LOCUS       NZ_CP100540             3083 bp    DNA     circular CON 22-JUL-2023
DEFINITION  Escherichia coli strain LH10-b-1 plasmid pLH10-b-1-j, complete
            sequence.
ACCESSION   NZ_CP100540
VERSION     NZ_CP100540.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29499312
            Assembly: GCF_024225755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3083)
  AUTHORS   Biggel,M.
  TITLE     ESBL-producing Enterobacteriaceae from poultry
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3083)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JUL-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/22/2023 02:38:36
            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)                     :: 5,291
            CDSs (total)                      :: 5,175
            Genes (coding)                    :: 4,870
            CDSs (with protein)               :: 4,870
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 305
            CDSs (without protein)            :: 305
            Pseudo Genes (ambiguous residues) :: 0 of 305
            Pseudo Genes (frameshifted)       :: 99 of 305
            Pseudo Genes (incomplete)         :: 210 of 305
            Pseudo Genes (internal stop)      :: 61 of 305
            Pseudo Genes (multiple problems)  :: 59 of 305
            Pseudo Genes (short protein)      :: 4 of 305
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100540.1.
            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..3083
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LH10-b-1"
                     /isolation_source="pooled poultry feces"
                     /host="Gallus gallus domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pLH10-b-1-j"
                     /geo_loc_name="Switzerland"
                     /collection_date="2022"
                     /collected_by="Institute for Food Safety and Hygiene,
                     University of Zurich"
     gene            58..588
                     /locus_tag="NLZ08_RS26350"
                     /old_locus_tag="NLZ08_26355"
     CDS             58..588
                     /locus_tag="NLZ08_RS26350"
                     /old_locus_tag="NLZ08_26355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007848.1"
                     /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_032188789.1"
                     /translation="MINGRYKTNPFLEGMIVPVKGKQVRLSRLGRDENILVNQNTGEVQ
                     GTHVTTYKRVDGEQFVKLFTANIALTFDLSAQGIKAFNVLMWAIQKQSVSKDEVYLDTH
                     TREEFLAIYNDKDKPIKLSQPTFARGLAELTKAQIIAKTIRQGVYWINPNFAFNGDRIA
                     FTTLIERQGNSEK"
                     /name="replication/maintenance protein RepL"
     gene            578..1390
                     /locus_tag="NLZ08_RS26355"
                     /old_locus_tag="NLZ08_26360"
     CDS             578..1390
                     /locus_tag="NLZ08_RS26355"
                     /old_locus_tag="NLZ08_26360"
                     /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_139244382.1"
                     /translation="MKNNRVKTMRKKNMFPPGSLSIKLNKPLTKYEIIEILSEYLSMLE
                     ITFGIKEFRLFSYLECVLNGEKQAIYHKDNNTIVSGFLLDSMRSTNNRKINKILLGGDD
                     FDAMKKIDDMLNMKAESNPYEYFKSFLSLVPANIAYDLIRKTEELIELERVERIKEKIE
                     LREKKLEKDKNILKVIYNNKIAEYSCTFDYFRSVYLSSSGFLSLEKQKAKYFLAEGLGS
                     LLKDYVGKRLVRLSIKGDDGKVSIVEIYDENGRFLFKTKPLNKSQSNL"
                     /name="hypothetical protein"
     gene            complement(1437..1865)
                     /gene="mobA"
                     /locus_tag="NLZ08_RS26360"
                     /old_locus_tag="NLZ08_26365"
     CDS             complement(1437..1865)
                     /gene="mobA"
                     /locus_tag="NLZ08_RS26360"
                     /old_locus_tag="NLZ08_26365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /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_032188787.1"
                     /translation="MAKNKRSGSEVRQRTKVITIRVNNRIANEIRRRAKSEGLTISEYI
