LOCUS       NZ_CP093925             4773 bp    DNA     circular CON 27-MAY-2024
DEFINITION  Escherichia coli strain ST167 plasmid pGA_Eco5, complete sequence.
ACCESSION   NZ_CP093925
VERSION     NZ_CP093925.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26656496
            Assembly: GCF_022699465.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4773)
  AUTHORS   Batisti Biffignandi,G., Piazza,A., Marchesini,F., Prati,P.,
            Mercato,A., Abualsha'ar,A., Andreoli,G., Sassera,D. and
            Migliavacca,R.
  TITLE     Genomic characterization of a O101:H9-ST167 NDM-5-producing
            Escherichia coli strain from a kitten in Italy
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4773)
  AUTHORS   Batisti Biffignandi,G., Piazza,A., Marchesini,F., Prati,P.,
            Mercato,A., Abualsha'ar,A., Andreoli,G., Sassera,D. and
            Migliavacca,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAR-2022) Clinical-Surgical, Diagnostic and Pediatric
            Sciences, University of Pavia, Viale Brambilla, 74, Pavia 27100,
            Italy
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unycicler v. v0.4.8-beta
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 76.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022699465.1-RS_2024_05_27
            Annotation Date                   :: 05/27/2024 04:43:46
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,051
            CDSs (total)                      :: 4,927
            Genes (coding)                    :: 4,655
            CDSs (with protein)               :: 4,655
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 272
            CDSs (without protein)            :: 272
            Pseudo Genes (ambiguous residues) :: 0 of 272
            Pseudo Genes (frameshifted)       :: 116 of 272
            Pseudo Genes (incomplete)         :: 170 of 272
            Pseudo Genes (internal stop)      :: 53 of 272
            Pseudo Genes (multiple problems)  :: 58 of 272
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP093925.1.
            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..4773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ST167"
                     /isolation_source="liver"
                     /host="Felis catus"
                     /db_xref="taxon:562"
                     /plasmid="pGA_Eco5"
                     /geo_loc_name="Italy"
                     /lat_lon="45.30989 N 9.50085 E"
                     /collection_date="2020-06-19"
                     /collected_by="Istituto Zooprofilattico Sperimentale della
                     Lombardia e dell'Emilia Romagna 'B. Ubertini', Pavia,
                     Italy"
     gene            complement(<452..1156)
                     /locus_tag="MOO49_RS25355"
                     /pseudo=""
     CDS             complement(<452..1156)
                     /locus_tag="MOO49_RS25355"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            complement(1095..1418)
                     /locus_tag="MOO49_RS25095"
     CDS             complement(1095..1418)
                     /locus_tag="MOO49_RS25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2056..2139
                     /locus_tag="MOO49_RS25360"
     CDS             2056..2139
                     /locus_tag="MOO49_RS25360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058652899.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPDRHD"
                     /name="hypothetical protein"
     gene            complement(2733..3200)
                     /locus_tag="MOO49_RS25100"
     CDS             complement(2733..3200)
