LOCUS       NZ_CP120946             3306 bp    DNA     circular CON 25-MAY-2024
DEFINITION  Escherichia coli O157:H7 str. EDL933 plasmid pO157_EDL933_2.2,
            complete sequence.
ACCESSION   NZ_CP120946
VERSION     NZ_CP120946.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15296135
            Assembly: GCF_029590495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O157:H7 str. EDL933
  ORGANISM  Escherichia coli O157:H7 str. EDL933
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3306)
  AUTHORS   Meghan,M. and Narjol,G.-E.
  TITLE     Precision metagenomics sequencing for food safety: Hybrid assembly
            of Shiga toxin Escherichia coli in enriched agricultural water
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3306)
  AUTHORS   Meghan,M. and Narjol,G.-E.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-MAR-2023) ORS/DM/MMSB, Food and Drug
            Administration-College Park, 5001 Campus Drive, College Park, MD
            20740-3835, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2021
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: EDL933_2_hyb_assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 110.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029590495.1-RS_2024_05_25
            Annotation Date                   :: 05/25/2024 05:57:01
            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)                     :: 5,531
            CDSs (total)                      :: 5,403
            Genes (coding)                    :: 5,102
            CDSs (with protein)               :: 5,102
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 98
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 301
            CDSs (without protein)            :: 301
            Pseudo Genes (ambiguous residues) :: 0 of 301
            Pseudo Genes (frameshifted)       :: 110 of 301
            Pseudo Genes (incomplete)         :: 178 of 301
            Pseudo Genes (internal stop)      :: 69 of 301
            Pseudo Genes (multiple problems)  :: 45 of 301
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120946.1.
            Bacteria and source DNA available from Roberson, Dwayne.
            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..3306
                     /organism="Escherichia coli O157:H7 str. EDL933"
                     /mol_type="genomic DNA"
                     /strain="EDL933"
                     /serotype="O157:H7"
                     /host="Homo sapiens"
                     /db_xref="taxon:155864"
                     /plasmid="pO157_EDL933_2.2"
                     /collected_by="Roberson, Dwayne"
                     /genotype="ST11, O157:H7"
                     /note="clinical"
     gene            complement(115..309)
                     /locus_tag="P7249_RS27585"
     CDS             complement(115..309)
                     /locus_tag="P7249_RS27585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041624.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            581..904
                     /gene="mobA"
                     /locus_tag="P7249_RS27590"
     CDS             581..904
                     /gene="mobA"
                     /locus_tag="P7249_RS27590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /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_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(1139..1519)
                     /gene="lsoB"
                     /locus_tag="P7249_RS27595"
     CDS             complement(1139..1519)
                     /gene="lsoB"
                     /locus_tag="P7249_RS27595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="WP_000710826.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(1516..2556)
                     /gene="lsoA"
                     /locus_tag="P7249_RS27600"
     CDS             complement(1516..2556)
                     /gene="lsoA"
                     /locus_tag="P7249_RS27600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="WP_000068433.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            complement(2821..2934)
                     /locus_tag="P7249_RS27605"
     CDS             complement(2821..2934)
                     /locus_tag="P7249_RS27605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001459398.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAAIGN"
                     /name="hypothetical protein"
     gene            3045..3293
                     /locus_tag="P7249_RS27610"
     CDS             3045..3293
                     /locus_tag="P7249_RS27610"
                     /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_000919062.1"
