LOCUS       NZ_CP051611             5775 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli O25b:H4-ST131 strain 2019_APHA plasmid
            pAPHA_2019_2, complete sequence.
ACCESSION   NZ_CP051611
VERSION     NZ_CP051611.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14594835
            Assembly: GCF_014217135.1
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 5775)
  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  JOURNAL   Unpublished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 5775)
  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 05:46:59
            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)                     :: 5,088
            CDSs (total)                      :: 4,976
            Genes (coding)                    :: 4,749
            CDSs (with protein)               :: 4,749
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 227
            CDSs (without protein)            :: 227
            Pseudo Genes (ambiguous residues) :: 0 of 227
            Pseudo Genes (frameshifted)       :: 80 of 227
            Pseudo Genes (incomplete)         :: 169 of 227
            Pseudo Genes (internal stop)      :: 39 of 227
            Pseudo Genes (multiple problems)  :: 52 of 227
            Pseudo Genes (short protein)      :: 3 of 227
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051611.1.
            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..5775
                     /organism="Escherichia coli O25b:H4-ST131"
                     /mol_type="genomic DNA"
                     /strain="2019_APHA"
                     /isolation_source="cecal sample"
                     /host="Pig"
                     /db_xref="taxon:941322"
                     /plasmid="pAPHA_2019_2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2019"
                     /genotype="ST131"
     gene            438..602
                     /locus_tag="HHM37_RS25075"
                     /old_locus_tag="HHM37_25090"
     CDS             438..602
                     /locus_tag="HHM37_RS25075"
                     /old_locus_tag="HHM37_25090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000968835.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000968835.1"
                     /translation="MMDKDTTTLKRTLAHNRAFSDNINRSGIAWCYNTEIVLAACEAIE
                     AELQRRGCL"
                     /name="hypothetical protein"
     gene            973..1485
                     /locus_tag="HHM37_RS25080"
                     /old_locus_tag="HHM37_25095"
     CDS             973..1485
                     /locus_tag="HHM37_RS25080"
                     /old_locus_tag="HHM37_25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001445155.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001276096.1"
                     /translation="MSARARKAGKRNQSERRQDLIEKLWEDDEIDTWHRLENDGYSTVP
                     RYLPLIGDLMDGLSKGSPLSTTYLALWFRVSDEGLIEIRDKAALAFESGFASERGVTTW
                     AGRMKKLKELGFISCREGSTGEFHYVLIVHPLVAVKKLLDEGIIPKGKTYNILSERVIE
                     VGASWEG"
                     /name="hypothetical protein"
     gene            1486..1980
                     /locus_tag="HHM37_RS25085"
                     /old_locus_tag="HHM37_25100"
     CDS             1486..1980
                     /locus_tag="HHM37_RS25085"
