgcgcat ctcatttatt ttattcatcc
     4021 acaacttgcc tttgctcgtc catcagaaga gttagtggac atacaaaaat atatttgttc
     4081 gctgcatatg ccagagtgct atccaataaa agaggatgtt atttatactg aaagcgtacc
     4141 atttcaggat aaagatgggc taaaaatata taaggctggt gttaatgttt tttactcttc
     4201 tgctcataga acaagaaatc atgatagaag aataccaggg ggaatactta tttctgtaaa
     4261 tgccccgggg cattttatga ggctggcgat agaaaaaggt ttctataaag atcaagaaca
     4321 agcgttagcg gatattcgta acatgactat tcagtctgtt ggtaagggtg ggtattcaca
     4381 tccggaaggg atttctacaa catggcattc agaatctaat ttggatcgtt ttggatgccc
     4441 agtgcacacc ggtaatagtt cttattacag cggtttttat catactgatg tattaattcc
     4501 aggagaatta actaaggatg aaagattgct ccatgaaata gaaaatagtg atccaatgat
     4561 cttcaactgg aatgtattgt tttatgtttc attagaagag tttcctatag atgatcctta
     4621 ttatggagag tttattggta ttcctgtaga tgatgcatct atgtttttta actcctttca
     4681 accaaggaaa tttgaaaaca aaccccttta tgagaaagag gatgattaat atgattaaag
     4741 gaatgctttt tgctttttta gcagcgttct catggggggc agctatcgta atgagcaaaa
     4801 aaggagttga agaactagat gccggagggg tgtttttctg gcagatttgt agtgcagtaa
     4861 tactatcttg gatagttctt tttataaaaa gaaaaaaact cccattaaac tcaaaagcga
     4921 tacttgctta tgcgacaggc gtttttgaac cattcttagc gtatactttt acactctacg
     4981 gactttattt tatttcagca ggaagcgcat caattatttt ttcacttgaa tcagtgttta
     5041 tattggtgtt gtctgttctt atttgctcag ttaaaattaa ttccccgcaa tattttatat
     5101 tgttccttat aggtgcaatt gttggcagta ttttggtagc cttgccagac atcagtaatg
     5161 gatcgaataa tattgttgga tattgtcttg ttgttgccgg tgtgttatcg gcagcatttt
     5221 atgttgttat atcgtctcgc cttattaaat cgtttgagcc tatcacatta ttgagcggac
     5281 agttgacatt ctcccttata ctgtcatcgc tctttatttt tatatctaaa tcatcaattt
     5341 atcttccgtt ggaatccgtg attattgttt tttcatctgg aatattacaa tattttttag
     5401 ctttttgttt ttacttgaac tccttgcgtt ggctcccagt tcatttggca gggataatgt
     5461 tgtactttat tccgctagtt gcattatttt tgtcatggtt gtttttggat gaacaattca
     5521 cattcttaca gggggtagga tttattgtaa ctgtgctaag tgtatatttt cttaacagaa
     5581 aatactcaga ggagtaacat tctgttcagg attgcccccc ggcctccatc g
//
