LOCUS       NZ_CP062891             4715 bp    DNA     circular CON 16-JUN-2023
DEFINITION  Escherichia coli O100:H21 strain Res13-Lact-ER07-18 plasmid
            unnamed33, complete sequence.
ACCESSION   NZ_CP062891
VERSION     NZ_CP062891.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16304150
            Assembly: GCF_015571795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O100:H21
  ORGANISM  Escherichia coli O100:H21
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4715)
  AUTHORS   Poulin-Laprade,D., Brouard,J.-S., Gagnon,N., Turcotte,A.,
            Langlois,A., Matte,J.J., Carrillo,C.D., Zaheer,R., McAllister,T.,
            Topp,E. and Talbot,G.
  TITLE     Resistance determinants and their genetic context in bacteria from a
            longitudinal study of pigs reared under conventional and
            antibiotic-free husbandry practices
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4715)
  AUTHORS   Poulin-Laprade,D. and Brouard,J.-S.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-SEP-2020) Sciences and Technology, Agriculture and
            Agri-Food Canada, 2000 College, Sherbrooke, Quebec J1M 0C8, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 23-NOV-2018
            Assembly Method                   :: Unicycler v. 0.4.7
            Assembly Name                     :: QIA-21-A
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1.00x
            Sequencing Technology :: Oxford Nanopore MinION and Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/16/2023 13:28:07
            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)                     :: 4,811
            CDSs (total)                      :: 4,688
            Genes (coding)                    :: 4,494
            CDSs (with protein)               :: 4,494
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 194
            CDSs (without protein)            :: 194
            Pseudo Genes (ambiguous residues) :: 0 of 194
            Pseudo Genes (frameshifted)       :: 67 of 194
            Pseudo Genes (incomplete)         :: 135 of 194
            Pseudo Genes (internal stop)      :: 32 of 194
            Pseudo Genes (multiple problems)  :: 37 of 194
            Pseudo Genes (short protein)      :: 2 of 194
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP062891.1.
            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..4715
                     /organism="Escherichia coli O100:H21"
                     /mol_type="genomic DNA"
                     /strain="Res13-Lact-ER07-18"
                     /serotype="O100:H21"
                     /isolation_source="feces"
                     /host="Sus scrofa domesticus"
                     /db_xref="taxon:2778652"
                     /plasmid="unnamed33"
                     /geo_loc_name="Canada: Quebec"
                     /collection_date="2017-03-20"
                     /collected_by="Agriculture and Agri-Food Canada"
     gene            join(4351..4715,1..289)
                     /locus_tag="IMP41_RS22685"
                     /old_locus_tag="IMP41_22680"
     CDS             join(4351..4715,1..289)
                     /locus_tag="IMP41_RS22685"
                     /old_locus_tag="IMP41_22680"
                     /EC_number="3.1.3.16"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016249761.1"
                     /GO_function="GO:0004722 - protein serine/threonine
                     phosphatase activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PP2C family serine/threonine-protein phosphatase"
                     /protein_id="WP_000560060.1"
                     /translation="MIAFSFSDIGNRCENLDLLSTINCQNDVFGMVIMDGYSCSEWNMK
                     ILSGRLDKCVFSGDLNKDIIEPCKSVPVKAAVCFLFKNNTHLHIYNAGDCRVYNKSGVL
                     LTEDNSVAWKRLKENGIDNKKIPHLVCYCPDRNYLTSFVDFCSDEIIFNHSVFDLNDEN
                     KEVILCTDGFWEHFNDGTVIDLMKDNPESNLAKFTKNIPGNAENHTVCYVRFPS"
                     /name="PP2C family serine/threonine-protein phosphatase"
     gene            complement(1278..1472)
                     /locus_tag="IMP41_RS22690"
                     /old_locus_tag="IMP41_22685"
     CDS             complement(1278..1472)
                     /locus_tag="IMP41_RS22690"