                     /old_locus_tag="HHM37_25100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000929317.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000929317.1"
                     /translation="MAGTVWRDIRTGETVFPMGHLHPQRCCVDVNGTSVDIEISFGFHV
                     FTDEKQTGMLMKFKEEQRFFCRERYEGSKTIVHRILTAIENGEYITAFISKGQGQRYYH
                     LSHHDDFILMEIRKPQDRNNSLRIHVVTAYTLDEWGTVNKGRNLRFRYVLEQRLQGKKI
                     V"
                     /name="hypothetical protein"
     gene            complement(3527..3718)
                     /locus_tag="HHM37_RS25095"
                     /old_locus_tag="HHM37_25110"
     CDS             complement(3527..3718)
                     /locus_tag="HHM37_RS25095"
                     /old_locus_tag="HHM37_25110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3783..4106
                     /locus_tag="HHM37_RS25100"
                     /old_locus_tag="HHM37_25115"
     CDS             3783..4106
                     /locus_tag="HHM37_RS25100"
                     /old_locus_tag="HHM37_25115"
                     /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="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_000955995.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="plasmid mobilization relaxosome protein MobC"
     gene            4315..>4746
                     /locus_tag="HHM37_RS25595"
                     /pseudo=""
     CDS             4315..>4746
                     /locus_tag="HHM37_RS25595"
                     /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            4784..5302
                     /locus_tag="HHM37_RS25110"
                     /old_locus_tag="HHM37_25125"
     CDS             4784..5302
                     /locus_tag="HHM37_RS25110"
                     /old_locus_tag="HHM37_25125"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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_000067503.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            5309..5542
                     /locus_tag="HHM37_RS25115"
                     /old_locus_tag="HHM37_25130"
     CDS             5309..5542
                     /locus_tag="HHM37_RS25115"
                     /old_locus_tag="HHM37_25130"
                     /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_000137441.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          3352..3435
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.07e-36"
     Typing          2689..2910
                     /name="rep_cluster_2392"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.825"
                     /coverage="87.0"
                     /evalue="1.42e-85"
     Typing          4097..5646
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.794"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atacgggcgc gattctggtg tgtcttttgt tgctgtgttt tgcctctatt gccagatcgc
       61 gctcattccc ctgaacttct gttttcccgc tccggtcccc gtcttcttcg cttccgaaag
      121 catgaaaaaa atccgtttca gctgtctctg gctggcaatt cctgcgtgat tcacatggct
      181 gcatagctat gcatgtggtt aaaatttacc gggtgcgatc gcggcagttt ttcgggtggt
      241 ttgttgccat ttttacctgt ctgctgccgt gatcgcaccg aacgcgtttc tgcggtgcgg
      301 gcaacggatg ttatggtaaa tattggtgct ctgggatgaa gcgaaaatag gctttttttc
      361 gctattttag cctgttcagg aacggcaaga gtaaatatct gggagcatga agctcgttaa
      421 cctgaatgga gatcctgatg atggacaaag ataccaccac cctaaaacgc actttggctc
