LOCUS       NZ_CP122711             2809 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain ETEC4061 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP122711
VERSION     NZ_CP122711.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549638
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2809)
  AUTHORS   Vereecke,N., Van Hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Virotyping and genetic antimicrobial susceptibility testing of
            porcine ETEC/STEC strains and associated plasmid types
  JOURNAL   Front Microbiol 14, 1139312 (2023)
   PUBMED   37143544
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2809)
  AUTHORS   Vereecke,N., Van hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-APR-2023) Department of Pathobiology, Pharmacology and
            Zoological Medicine, Universiteit Gent, Salisburylaan 133, Merelbeke
            9820, Belgium
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Trycycler; minimap2; medaka v. v0.5.3; v2.20;
            v1.5.0
            Genome Representation        :: Full
            Expected Final Version       :: Yes
            Genome Coverage              :: 315x
            Sequencing Technology        :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Name              :: GCF_030166055.1-RS_2024_06_20
            Annotation Date              :: 06/20/2024 04:20:09
            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)                :: 3
            CDSs (total)                 :: 3
            Genes (coding)               :: 3
            CDSs (with protein)          :: 3
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122711.1.
            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..2809
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC4061"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..834
                     /locus_tag="QDX28_RS00005"
                     /old_locus_tag="QDX28_27590"
     CDS             1..834
                     /locus_tag="QDX28_RS00005"
                     /old_locus_tag="QDX28_27590"
                     /inference="COORDINATES: protein motif:HMM:NF026209.4"
                     /GO_process="GO:0042742 - defense response to bacterium
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="lipid II-degrading bacteriocin"
                     /protein_id="WP_236476031.1"
                     /translation="MADTLIVLASPTGYEPPGYGGGYFPPSLSGRHPAASGTGPRAIQG
                     AISFFNSSAMCANTLSWLADYVKKHGASDPLTIQVVTNNIRYFLNADRNLCLNPHISVF
                     DAYMSTKSPAARYNYRSMSMKQMSGKNVTVLAAFGHYLWGNGEARYVNLQDVGLNITPQ
                     QIPELMKIISSGVTGNIPIDIRFNHNTFDSGGVIPAAYLGNVSLQTKGTLSIKQGGAWS
                     YNGVVRAYNDYYDFNLGGFRGPIAESLTYLGSQFKGTPYEISMPGEISIKGSGQR"
                     /name="lipid II-degrading bacteriocin"
     gene            complement(812..1267)
                     /locus_tag="QDX28_RS00010"
                     /old_locus_tag="QDX28_27595"
     CDS             complement(812..1267)
                     /locus_tag="QDX28_RS00010"
                     /old_locus_tag="QDX28_27595"
                     /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="YebF family protein"
                     /protein_id="WP_284447785.1"
                     /translation="MNGLFKLNYFMVINMKRNSMIKTSITIIIVAIIAFLFSEYRDNAE
                     AKNCNDISNTQARQDVKSHFMNFLSRAISLQQELGTTDIMFTWGDINREKDNKSELLGI
                     NFSAKGHRGEKHFIALYTCSNGKIEYSVVPEDDVSPSGSNVNVDQNP"
                     /name="YebF family protein"
     gene            complement(1278..1790)
                     /locus_tag="QDX28_RS00015"
                     /old_locus_tag="QDX28_27600"
     CDS             complement(1278..1790)
                     /locus_tag="QDX28_RS00015"
                     /old_locus_tag="QDX28_27600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240432.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_284447786.1"
                     /translation="MGFSETKIVFISPEMHSEKRQKQLSDEAKKANEELEEAKKNSRFT
                     QVSPKGWERVRELLKDSQGVSALKLYTFLAEHIDPACGAVVADQQFLAEKLGVSRSTII
