LOCUS       NZ_CP134090             5714 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Escherichia coli strain Ec45-2020 plasmid pEc45-2020-5kb, complete
            sequence.
ACCESSION   NZ_CP134090
VERSION     NZ_CP134090.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37265790
            Assembly: GCF_038709795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5714)
  AUTHORS   Szmolka,A., Gellert,A., Szemerits,D., Rapcsak,F., Spisak,S. and
            Adorjan,A.
  TITLE     First description of an mcr-1 Escherichia coli isolate from poultry
            in Hungary
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5714)
  AUTHORS   Szmolka,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-SEP-2023) Enteric bacteriology and foodborne zoonosis,
            HUN-REN Veterinary Medical Research Institute, Hungaria str. 21.,
            Budapest 1143, Hungary
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038709795.1-RS_2024_05_01
            Annotation Date                   :: 05/01/2024 00:42:36
            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)                     :: 5,496
            CDSs (total)                      :: 5,374
            Genes (coding)                    :: 5,140
            CDSs (with protein)               :: 5,140
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 234
            CDSs (without protein)            :: 234
            Pseudo Genes (ambiguous residues) :: 1 of 234
            Pseudo Genes (frameshifted)       :: 96 of 234
            Pseudo Genes (incomplete)         :: 151 of 234
            Pseudo Genes (internal stop)      :: 43 of 234
            Pseudo Genes (multiple problems)  :: 49 of 234
            Pseudo Genes (short protein)      :: 2 of 234
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP134090.1.
            Bacteria and source DNA available from UNIVET Department of
            Microbiology and Infectious Diseases.
            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..5714
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Ec45-2020"
                     /serotype="H10:O55"
                     /isolation_source="duck caecum"
                     /db_xref="taxon:562"
                     /plasmid="pEc45-2020-5kb"
                     /geo_loc_name="Hungary:Tiszakecske"
                     /lat_lon="46.957566 N 20.040174 E"
                     /collection_date="2023-03-01"
                     /collected_by="Andras Adorjan"
                     /genotype="ST162"
     gene            104..1228
                     /locus_tag="RGD01_RS27460"
     CDS             104..1228
                     /locus_tag="RGD01_RS27460"
                     /inference="COORDINATES: protein motif:HMM:NF013211.4"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0140911 - pore-forming activity [Evidence
                     IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA];
                     GO:0050829 - defense response to Gram-negative bacterium
                     [Evidence IEA]; GO:0031640 - killing of cells of another
                     organism [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like pore-forming protein"