                     /locus_tag="MOO49_RS25100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_157186121.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYTTVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            3736..4287
                     /locus_tag="MOO49_RS25105"
     CDS             3736..4287
                     /locus_tag="MOO49_RS25105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(4486..4701)
                     /locus_tag="MOO49_RS25110"
     CDS             complement(4486..4701)
                     /locus_tag="MOO49_RS25110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          complement(1520..1707)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.864"
                     /coverage="87.0"
                     /evalue="5.83e-49"
     Typing          1653..2165
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.829"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3..1105)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.391"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4383..4771)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="99.0"
                     /evalue="1.7300000000000001e-65"
ORIGIN
        1 gcagcgccgt ctctgctctc cgcaggtcga gagctgcacg ccgctgttcc tctcggacag
       61 catggcctgc gtgctcttct gctcccggat gatcgtgtaa ttgtcgagta tctgctgccc
      121 ctgccaccat agaatgcttg cgcccgatgc tgtcagcagt gtagacacca ggacgatggt
      181 cagccacgtc tggctgacca tacgcaccat gcctttcgtg cgctggctca tggctgagga
      241 cagcttccgg tcgtggtcga ggatggcggc gctgattctc ttctcgcttt cgctcagttc
      301 cgctctgaca aacttctcgt gctcgctgaa tgcgactttc agcatctcgc cggtactctg
      361 ctgctgcgct ttcgatttct gctctaagtc cttcgccagc gttaaaagac tgttcataga
      421 tggctccctt cagtcggatg tttcgccccc cgtccgggtc ggcaatgctg atgctgcttt
      481 ttgtggtgcg caccacctca aaacctgcgc tttctagcgc ctcagtgacg tcctggcggg
      541 ttttcagctc cccggacgag gctaaggcca gtaaaccccg tgtaattgcc tgagcggctt
      601 cctgcttcgt tttcggcagc gcggacggcg tgaccagcgc ccgccggttt tcaggcgcgt
      661 tcgggtcatg cagccccagc ctgccgttca cgatggtctg ccaggcatca atgcgcggac
      721 ggtcggcgcg gtcgtaatac ggctggagac gcctgcctgt cagcagctcc atgttcggga
      781 tcaggaagtt cagctccagc cgccccttat cctggtgctc aacccatagc acgctgtact
      841 ggtctttatc gagtccgggc atcagaaccc gttcaaagct cgccatcagc ttttcgcgct
      901 gcccgggcgg taaatccttt tcggcaaagg acaggacgcc ggatgtgtac ttttttgcgt
      961 agggcgaggc gtcgataagc tccctgactt cttccggctt cccctgcaga acggtggcgc
     1021 cgtcgcgctg tcggtctttc cccagcagat aatccaccgg accggcgcca ccgccgcgcc
     1081 ctcgcgggtg aaacttaacg atcatcgtct gcaccctttt ccagcacggc atgccgcagc
     1141 cgctcgagtc cggcatctat ggccatcagc gcggcgacga cctgcacgcg gtcgtgcccg
     1201 ctgccgccac cggcgttaac ctgccgggca atctggttga ggttattccc catgccggca
     1261 agctgacgaa gcagcgccgg cgagattgag ggaagcttgc cggcgcgggc gggtttctcg
     1321 gccaggcacg tctggcgcat ccaggctgca agctgtttac cgtcgcagcg ttccagcaga
     1381 cggcggtgct catcttcggt cacccacatg gtgagcatct tgttccgttt ctctgacaaa
     1441 ccgatctcct gataacgccg ggacgggcgg gaaatctttt cccggtcggc gcggtgttgg
     1501 acaagccgca ggcgcgtcag tggttttagc aggtttcggg gcgcagccct gaaccagtca
     1561 cgtagcgcta gcggagtgta tactggctca atatgttacg gcggagtaac acgtaatgaa
     1621 agtgcttcat gtggcagggg aaaaatgcag ctgcagggcg tacaggagaa aatggaggtt
     1681 acggtgatat gacgcctcct cgctcactcg gtcgcttccg ctcctgacgt tcggctgcgg
     1741 cgggcgttac ctgcaaacgg ataagagcaa aggcatacgg catggcaagc aggacaggaa
     1801 aaggatgcgg cgctgccgtt tttccatagg ctccgccccc ctgacaagca tcacgaaatc
     1861 tgacgctcaa atcagtggtg gcgaaacccg acaggactta aagataccag gcgtttcccc