      481 ataatcgagc ctttagcgat aatattaacc gcagtggcat agcctggtgc tataacactg
      541 agattgtact cgctgcttgt gaggcgattg aagccgaact acaacggcga ggatgtttgt
      601 aacaataaga aaacccgcat cagcgggttt tttagtctct gagacgcgct accgctaaat
      661 tatttttctc tctatccgcc ctggcttgcc ccctacaacc ccatggagca caaggagcac
      721 agggagaacc atcgagcaca acgagcacaa tgagcaccgc cttcctctta taaatcatta
      781 ttaatcatat aattaaacaa cttcattgta atatatatta ctttttatgt ttttaaatgt
      841 aatgtttatt gcgatttagc ttgtttttaa ctctattttt tcagatgaga acaagctgcc
      901 agcaatgaat aactatttga ttttattggt tttttcaata aattagtgtc catagacaaa
      961 cgggagacga ctatgtccgc aagagcaaga aaagcaggta agagaaatca gtcagaacga
     1021 cgtcaggatt tgattgaaaa attgtgggaa gacgacgaaa tcgatacttg gcatcgactt
     1081 gaaaatgatg ggtactcaac agttccacgt tatttgcctt tgataggcga tctcatggat
     1141 ggtctgtcaa aaggatcacc attatcaaca acctacttgg ctttatggtt cagggtttct
     1201 gatgaggggt tgattgaaat aagagataaa gcagcactgg cttttgaatc agggttcgct
     1261 agtgaaagag gcgtaactac atgggcaggg agaatgaaaa agctaaaaga actggggttc
     1321 atatcctgtc gtgaaggcag caccggtgaa tttcattacg tgttaattgt tcacccatta
     1381 gttgcagtca aaaagctgct tgatgaaggg attatcccta aaggaaagac ttataacatt
     1441 ttgtcggagc gtgtaattga ggtgggagcc tcttgggagg gttaaatggc gggcacagta
     1501 tggcgtgaca taagaacggg agagactgtt tttcctatgg ggcacctgca ccctcagagg
     1561 tgctgtgttg atgtaaacgg tacttctgta gatatagaaa ttagttttgg ttttcatgtt
     1621 tttactgatg aaaaacaaac cggaatgctg atgaaattta aggaggaaca gaggtttttt
     1681 tgtagggaac gctatgaggg cagcaaaact atcgttcaca gaatacttac agcgatagaa
     1741 aacggtgaat acattacagc atttatttca aaggggcagg ggcagcggta ttaccatctt
     1801 agccatcatg atgacttcat tttgatggaa ataagaaagc ctcaagatag aaataattct
     1861 ttgcgtattc atgttgttac agcttacacg cttgatgaat gggggactgt aaataaagga
     1921 cgtaacctgc ggtttagata tgtgctggaa cagcgactgc agggaaagaa gattgtgtaa
     1981 aaaacaaaaa gcgcctaagg cgcctttgtt ttttgcagaa tttcggtctg gcctttcgtt
     2041 atcccgctca caggctggga gggtgtgacc cccggcatca gcacccctct ctcgaggttc
     2101 cggtttgtgc tgacaacatt agtatcctat tccacatgtt cgttgtcaaa ctagcgtact
     2161 ttttggtgtt cattggtgtt tataggttgt catttaccct ctttgtggtt ataagtgttt
     2221 ataggttttc attgtttttt ataggtgttc atatgaagtt gcttgatagt aatgaagtgt
     2281 gtgagctctt aggcatcagt aagtccactt tgtatcgttg gtgcggggtg tctgaggatt
     2341 tttctggctt gggtctaagt agcggtcttc ctcaggctaa cgctactcag aactctttag
     2401 gcagggaaaa taggctcgtt aggagggaat tacagcaaaa cgctctcggt gtcgaagaga
     2461 cgccaagcga cttccctcgt cctttcaaga tcggtcgttc gtttaaatgg aaagacgccg
     2521 aaattatggc ttggcttgaa acgcgacgcg tttgattgat agatcttctt gagatcattt
     2581 ggatctcgtc gtagtctttt gtcctgtaaa cgaaaaaacc accatggcag gtggtttttc
     2641 gaaggttatt taatcctggc agattgaata accgtggtaa cagccttgtg cgagacgtgt
     2701 caccaaatct gtcctttcag tgtagcctca ctaaggccac cacttcaaga actttgaata
     2761 catctctcgc acatcctgtt taccaatggc taccgccact ggcgattttt cgtgtctgtt
     2821 ccgggttgga ctcaagatga tagttaccgg gacaacgtgg tagtcgggct gaacgggggg
     2881 ttcttgcata cagcccagct tggagcgaac tgtctaaacg gaacgggacg tggtgattta
     2941 ggtaaagctt ccaccacaac acggatgccg caggacggga acaggagagc gcaagaggga
     3001 gccgccaggg ggaaacgcct ggtatcttta agtcctgtcg ggtttcgcca cctctgactt
     3061 gagcgtcgat ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccagcggc
     3121 gtggccttct ctgggttctt gttttttgct cacatgtttc ttttggtgtt atcccctgat
     3181 tctgtggata accgcattac cgtctttgag tgagctgata ccgctcgccg cagccgaacg
     3241 accgagcgta gcgagtcagt gagcgaggaa gcggaagagc gtcggaagtt gcattttctc
     3301 cttacacatc tgtgcggcat ttcacacccg gcatggcgca cttttcatac aatccgcact
     3361 gatgccgcat ggttaagcca gtatacactc cgctatcgct acgtgactgg gtcatggctg
     3421 cgccccgaca cccgcaaggt caacggcctg acgcgccctg acgggcttgt ctgctcccgg
     3481 catccgctca cagacaagct gtgaccgtct ccgggagctg tatgtgtcag aggttttcac
     3541 cgtcatcccc gaagcgtgcg aggcagctgc ggtaaagctc atcggcgtgg tcgtgaagcg
     3601 attcacagat gtctgcctgt tcatccgcgt ccagttcgtt gagcttttcc agcagcgtta
     3661 atgtctggct tctgataaag cgggccatgt taagggcggt tttttcctgt ttagtcactg
     3721 atgcctccgt gtaagggggg atttctgttc atggggtaat gataccgatg aaacgcgaga
     3781 ggatgctcac gatacgggtt actgatgatg aacatgcacg gttactggaa cgctgtgagg
     3841 gtaaacagct ggcggtatgg atgcggcggg tctgtctggg tgagccggtt gcccgttccg
     3901 ggaagctgcc gacactggca ccgccgttac tgcgccagct ggctgccatc gggaataatc
     3961 tgaatcagac ggcgaggaag gtgaacagcg ggcagtggtc ttccggtgac cgggttcagg
     4021 tggtggccgc actgatggcc atcgagagag agttgcgcag cttacggcag gtcgtcaggg
     4081 aacatggagc gcgggatgat agttaagttt catgccaggg gaaaaggcgg tggcagtggt
     4141 ccggttgatt acctgctggg aagggagcgt aaccgggaag gggcaacggt gcttcagggt
     4201 aatccggaag aagtccggga actcatcgat gccacgccat ttgcgaagaa atacacgtca
     4261 ggtgttctgt cgttcgcgga gaaggagctg ccgccgggag gacgtgaaaa ggtgatggcg
     4321 agctttgagc gtgtactgat gcccggtctc gaaaaaaatc agtacagcat cctgtgggtg
     4381 gagcaccagg acaagggacg gcttgagctg aattttgtca ttccgaacat ggagctacag
     4441 agcggaaaac gcctccagcc gtactacgac cgggcagaca ggccgagaat tgatgcctgg
     4501 cagacgctgg ttaatcacca ttacgggctg catgacccca acgccccgga gaaccgccgg
     4561 atactgactc tccctgataa cctgccggaa acgaaacagg cgcttgcaga gagcgtcaca
     4621 cgcgggatag acgctcttta tcatgtcggg gagataaaag gccgtcagga tgtgattcag
     4681 gcgctcacag aggcagggct tgaagtggtc agggtgacgc gaagcagtat cagcattgca
     4741 gacccgaacg gcgggaagaa tatcagactg aaaggagcat tctatgagca atcttttaca
     4801 gacgggcgcg gagttcgaga aaaagctgaa agagagagcc gaatctacag agacaatgct
     4861 gaacgacgag ttcagcaagc tcgaaaaatc tgtaagcaag gctgtgacat caaacgagac
     4921 gaaaatcaaa gacgctatag ccctgttcac agcttcgaca gaggaatcac tgaaaaaaca
     4981 ccgggaaggg gtgaaagagg cgatgatgca gcacaggaag gacgtgttaa agctggcagg
     5041 gaatacgggc atgatgttac tggggatggt ccttttcctg tttaccgtga gtggcgggac
     5101 gctctggtat cttggcgggc ggatacaggc gaacctggaa gaaatcagga tacaggaaga
     5161 aacattgcag aaactgaacg cgaagacatg gggcgtggag tttgtgcagg acgggagaag
     5221 gaaatttctg gtccttccgt acgggaaatc ggcaacggtg attccctatc aggagaagga
     5281 ctgggtacaa ctgacggagt gacacagagt gacggagctg gaaagacatt tgctgaacgc
     5341 cttagagcaa ctgcaacagg actatatgca gcggctgagc gaatgggaga gcgccttcgt
     5401 ggaattgcag aaaatgtttt cgcttacgca acgggacaac gcgatgctga acgagcaggt
     5461 catgcagttg agtcagcagg tgcagcactt gagcgagcgg acagaacgct tgagccagtt
     5521 atacagcgag aacaggagat aagggacgaa cggctgatac aggagcgcga acatgagtta
     5581 tccctggagc gtgagcgcca gctggaaata caggaacgga cactggatgg cccttcgctg
     5641 ggatggtaat cagagacagg ctaaaatgtt gtcagcgcgt ttccggtgca ttttttggga
     5701 taatggttgg ttcgggggca ccgggaacgc gcttcagtca gaccttgctg aaaacacagg
     5761 aacgcgttaa aacgc
//