                     /protein_id="WP_021529456.1"
                     /translation="MSGGDGRGPGNTGLGHNGGKPSGNVNGSSGHGGPSSGGGYHYNPG
                     KGPASTVGPDGEVHINITGGMEKDPPGKHHGNGGSGNGHGAGNHNSNSGGNGKTTSIPG
                     WSPDSGKPGRYLPTNKDKLIKGLIQSIDDHSGTYTIHYTGGAVATVTVPNGDVNKMNVH
                     YNIGSGPSSGNKLTRDTIKSFLEFKAENEANAVNDAISKVNDFYKELASKYGDKLEKEA
                     KALADEAKGKKIRNANEAIKAFDRYKDVLNKKFSVSDREAIAKALESLNKDQMAKQLKI
                     FGKAFGVVGEAIQWGGFISGLVKGFRTGDWNEAFISGEKIAVGKVASVMVTVAFSAMAV
                     NPIGILGFAVIMAVTSALITDERLKQLNSFINGI"
                     /name="colicin-like pore-forming protein"
     gene            2029..3048
                     /locus_tag="RGD01_RS27465"
     CDS             2029..3048
                     /locus_tag="RGD01_RS27465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_342616069.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRVLDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(3309..3707)
                     /locus_tag="RGD01_RS27470"
     CDS             complement(3309..3707)
                     /locus_tag="RGD01_RS27470"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            3884..4810
                     /locus_tag="RGD01_RS27475"
     CDS             3884..4810
                     /locus_tag="RGD01_RS27475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /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="WP_001736644.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKNGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIMEWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            4813..5346
                     /locus_tag="RGD01_RS27480"
     CDS             4813..5346
                     /locus_tag="RGD01_RS27480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168774.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQNLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVILED
                     KLAEKPVTGKNRKN"
                     /name="hypothetical protein"
     Typing          2030..2804
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          3885..4807
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaataatggc gagtactttt tgatctgtac ataaaaccag tggttttatg tacagtatta
       61 actatgtaat taattgtttt aacgattaaa agagggaatt tttatgagtg gtggagatgg
      121 tcgtggccct ggtaatacag ggcttggaca taacggtggt aaacccagtg gaaacgtgaa
      181 tggctcatct ggacatggag gaccatcatc tggcggtggg tatcattaca atccgggaaa
      241 aggtcctgca agcactgtag gtcctgacgg ggaggtgcat atcaacatta ccggtggtat
      301 ggaaaaagat cctccaggaa aacatcacgg taatggtggc tcaggtaatg gtcacggtgc
      361 tggaaatcat aacagcaatt caggcggcaa tggaaaaaca acgtctattc ctggatggag
      421 ccctgactct gggaaacctg gcagatattt accgacaaat aaagataagt taattaaggg
      481 acttattcag tcaatagatg accattctgg aacgtacact atccattata ctggtggtgc
      541 agtagctaca gtaactgtac caaacggtga tgtgaataaa atgaatgttc actataatat
      601 cggtagtggg ccgtcatcag gtaataaact gactcgtgat actataaaaa gctttttaga
      661 attcaaggca gaaaatgaag ctaatgctgt aaatgatgca ataagcaaag ttaatgactt