     1921 ctggtggctc cctcgtgcgc tctcctgttc ctgcctttcg gtttaccggt gtcattccgc
     1981 tgttatggcc gcgtttatct cattccacgc ctgacactca gttccgggta ggcagttcgc
     2041 tccaagctgg actgtatgca cgaacccccc gttcagtccg accgctgcgc cttgtccggt
     2101 aactatcgtc ttgagtccaa cccggataga cacgactaat cgccattggc aacggccact
     2161 ggtaagcagg atgtgcgaga gatgtaacga gagttcttga agtggcggcc taactgaggc
     2221 tacactgaaa ggacagtatt tggtgacatg tctcgcacaa gactgttacc acggttagag
     2281 aatctgccag gattaactaa ccttcgaaaa aaccacctgc cagggtggtt ttttcgtttc
     2341 tgagcaagag actacgacga gccactgatg atctcaagtg ttcatttctg atattcacag
     2401 cagaataact gttaggatat agggtatcta tagccaggag cttcaagaaa tccagacaca
     2461 gcaatggatt ccagggttat cgaaaaaaat tagtatatag gttgcaacca aaatgttggt
     2521 tgcaaatcta catcacgatg tttatgatta ttgtactgca agagcattcg cagggggcat
     2581 caaccagtaa taggccttct gtgccgggca gtcagatggc tggtcatctg ccgggtagtt
     2641 acgacaagcg tcggtttctg aaccctatgt gctaaggaaa tgctgcgact accaacgaat
     2701 tcataaaggg cgctttttag cgccctattt ttttattcaa tatgaccaac caaagtaccg
     2761 tgcgccgtcc ttcgtgtgta cgcagtcaca acgacataga tccaacctga ctcagtttca
     2821 ggcgcttctc tgggctcaag aattacgatg cctaccgacg actttagcac tgcaggccga
     2881 tgtttaccgc ttgtactgtt gaactcgcaa tatattggta cgccacgacg aataatatcc
     2941 cggacaaaac gagccacatc attaacggtc gtatatccca gcttaaccag ttcctgctcg
     3001 tgctcagccc agatatggcg aacaccaaag ccccggttag ggccagtatg cctaccaaca
     3061 cgcaagaaga tgtcgccagc aggaataaca tcacctttag aattaatttc agggacacgg
     3121 ccatagcaat caagcccatc agggtgagct atagcgctgt taggtgaacc agctacaccg
     3181 taattgtttg gagcaggcac aaaacgatcc ttattgagta gagtccgcat atggtaccag
     3241 agaggaaaca agcggaagga gcccaagaaa aaagcagaga cgataaaaag aatccttatg
     3301 gattattttt ttgtcctttc atccttggcg cataaggata tcacacctga aaatgtgacg
     3361 tgcgaatcgc cctagcagct agatttacca taacatccct tgcccgcacc gctccggacg
     3421 ggttcagcgt gaaagcggcg ttagcccggt aaaaccggca gtaaactccc cgctaaaccg
     3481 cgcattctgc gcctgataaa tttcacgcgg ctgcatagcc atgcagccac gtgaatggct
     3541 catgctttca atgtatatcc tcgtccaagc ccctgtttta accggtttat caaaaaaaca
     3601 aacaggaagc cttatcacta acaataaaag aggtaggggg ctgcatttta tcgcataaaa
     3661 aacatttaca acacgaattc tatcgtatag atttcataaa aaaatgaaat tgactcacct
     3721 attaagggtt tctatatgaa agatatgaaa gctgttgtgg tttttaccgg gaaggatttg
     3781 aacataatga gaaccgaggg ggggtcaggc tactggcatg ccagaacaga caggctcaac
     3841 gatgccgatt acctcatagc agtaagaaac agaagggaaa cgtgggcagt aaaagacctg
     3901 gaacacggca cagcattcct gatcgccaaa attaccgggt gttttaaaag ccctgattac
     3961 gacgacagga acgtcataac ctttgatgaa tacgcagaaa ttcacactcc aaaagcatgg
     4021 aaaatgctaa ccgatggtca gcgctatccg gttgcttacc tgagcgcaca ggaagctttt
     4081 ttacgtattg gggtaacacc ggaacaactg gaatggaaga aattccatcc ttcatcccca
     4141 tcggttccta atacagtgat tcctggtctg gctgaagaga aaacagaaaa actctccctt
     4201 aacgaggcaa ttgaaagagc caaaaaggat attagcaacg caacagggat tgatagctca
     4261 gccataacaa taagcatcaa gatctgatga agcgtgaaca acaagatagc agcctcatgt
     4321 tctagaactg aacctgtgcg ccagaaacag caagcccatg cttttccggc gcacagattc
     4381 aaagtgacgg accgttgtac gttcgctgtc gctgagatcg ttccagctcc agcgctttct
     4441 gatgctgcgc cgcccgttcc tgctcacgat gtgcctctat cacgttcagc cttgtgacaa
     4501 ccggcgcagc tgctcgctca aactctgcac ctgcctgctc aagcccgtga cgcgctcgct
     4561 cagcgccgcg ttctcccgtt gcataagacc aaacatcgtc cgccattccg cgaaggcgtt
     4621 ctcccactcg tccagccttt tcgagtagtc ctgctgtagc tgctctaatg cgctcagcaa
     4681 ctgtttttcc agctccgtca tgtgctattt ccccgccagt atcatccagc tcgaatcctc
     4741 tccgaaccgt cccgcttccg ggttcaccct cac
//