                     /old_locus_tag="IMP41_22685"
                     /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="WP_001041633.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2548..3504
                     /locus_tag="IMP41_RS22695"
                     /old_locus_tag="IMP41_22690"
     CDS             2548..3504
                     /locus_tag="IMP41_RS22695"
                     /old_locus_tag="IMP41_22690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000280763.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000280763.1"
                     /translation="MYLIEEALTSWLLNEYKKPVITKEEISLQIYLFYLKKEYNGERIY
                     QIRKNKAGPNEFEKNILKLLKSGVLSRVESNDKHHAYPHLIGGFYEVFFVKGNDGSPEN
                     DIVCSTYPYGYLSYLSAMDWHNITDKIPKIIHFTTCRSEQWKNKFYHDFQKDNPDIDEA
                     KQFMPRFPRNSEVNGIKIIVTQETNYVEPMKARNSPVRVSSIGKTFMDMTRRPDYCGGE
                     EHVLESFIEHGKKYAPLIIKEVDKLGRHIDKVRVGFILDRIIGVNNKKISEWKQEAGKY
                     RGSSKVLSPKSPFSPYFDEEWFISINVDMVKSYGKRN"
                     /name="hypothetical protein"
     gene            3488..4354
                     /locus_tag="IMP41_RS22700"
                     /old_locus_tag="IMP41_22695"
     CDS             3488..4354
                     /locus_tag="IMP41_RS22700"
                     /old_locus_tag="IMP41_22695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000409995.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nucleotidyl transferase AbiEii/AbiGii toxin
                     family protein"
                     /protein_id="WP_000409995.1"
                     /translation="MEKEINNWIEESGGKYRLMRQAVHIILKSISIEESLNEMMVMKGG
                     TLLGVKHGSDRYTKDIDFSTEKKLSEIDLGDFFNRFNDSMDVAEAELGYGIKCKVQSHK
                     IQPNAQGTFPTVQINIAFCDRSNASAMKRLESNQSPSVINIDFSFNEKTYDFDFLSLDG
                     DDDNDSVKTYSLTDLMAEKYRSVLQQKVRERNREQDIYDINYLLGKYEFSRQDKYKILE
                     SLLKKSEGKQLDNLLNVKGIRDVEIIERSSQRYQDLSSTVKSLPLFEDAYEKVACFYES
                     LPWDIFK"
                     /name="nucleotidyl transferase AbiEii/AbiGii toxin family
                     protein"
     Typing          1121..1205
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          1509..1607
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          1732..1987
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(553..1110)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.821"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taataaaaaa atacctcacc tcgtttgtta ttgcccagac agaaattatc taacatcatt
       61 tgttgatttc tgctctgatg agataatttt caatcattca gtttttgatt taaatgatga
      121 aaacaaagag gttattttat gtactgatgg gttttgggag cattttaatg atggtactgt
      181 tattgacctc atgaaagata acccagaatc taacttggct aaatttacta aaaatatccc
      241 gggtaacgca gagaatcata cggtttgcta cgttagattc ccttcttgat ttcgtgtttt
      301 ttgaagaagc tattgagatc ttcgtgtcat atagataatc tcttttctgt aaaagaaaaa
      361 aaccgccttt gcggggcggt tttctcttag gttcaaagag tttgcggctc gaagaaccaa
      421 ggtaactggc ttggaggagc gcagtcacca aaacctgttc tttcagttta gccttaactg
      481 gcgcatgact tcaagactaa ctcctctaaa tcagttacca gtggctgctg ccagtggcgt
      541 taaggcgtgt cttaccgggt tggactcaag acgatagtta ccggataagg cgcagcagtc
      601 gggctgaacg gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgaact
      661 gagataccaa cagcgtgagc tatgagaaag cgccacgctt cccgaaggga gaaaggcgga
      721 caggtatccg gtaagcggca gggtcggaac aggagagcgc acgagggagc caccaggggg
      781 aaacgtctgg tatctttaag tcctgtcggg tttcgccacc tctgacttga gcgtcgattt
      841 ctgtgatgct cgtcaggggg gcggagccta tggaaaaacg cctgcggcgc ggccttcttc
      901 ctgttcttgg tcttttgctc acatgttctt tccggcctta tcccctgatt ctgtggataa
      961 ccgtgctgcc gtttttgtgt aagtcagtac cgctcgccgc agccgaacga ccgagcgtag
     1021 cgagtcagtg agcgaggaag cggaaaagcg cctggacgcg cattttctcc ttacgcatct
     1081 gtgcggaatt tcacacccgg catggggcac ttttcataca attcgcactg atgccgcata
     1141 gttaagccag tatacactcc gctatcgcta cgtgactggg tcagggcttc gccccgacac
     1201 ccgctgacgc gccctggcgg gcttgtctgc tgccgaaaac gctcgcggac aagccgtgag
     1261 cgcctccgtc agcttcgtta tgttcctgtt tcactttcgg tctcaaagcg aacctggatg
     1321 ctgttctgga gttcttccgc gagttcgtgc agtcgttcgc acatggccgc ctgttcgtcg