      721 ttataaagag ttagcatcaa aatacggcga taagttggag aaagaagcca aggcactagc
      781 cgatgaagct aaagggaaaa aaattcgcaa tgctaatgag gcgattaaag cctttgatag
      841 gtacaaggat gtgcttaata agaaattcag cgtatccgac cgagaagcga ttgcaaaagc
      901 actggagtct cttaataaag atcaaatggc taaacagtta aaaatttttg gtaaggcctt
      961 tggtgtcgta ggtgaggcta ttcagtgggg gggatttatc agtggcttag ttaaaggatt
     1021 cagaactggt gactggaatg aggcttttat aagcggggaa aaaatcgcag tcggcaaggt
     1081 agcatctgtt atggttacag tggcatttag tgctatggca gtaaatccta ttggtatttt
     1141 agggtttgca gtaattatgg cagtgactag tgccttaatt acagatgaaa ggctgaaaca
     1201 actaaacagc tttattaacg gcatttaata aacaaaaggt cgtaccgttt gatatggtat
     1261 gacctttatt ttgtttttct atcgcttttt gttggttata aagtaataga ctgtaaaaat
     1321 caatccaaat ggaggtagtg ataatataat gcatattata aaaccccagt taacgaagtt
     1381 aaaagttgtt tttgttagta agggtgcttg cttatttatt agtaatagac aaaaagggta
     1441 tgtggacgat ccaaaaagag atataagtat aaatataaat aattctatac ttgttgggct
     1501 tagattcaaa cttgcgatga taaaagataa aatgtaaaag gataaggcaa ggataaaatt
     1561 ccttaaatag aattccatat ctattttttt catttataaa atcctcgtta gttaaatgtt
     1621 tataatattg ccttacttta tccataaatc tagaagtagt tatcacaaaa gttacttttt
     1681 tgactcgttc gcccttttga acggtcgaaa ctgtttgcga atcgctttcg tgcatagtta
     1741 tgcaacgccc tgaaagtgat tctgacgcat ttttctggtt tggcctggtg tttccttgtc
     1801 tttttgcgtt ttttgcgcca gaaagcgact gagggcgttt taaggggtac gtacaacggg
     1861 agttatggta aatggatcgg ttttgcggga aggctcgaca ggttttgttg ttgggggtag
     1921 tgtaagcgac tgaaaaacaa acgcccctga aattcgtgtc tctccgccaa gattgtcacg
     1981 agaatacagg ggcgaggtcg gtcgataacc tggaaggaat cgtaacacat gagcgccgcg
     2041 cttcaatact tcgaagaaaa tttaccccac cgcccctatc acacggatga tctcgctttc
     2101 ggccttcgca tctccggcaa agggcgtgcg cttcttgcgc ggtacatcca gcagaaccag
     2161 cctcatgcgc agttctggct ggtttttgac gttgaccgcg agggggctgc gattgactgg
     2221 agcgaccgga acgcccccgc gccgaacatc accgttaaaa atcctgtgaa cggacacgct
     2281 cacctgctct acgcactcaa catcgccgtg agaaccgcgc ctgatgcctc ggttaaggcg
     2341 ctgaaatatg ccgcagcggt tgaacgttcg ctgtgtgaga aactttgtgc tgatgtgaac
     2401 tacagcggcc tgatttgcaa aaatccgttc cacctggaat ggcaggtgat ggagtggcgc
     2461 gaggacgcct ataccctcga tgaactggca gattatctcg atttgagcgc ctcagagcgt
     2521 cgtagcatcg ataaacatta cgggatgggg cgaaactgcc acctgttcga aatgacgcgc
     2581 aaatgggctt acagggcgat tcgtcagggc tggccagcgt tctcacagtg gcttgaagcg
     2641 gtgatccagc gtgtcgaaat gtacaatgca tcgcttcccg ttccgctttc actggctgaa
     2701 tgtcgggcta ttggcaagag cattgcgaaa tacacgcaca ggaacttcac gccggaaact
     2761 ttcgcacagt atgtggctga tacgcacacg ccagaaattc aggcagcacg cggtcgcaag
     2821 ggcgggaagg ccaattcgtc agaaaatcag tcggacaaag ggaaaaaaag cgccgctgtt
     2881 cggtggactg ctaacgacga caaacgtcgt agggtgcttg atatgtatat cttgggagcg
     2941 tcaacggaag atattgcagt ggcggttggt gttagcagcc ggactattcg acgctggatg
     3001 gataattctg gagaatggct aaccaagaaa caaataatta aatgttagtt aacaaagaag
     3061 caacactacc ccccgttttt tgttaatggg atgttaaatt cgcggacatg aacaagccta
     3121 tatcagataa cagcgccttt cggcgtcttt ttgagcagcg ggctttccgg cggttttctc
     3181 ctctcagccc agcaatggtg cggcttaccg catgattgag gtggtcgtgc tcgccgcagt
