LOCUS       NZ_CP075636             2464 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain 2018-166 plasmid pSTEC2018_166-e.
ACCESSION   NZ_CP075636
VERSION     NZ_CP075636.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993346
            Assembly: GCF_016404485.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2464)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Distribution of virulence factors, antimicrobial resistance genes
            and phylogenetic relatedness among Shiga toxin-producing Escherichia
            coli serogroup O91 from human infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2464)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-MAY-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
REFERENCE   3  (bases 1 to 2464)
  AUTHORS   Stevens,M.J.A., Stephan,R. and Nusch-Inderbinnen,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2020) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2021
            Assembly Method :: unicycler v. 0.4.9b; SPAdes v. 3.15.2
            Assembly Name                     :: 2018-166_NP
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Oxford Nanopore; Illumina MiniSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/27/2023 06:22:39
            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)                     :: 5,465
            CDSs (total)                      :: 5,343
            Genes (coding)                    :: 5,049
            CDSs (with protein)               :: 5,049
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 294
            CDSs (without protein)            :: 294
            Pseudo Genes (ambiguous residues) :: 0 of 294
            Pseudo Genes (frameshifted)       :: 133 of 294
            Pseudo Genes (incomplete)         :: 162 of 294
            Pseudo Genes (internal stop)      :: 52 of 294
            Pseudo Genes (multiple problems)  :: 50 of 294
            Pseudo Genes (short protein)      :: 4 of 294
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075636.1.
            Bacteria and source DNA available from ILS.
            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/
FEATURES             Location/Qualifiers
     source          1..2464
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2018-166"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_166-e"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            1381..1926
                     /locus_tag="JFX80_RS27035"
                     /old_locus_tag="JFX80_27055"
     CDS             1381..1926
                     /locus_tag="JFX80_RS27035"
                     /old_locus_tag="JFX80_27055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002030412.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_021535322.1"
                     /translation="MSKSKALNINKRFSENPFIKDLIIPVKNKQVRISRLGEDNNIMIN
                     QSTGEVLGGTSVVTYKKVDSDNFIKLFTQNIKLAFELTQAGQKALFVLFWAVQNKTNND
                     LVLLDQYTLNDFINENKGLSMSLPTFKRGLGELVKSQILAMNKRKGFYYINPNFVFNGD
                     RVAFTTVLEMNKSSHKDK"
                     /name="replication/maintenance protein RepL"
     gene            complement(2006..>2464)
                     /gene="mobA"
                     /locus_tag="JFX80_RS27040"
                     /old_locus_tag="JFX80_27060"
     CDS             complement(2006..>2464)
                     /gene="mobA"
                     /locus_tag="JFX80_RS27040"
                     /old_locus_tag="JFX80_27060"
                     /inference="COORDINATES: protein motif:HMM:NF041264.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_252354388.1"