                     /translation="MAGSEQESARGSFRGETPGIFIVLSGFATSGLSVDFCDARQGGGA
                     YGKTPAVLASSGALLFAHMFFPALSPDSVDNRITAFE"
                     /name="hypothetical protein"
     Typing          347..572
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          complement(2863..3306)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.444"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          582..901
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.0199999999999997e-60"
ORIGIN
        1 gccgcagtcg aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa gagcgcctta
       61 tgtgacattt tctccttacg ctctgttgtg ccgttcggca tcctgccctg agcgttatat
      121 ctctgtgcta ttttctactt caaagcgtgt ctgtatgctg ttctggagtt cttctgcgag
      181 ttcgtgcagc ttctcacaca tggtggcctg ctcgtcagca tcgagtgcgt ccagtttttc
      241 gagcagcgtc aggctctggc tttttatgaa tcccgccatg ttgagtgcag tttgctgctg
      301 cttgttcatc tttctgtttt ctccgttctg tctgtcatct gcgtcgtgtg attatatcgc
      361 gcaccacttt tcgaccgtct taccgccggt attctgccga cggacatttc agtcagacaa
      421 cactgtcact gccaaaaaac agcagtgctt tgttggtaat tcgaacttgc agacaggaca
      481 ggatgtgcaa ttgttatacc gcgcatacat gcacgctatt acaattaccc tggtcagggc
      541 ttcgccccga caccccatgt cagatacgga gccatgtttt atgacaaaac gaagtggaag
      601 taatacgcgc aggcgggcta tcagtcgccc tgttcgtctg acggcagaag aagaccagga
      661 aatcagaaaa agggctgctg aatgcggcaa gaccgtttct ggttttttac gggcggcagc
      721 tctcggtaag aaagttaact cactgactga tgaccgggtg ctgaaagaag ttatgcgact
      781 gggggcgttg cagaaaaaac tctttatcga cggcaagcgt gtcggggaca gagagtatgc
      841 ggaggtgctg atcgctatta cggagtatca ccgtgccctg ttatccaggc ttatggcaga
      901 ttagcttccc ggagagaaac tgtcgaaaac agacggtatg aacgccgtaa gcccccaaac
      961 cgatcgccat tcactttcat gcatagctat gcagtgagct gaaagcgatc ctgacgcatt
     1021 tttccggttt accccgggga aaacatctct ttttgcggtg tctgcgtcag aatcgcgttc
     1081 agcgcgtttt ggcggtgcgc gtaatgagac gttatggtaa atgtcttctg gcttgatatt
     1141 atattggaat gccttttttc aaagcaaatg atgtggcttt ggatagaagg tttacgttga
     1201 tcttatcaaa gtttttttta aagaacgaag ccgagagctc agataaatca ttatattcat
     1261 cagttttcgt aactttgttt aatgtgtaac ttgaaaactt ctcgccatta aatgacgtat
     1321 agacgtaacg atcttttttt ccaccgttag gaattattaa atcaaaaaaa acatcaccct
     1381 tgcttttctt tttcttcaag tcggattcga tttttgagaa aaattcgctc gggctataaa
     1441 tatcagtagc atagacaata aataaagttt tatctttatt ttttattgct tctatttgat
     1501 attttttatc ttttttcata atttcaacct agctacgcca ccatctatta attggcaaac
     1561 ggtatcgatg attgcgattg attctaattt gttaattgtc ttcgtgtcag ctattcctgg
     1621 tttcatatga aacaaaccat gcctgttctc atgccagtaa gtgtagcatt cacacaaaac
     1681 ttccgctatt tcaccattta tagtttcttg gtgtatttct ctgattatat atttgggttt
     1741 gttttcagtg aagtattcgc caaggttctt tgatgatgat ggattgcaaa catcattaag
     1801 tatttgatat ataaagcctt ctatggctct taatgcagag aagcagtatg ttgagtaatc
     1861 ttccatttcg acatctattt ttttcattat tagcgagcat gatagctgtt ttttgatatc
     1921 ttcatggatt ttatcgatgc tttttggtag tttgctatgc aactcggact caatagtttc
     1981 tttttttatg tcaacattaa attctttatt tttttgttcg acaatctctt tcatgtttag
     2041 tattgagcac atgaaatcgt taatcaaact cgcgatttga aggtattttc cttggaattg
     2101 aatagagccg cgcttgtaaa tttttgccct gaccctgtca ccattgctgg tggtcataat
     2161 atattggtgt ttacaattag gatcgttatt attatcttct gttattgtta tcccctcttc
     2221 agaaagaaat tcaaatagat ttgccctgtc atcatcactg aattttggaa tggtgtattc
     2281 aaagttcttt gtgtctgaat acaaacagtt ttcttttata atcaaggcga tttcatcaaa
     2341 gtaagtgtta ttttgcccag acgctcttcc gatagtggta tttccgcctg atggcattag
     2401 ttttattaag aagtctattc ctttatatgt gccagatatg tgagtttctc tttcgttttt
     2461 tacattagag gaatagtttg tgacgccatt ctgcgtcaga gcagactcaa tcttgtcaat
     2521 attgatattt agtgctttaa acgggttctg tgccattggg tcaatccgtt gttttttttg
     2581 aatatgtaca gatcttgttt ttttgtcaac ggaatagctg ttcgttgact tgatagaccg
     2641 attgattcat catctcataa ataaagaaaa accaccgcta ccaacggtgg ttttctcaag
     2701 gttcgctgag ctaccaactc tttgaaccaa ggtaactggc ttggaggagc gcagtcacca
     2761 aaatctgttc tttcagttta gccttaacag gtgcataact tcaagacaaa ctcctctaaa
     2821 tcagttacca atggctgctg ccagtggcga taagtcgtgt cttaccgggt tggactcaag
     2881 acgatagtta ccggataagg cgcagcggtc gggctgaacg gggggttcgt gcacacagcc
     2941 cagcttggag cgaacgacct acaccgaact gagataccaa cagcgtgagc tatgagaaag
     3001 cgccacgctt cccgaaggga gaaaggcgga caggtatccg gtaagtggca gggtcggaac
     3061 aggagagcgc acgagggagc ttccgggggg aaacgcctgg tatctttata gtcctgtcgg
     3121 gtttcgccac ctctggcttg agcgtcgatt tttgtgatgc tcgtcagggg ggcggagcct
     3181 atggaaaaac gcctgcggtg ctggcttctt ccggtgcttt gctttttgct cacatgttct
     3241 ttccggcttt atcccctgat tctgtggata accgtattac cgcctttgag tgagctgaca
     3301 ccgctc
//