     3241 ctcatgaccg agcgtagcga gcgaatgagc gaggaagcac cagggaaccg gaacacggat
     3301 ggaggcactt acgcgtctgg gtttggggat gtctccagat cgtacttaat ttccttaagt
     3361 gcctgtaata tcctgtcttt tttatagcat agctcgcctg tttttgtgtc taccagtcct
     3421 gcttcgatca gtagcccagc cgcgagaaag agtcggtgat tgcgttctcg tcgttgtttt
     3481 tttccctcga ttcgtttttg gaccgcctgt tttcgttcgc tctcctgtgc ctgtaagtcg
     3541 tttttttccg ctgttgccag tacgtggagg agtttgcgtt cctgttctgt gagtcctgct
     3601 tcgttgtcga gcaggtcaat aatctgtctc tgtcgtgcgg tctgttctcc gagcttcctg
     3661 atgaatccga tccgtttctt cagccattcg atgttgctga tgcgcatgtt cgtggtgctc
     3721 cctggtgttt ttttgcggtg tgttgtggtc gtgcagtata tcgcttgcgg tcggcgggtg
     3781 cagggggtat cttccgtgct aattcgtaaa attagaagga agcgcactta tatgtttctc
     3841 tccttcgtcg agaaacagtg cgctcctgcg gagggctgaa accgtggcga cctatcacct
     3901 cagcgttaag tttggtggca agggacaggc tgcaaaccat gccgattaca tcgagcgcaa
     3961 agagaaatac cgcgaccgtc aagatttgga atattccgca cacggaaaca tgccggaatg
     4021 ggcgcgagat aatccctccc atttctggca ggcggctgac cagtttgaac gtgcaaacgg
     4081 ttcgacttat cgggaactgg agatagcgct gccccgtgaa ctgacaccgg aacagcgcct
     4141 tgaactggtg caggattttg tacgtcagga agctggcgaa cggcatgcat ggagttttgc
     4201 cattcacaat ccgaaagcga gcattgaggg aggcgaacag cctcatgcgc atatcatgat
     4261 gagtcagcgt gtgaatgatg gcattgaacg tacaccggaa cagtatttcc ggcgctataa
     4321 cgccaggtat cccgagcggg gaggtgcgaa aaaggattca ggaagcctga ctcccactca
     4381 gcaaaaagag cagttgcggg aattgcgaaa acgctgggag gtgaagcaca acgaacatat
     4441 gagaaaaaat ggctttgaaa ggggcttcat tgactgtcgg acgctgaaag aacagggcat
     4501 tgaacgacgt cccgaagtgc atctgggttt tgaagctgcc ggacggcttg atgatgccca
     4561 gcgtcatgac atcatgcaaa aacggtctga accggactat tcccgccatc ttgaacaggc
     4621 gcgaacggtc gggcatgaca tcatggaatg gctggacact ccggttaagc aacatgaact
     4681 ggtcagaagg ctgcaacatg atgttgcgcg ggagcatggc tttgacatga gagacagagt
     4741 gagcagacag gaccgaactg aacctgaacg ggttaaatca ccgtcacgtg gattttctat
     4801 gggattctga acatggccag cacagaagaa aaattactca cgctcctgtt atcggtggag
     4861 catttgcaac ataccgcaat ggagcaacag aaagctgttg ctgattctct ggctgtggca
     4921 agggaaacac ttcgcggata tcgggatatt tctgacggtg tggcaaaaca ggtcagggat
     4981 gaagtcagaa atgaggtgca gaatctggac gtagcagggc tgataggtga gcgcatcagc
     5041 caggattttc agcggctgga agagtcagtc gcaaacatga aggcaaacgc ggatgccctg
     5101 aacagggata ttgcgacaat tcacagcaat atcgtgcagg aatacaacac ccttaaaggg
     5161 tatagctgga aatggctggg tggggtgtca gtggcttttc tagttatgtt ctgtgtgctc
     5221 ggatggggaa tgaaaacaat gctcgacagg aactacaacg ccacagcggc ggtgtatcag
     5281 aaagttgtga tactggaaga taaactggcg gaaaaacctg tcacgggtaa gaaccggaaa
     5341 aactgacgcg cttcgcttgt ccaacgcctc acggacagcg aaaggatttc gcgttccgtt
     5401 caccgttttc atgagtgatt cctccgaact gccaaaaaat atccctccct gacttgacag
     5461 aaaaaataat ggcgagtact ttttgatctg tacataaaac cagtggtttt atgtacagta
     5521 ttaactatgt aattaattgt tttaacgatt aaaagaggga atttttatga gtggtggaga
     5581 tggtcgtggc cctggtaata cagggcttgg acataacggt ggtaaaccca gtggaaacgt
     5641 gaatggctca tctggacatg gaggaccatc atctggcggt gggtatcatt acaatccggg
     5701 aaaaggtcct gcaa
//