                     RWLNYLESKNAVVRIPVAGKVCAYALDPHEVWKGYNTTKDYAAFVTKTLVNKDGDIQRR
                     IMAMFSK"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1853..1947
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.458"
                     /coverage="87.0"
                     /evalue="5.670000000000001e-21"
     Typing          2338..2594
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.86"
                     /coverage="98.0"
                     /evalue="3.1e-97"
ORIGIN
        1 atggctgata cattgattgt acttgcttcc cctaccggat atgaaccacc gggatatggt
       61 ggaggttatt tccctccaag tttatctgga agacatccag ctgcttcagg aacaggtcca
      121 agagcgatac agggagctat tagttttttt aactcttccg caatgtgtgc aaatactttg
      181 tcttggcttg ctgattatgt gaaaaaacat ggtgctagcg atccacttac tattcaggtg
      241 gtgactaata atattagata ttttttaaac gctgatagaa acctttgttt aaatcctcat
      301 atttctgtat ttgatgctta tatgagcact aagtctccag cagctagata taattatcgt
      361 tccatgagca tgaagcagat gagtggaaaa aatgttactg tacttgctgc atttggacat
      421 tatttatggg gtaatggtga agcaagatat gtaaatctgc aagatgtcgg tttgaacatc
      481 acaccgcaac aaataccgga actgatgaag ataattagtt ctggcgtaac ggggaatatt
      541 cctattgata ttagatttaa tcataatact tttgatagcg gtggcgtaat tcctgctgca
      601 tatcttggta atgtttctct acaaacaaaa ggaactttga gcattaaaca aggtggtgca
      661 tggtcctata atggggttgt tcgagcgtat aatgattatt atgatttcaa tttaggggga
      721 tttagggggc ctattgctga gtcattaact tacctcggtt cacaatttaa gggtacacct
      781 tatgaaatat ctatgcctgg agaaataagt atcaagggtt ctggtcaacg ttaacattag
      841 atccagaggg tgaaacgtca tcctctggta ctactgaata ttctattttt ccattactgc
      901 aagtgtataa tgcaatgaaa tgtttttctc ctctatgtcc tttggcagag aagttgattc
      961 ccaataattc acttttatta tccttttctc gattaatatc cccccatgta aacattatat
     1021 ctgtagttcc tagttcctgt tggagagaaa tagcgcgaga aagaaaattc ataaaatgag
     1081 actttacatc ttgtcttgct tgtgtattag aaatgtcatt gcagttcttt gcttctgcat
     1141 tgtctctata ttcactaaac aaaaaggcaa taatagcaac aataataatt gttattgatg
     1201 tttttatcat tgagttccgt ttcatattta tcaccataaa ataattcaac ttaaataaac
     1261 cattcatttt aataacatta ttttgaaaac atggccataa ttcgacgctg aatatctccg
     1321 tctttgttga ccaatgtttt agtaacaaat gcagcatagt cttttgttgt gttatatccc
     1381 ttccagacct catgaggatc gagtgcatac gcacagactt taccagctac gggaattcta
     1441 actacagcat tttttgattc taagtagttg agccacctga ttattgtgct cctgctaacg
     1501 ccaagtttct cagcaagaaa ttgctgatct gcaacaaccg caccacatgc aggatctata
     1561 tgttcagcta aaaacgtata taactttaga gcagatactc cctgactatc cttcaaaagc
     1621 tctctgacgc gttcccagcc ttttggggat acctgagtaa atcttgaatt cttcttagct
     1681 tcttcaagtt cttcattggc ttttttagct tcatctgaga gttgtttctg ccgtttttct
     1741 gaatgcattt ctggactgat aaacacgatc tttgtctccg aaaatcccat gaaccaacaa
     1801 tgatgcaaat gtaaaacatg ataactcact tatgcaacat cttgttgtct attgtcgcat
     1861 ccaggatgcg acaacgttgt cgcatcctgg atgcgacaga taattaatac ataaccttaa
     1921 aaaacaacaa cttacaaatc tacgtaatat atctattctg tgtaatagtg ttgcgcgtta
     1981 agcaacacta ttttggggtt tcggggcgaa gccctgaacc agtcacgtag cgatagcgga
     2041 gtgtatactg gcttactcct ctgcaagcct cgccagccgt gatttttgcc agatttcgtg
     2101 gttttcacgt tcaacagcgc ctgcacgttt tttgccgtcc gttcaccgtt aaactccgca
     2161 gaaatcggga caggatgtgc aattgagata ccgtcacacg cgacgctatc tcaatcagga
     2221 cttcgccccg acccccgcat ctatgcgtaa gtgctcaatg taacttccgg ttatcttccg
     2281 cttcctcgcc cactcgctca ctacgttcgg tcgctggggc tgcggcgagc ggagccacct
     2341 ctcacatgtt gtcagtgatt ccgttgttgt tctttcggga atgagtcgcc agatagcccc
     2401 taaaacgcgc tcagaagctc tcagatgcac gagacgggtt ttagatgccc gtcagggcat
     2461 ggaaggcgcg aaaaacgctt acagagagtt tcaggaggtc aggcgcgccg atacccctaa
     2521 ctaggggctt tcaggtcgcc aagaaccgcg tcagccccct gcaaagctca tttgcacggt
     2581 acaggcagct attcagctag ttggtggtcg tagaccgtcg atgttacagc aatgggggtc
     2641 tggggttctc ccagacggtt tccggcagcg ccttgagcgc aaccggaaac cgtggtgatg
     2701 cgatcgtttt gaattaatgg ttcgtatatt tttgagatta aggtcaaaaa ataacacgct
     2761 caaacactgt atgcttatac agtgctttaa tgtgtgaatg aggttattt
//