                     /translation="HPKRAKWRVIAMAKNKRSGSEVRQRTKVITLRVNNRVASEIRRRA
                     KNEGLTISEYIRTASLNNEIKQRVPSRYLDELIRLGRMQKKLFDKGKRPKDKEYLEVMH
                     KIILLCDEMKIVTKRISDVYNEMDLLKQEIKIIKRHHKNKYPGSNIFS"
                     /name="mobA"
     Typing          complement(715..975)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="8.62e-98"
ORIGIN
        1 tcggggcttg ccctgacagg aggtattctc atgcaagcga atgtattcgc ggtatgacga
       61 atacacatcc tgtcccgttt tccgctataa cttttcgacg aaaataaaat accgcgtcgt
      121 aacctggtat ttctgataca aaaaaatgat gcttcattca atattattta cacagatttt
      181 aaaaattatt gtttgttatt taataaataa cgccgaatta attgatgtct ttgttgtctg
      241 tcgtttgtgg attattggtg gaataaagat tagatcttcc tggttatata atcctttgcc
      301 tgttagtgat acggagtgtg tccaagtaac aggaagcgga agagcaagat agtagcatgt
      361 acataaaata taaatacgtg agttattgat atcgcgttta tatattaaaa atataactta
      421 acattgctct taatatttat tttgtcctga caatgggagc attaatcccc gtgcagtgct
      481 ccgccagctg ctgacaacct cgacatataa ccatcgatac gatagaacat cagggcgcgt
      541 ttccggcaag aactaaccat ggggatggtt tgcgtgccaa cgaacgccgg aaacgcgctt
      601 caaacctacc gagtcgccac ggttccggca gcgccttgag cgcaaccgga aaccgtctgg
      661 ggagaacccc agacccccac cgctgcaaca tcgacggtct atgaccaccc accaaccgag
      721 tagctgcctg taccgtgcaa atgggctttg cagggtgctg gcgcggttcc tggcgacctg
      781 aaagcccctg gttaggggta tcggcgcgcc tggcctcctg aaaccctctg taagcgtttt
      841 tcgcgccttc catgccctgg cgggcattta aaacccgttt cgtgcgtctg agagcttctg
      901 agagcgtttt aggggctatc tggcaactca tccccgaaag agcaaccgcg gaatcaccga
      961 caacatgcga gaggtaattc cgctcgccgc aagtcgatga ccgagcgtag cgagcgaatc
     1021 gacgaggaag cggaagagaa ccggaagcta cattgagcac ttacgcacag aatttggcct
     1081 acgcccccgc gtccgtgcac gcgtttaata agaattaaga agggaaatcg cgataaaccg
     1141 cgccaatcct agaatctaat gatcaggata ttgatctaac gtatcagaat agagcatcta
     1201 acatatcaat tagttgatat ttaaagtatt gattgtttgt tttttgctca tcgcgagtgt
     1261 gatttatttg atctttaagg tatcaaaact atgatactag tcggatcggt ttattgacat
     1321 ttgtagattt tttcttgata gtcgaggtat cagtttattg atacctgaga gtgtaaaata
     1381 atgagcaaga gcaaggcttt aaacataaac aaacgattta gtgaaaatcc tttcatcaaa
     1441 gatttgataa ttcctgtaaa aaacaaacaa gtaagaatat cgcgattagg agaagataat
     1501 aacataatga ttaaccaatc aactggagag gttttagggg gaacctcggt agtaacttat
     1561 aaaaaagttg atagtgataa ttttattaaa ttgtttaccc aaaatataaa attggctttc
     1621 gagttaacac aagctggtca aaaagcacta tttgttttat tttgggcagt acaaaataaa
     1681 acaaataatg atctagtctt attagatcaa tacacgctaa atgattttat aaatgaaaac
     1741 aaaggattaa gcatgtccct tccaacattc aaacgtgggc ttggggagtt ggtaaaatca
     1801 caaatattag caatgaataa gcgaaaggga ttttattata taaatcctaa ttttgttttt
     1861 aatggcgata gagttgcatt cacaacagtt cttgaaatga ataaatcgag ccataaagac
     1921 aaatgacaat gtattaagcc cgtcaaagga aaatttcaaa tctattggcg ggttttaata
     1981 ttcgtaacgg ctagcgccga agattttagc taaatatatt tgagccaggg tatttatttt
     2041 tatgatgccg ttttattatt tttatttcct gttttaatag atccatttca ttatatacat
     2101 cagaaattcg cttcgttact attttcattt catcgcaaag taaaattatt ttatgcatca
     2161 cctcgaggta ctccttatcc ttcggccgct ttcccttatc aaataatttc ttctgcatcc
     2221 gaccaagtcg gattaattca tctaaatacc tggaaggtac gcgctgtttt atttcattat
     2281 ttaaacttgc cgtcctgata tattctgaaa ttgtcagtcc ttcgttcttc gctcgccgtc
     2341 tgatttcgct tgcgactctg ttatttactc taagggtgat aaccttagtt ctctgccgta
     2401 cttctgaacc actacgttta tttttagcca tcgcaatgac tctccatttt gcacgtttgg
     2461 ggtg
//