     1381 gcatccagag catccagttt ttcaagcagt gtcaggctct ggcttttgat aaatcgcgcc
     1441 atattcagcg cagtttgttg ctgtttgttc accttccgtt gttctccgtc agtaccgggt
     1501 gtcgggtgga ccctgaccag gtggtaattg taagacgttg cgggcgacgg tattacaatt
     1561 gcacatcctg tcctgttttt ttaggacgta tcatggcaca gcatatcaac tgataaataa
     1621 tccctgtgca gtgcagccgc tgttgcataa aatttcgctc tgcgtcgagt gtttcttaat
     1681 caataattcc gctgatactc cggaaaaacg cgagtctgtt ctcatgcctg aaatgcccac
     1741 accccacgca aaaacaattt tttgctgatt tttctttata aatagagagt tatgacaaat
     1801 tagttcttct tgctctcttt gtgatattta aaaaagcggt gtcggcgcgg tgttgtagct
     1861 gcgccaacac cgctttttag gggtggtact gactattttc ataaaaaaca tcatcttata
     1921 ttaggggtgc tgctagcggc gcggtgtgtt tttttacagg acacccctgg gggcgctgct
     1981 aggggtgtct gttcagatat gtagcaatga gtcagggatt cacgaactga aaatgtccga
     2041 aaatgtgtct catgggcact gtatgcgccc aaaccgatcg tcattcactt tcatgcatag
     2101 ctatgcagtg agctgaaagc gatcctgacg catttttccg gtttaccccg gggagaacat
     2161 ctctttttgc ggtgttcgcg gcagaatcgc gttcagcgcg ttttagcggt gcgcgtaatg
     2221 cgacgttatg gtaaatgacg ctgaaaaatg atcttttacg ctcatcgttt atgagcaaca
     2281 gatgtcctaa tcatggattt gaactataac cgccgctgaa ttgatcgcat gaggtgttat
     2341 gaaaacggtg atataagtaa actttttctt gacttcctac ttattatcct ataaaataaa
     2401 tcctaaggat ttattttata ggatatcaaa aatataaaaa tggcaaatgc ttgtttgtta
     2461 ttattttttt cttgacaatc aatctctaat agaatatacg tccttaggac gtatattcta
     2521 ttagagacta aaccgaaaag gttgaatatg tatcttatcg aagaagcgct aacgtcttgg
     2581 ttgttgaatg aatataaaaa accagtcata accaaagaag aaatctcttt gcagatttac
     2641 cttttttatt taaaaaaaga atataatggt gagaggatat atcaaattag aaagaacaaa
     2701 gcaggaccta atgaatttga aaaaaatata ttaaaattat taaagtcagg ggttttatca
     2761 agagttgaaa gtaacgataa gcatcatgct tacccccatt taattggcgg tttctatgag
     2821 gtcttttttg ttaaaggtaa cgatggttct ccggaaaatg atatagtgtg ctctacgtat
     2881 ccatatggat acttatccta tttatccgct atggattggc ataacatcac agataaaata
     2941 cccaagataa tccactttac gacatgtcgt tccgaacagt ggaagaataa gttctatcat
     3001 gattttcaaa aggataatcc tgatatagac gaagccaaac aattcatgcc tagatttcca
     3061 agaaattctg aggtcaatgg aataaaaatt atcgttacac aagaaacaaa ttatgttgag
     3121 ccaatgaagg ctcgtaattc ccctgtcagg gtatcatcta tcggtaagac ctttatggat
     3181 atgaccaggc ggcctgatta ctgtggtggt gaggagcatg tattggaatc atttattgag
     3241 cacggtaaaa aatatgcacc tctgattata aaggaagtcg ataagcttgg ccgtcatatt
     3301 gacaaggtaa gggttggatt cattttggat agaattattg gggttaataa taaaaaaata
     3361 agcgaatgga aacaagaggc gggtaaatac agaggtagtt cgaaagtgct atctccaaag
     3421 agtccattct caccttactt tgatgaagaa tggtttattt ctattaatgt tgatatggtt
     3481 aagtcttatg gaaaaagaaa ttaataattg gatcgaagag tctggtggga agtacaggtt
     3541 gatgcgccag gctgtacata taatacttaa atctatttct atagaggaga gtttgaatga
     3601 aatgatggtt atgaagggag ggactcttct tggtgttaag catggtagtg atagatacac
     3661 aaaggatatt gatttttcta ccgaaaaaaa actttctgaa attgacttgg gggatttttt
     3721 caataggttt aatgactcaa tggatgttgc tgaggctgaa ttgggatatg gtattaaatg
     3781 taaagttcaa tctcataaaa ttcaacctaa tgcacaagga acatttccaa ctgtacagat
     3841 aaatatagcc ttttgcgatc gttctaatgc gtctgcaatg aaaaggcttg aatctaatca
     3901 atcaccttca gtgataaata tcgattttag ctttaacgaa aaaacgtatg attttgactt
     3961 tttatcatta gatggtgatg atgacaatga tagcgtaaag acctacagct taactgattt
     4021 gatggctgaa aaatatcgat ccgttttgca acaaaaagtt agagagagaa atcgagagca
     4081 agatatatat gatatcaatt atcttttagg taaatatgag ttttctcggc aagataagta
     4141 taaaatactg gagtctcttt taaaaaagag tgaaggtaaa caattggata atctcttaaa
     4201 cgttaaaggt ataagggatg tagaaattat cgagcgttcc agtcagcgat atcaggattt
     4261 atcatccacc gttaaatcat tacctctttt tgaagatgct tatgaaaaag ttgcctgttt
     4321 ctatgaaagt cttccgtggg atatattcaa atgatagcgt tcagttttag tgatattggt
     4381 aacagatgtg aaaacttaga cttattatct acgataaatt gtcaaaatga tgtgtttgga
     4441 atggttatta tggatgggta ttcctgctct gagtggaata tgaaaattct ctctggtagg
     4501 ttagataagt gcgtgttttc tggtgatctg aataaagata ttattgaacc atgcaagtca
     4561 gttcctgtta aggctgcagt atgtttcctt tttaaaaata atacgcacct ccatatatat
     4621 aacgcaggag attgccgtgt atataacaaa agtggagtcc ttctaacaga ggataactcg
     4681 gttgcctgga aaagattaaa ggaaaatgga atcga
//