                     RTVSLNNEIKQRVPSRYLDELIQLGRMQKKLFDKGMSPNDKEYLEVMHKIISLCTEMKE
                     ITQKISNIYKEMDLIIEEIKIIKREHKNKYPGSNLFDR"
                     /name="mobA"
     Typing          complement(2622..2869)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.0"
                     /coverage="95.0"
                     /evalue="3.08e-102"
ORIGIN
        1 attttgatag accgcgaatc taaagttgaa tcttgtctat caaaaaaagg tttaattatg
       61 ataaacggtc gatacaaaac taaccctttt ttggaaggta tgatagtgcc cgtcaagggt
      121 aaacaagtca gactttcccg tctaggtcgt gatgaaaaca tactggttaa tcagaacacg
      181 ggagaggttc aaggcaccca tgtaacaaca tataaacggg ttgatggtga gcagtttgta
      241 aaactattca ctgcaaatat cgcgttaacc tttgatttgt cagctcaagg aataaaagca
      301 tttaacgttt tgatgtgggc aatacaaaag cagtcagtat caaaagacga agtttattta
      361 gatactcaca caagagagga gtttcttgct atttataatg ataaagataa accaattaaa
      421 ttaagtcagc caacatttgc tagaggatta gctgaactta caaaagctca aattatagct
      481 aaaaccatac gtcaaggagt gtattggata aatccaaatt ttgcattcaa cggtgataga
      541 atcgcgttta caactcttat tgaaaggcaa ggtaatagtg aaaaataaca gggtaaaaac
      601 aatgagaaaa aagaatatgt ttccgccagg atctttgagt ataaaattaa ataaaccttt
      661 aactaaatat gaaataattg agatattgtc agaatacctc tcgatgttag aaataacttt
      721 tgggataaaa gaattccggc ttttctctta tttggaatgc gtgcttaatg gagaaaagca
      781 ggctatatac cataaagata ataacacaat cgtgtctgga tttttacttg attcaatgag
      841 gagtacaaac aacagaaaaa tcaataagat actgttaggc ggtgatgatt ttgatgccat
      901 gaaaaaaatc gatgacatgt taaatatgaa agcagaatcc aatccgtatg aatattttaa
      961 gagtttttta tcactagttc ctgctaatat tgcatatgat ctcatcagga aaactgaaga
     1021 gttaatcgaa cttgagagag tggaaaggat aaaagaaaaa atcgaattgc gtgaaaaaaa
     1081 gctagaaaaa gataaaaaca tattaaaggt tatttataac aataagattg ctgagtattc
     1141 atgtactttt gattatttta gatctgtata tttgtctagc tctggttttt tatctttaga
     1201 aaaacaaaag gctaaatatt ttcttgcgga agggttgggt tcactattga aggattatgt
     1261 tggtaaaagg ttggtaagat tatcaattaa aggcgatgat ggtaaagtct ccatagtcga
     1321 aatatatgat gaaaatggta gatttttatt taagacaaaa cctctaaata aatcacagag
     1381 taatctttaa tatgcttcag ccgatatacc aaataagaca ggatatcggc taatatttat
     1441 ctgtcgaata agttagagcc tgggtattta tttttgtgct ctctttttat tatttttatt
     1501 tcctctatta ttaaatccat ctctttataa atatttgaaa ttttctgtgt tatctctttc
     1561 atttcagtac agagtgaaat tattttatgc atcacctcta ggtactcttt atcattcgga
     1621 ctcatccctt tatcaaataa ttttttctgc atccgaccaa gttgtattaa ttcatctaga
     1681 tatctagaag gcacgcgctg ttttatttca ttatttaaac ttactgtcct tatatactct
     1741 gagattgtca gcccttcgct cttcgctctc cgtctgattt cgtttgcaat tctgttattt
     1801 actctaatgg tgataacctt agtcctctgc cgtacttctg aaccactacg cttattttta
     1861 gccatcgcaa tgactctcca ttttgcacgt tctgggtgtc ggggcctgcc ctgacaggag
     1921 gtattctcat gcaagcgaat gtattcgcgg tatgacgaat acacatcctg tcccgttttt
     1981 cgctacaact tttcgacaaa aataaaatac cgcgtcgtaa cctggtattt ctgatacaaa
     2041 aaaacgatgc ttcattcaat attatttaca cagattttaa aagttatttc ttgttattta
     2101 ataaataacg caaaattaat tgatgctttt gttctttgtt gtttgttgat tattgagtaa
     2161 ataaagattg tgttttcctg attatataat ccattgcctg ttagtgatac ggagtgcatc
     2221 agagaacagg aagcaggaga tcaagatagt agcatgtgca taaaatacaa acccgtgagt
     2281 tattgatatc gcgtttatat attaaaaata taacttaaca ttgctcttaa tatttatttt
     2341 gccctcgcaa tgggtgcatt aatccccgtg cagcgctccg ccagctgctg acggcctcga
     2401 catgcaaccg tcaatgcgat aaaagatcgg ggtgcgtttc cggcaacaac taaccatagg
     2461 gatggtttgc gtgccgacaa acgccggaaa cgcgcctcaa atccaccaag ccgccacggt
     2521 tccggcagcg ccttgagcgc aaccggaaac cgactgggga gaaccccaga cccccaccgc
     2581 tgcaacatca tcggtctgcg accgcctacc aaccgagcga ctgcctgtac cgtgcaaacg
     2641 ggctttgcag gggctggcgc ggttcctggc gacctgaaag cccctggtta ggggtatcgg
     2701 cgcgcctggc ctcctgaaac cctctgtaag cgtttttcgc gccttccatg ccctgggggg
     2761 catttaaaac ccgtttcgtg cgtctgagag cttctgagcg cgtttgaagg gctatctggc
     2821 gactcatccc tgaaagaaaa acaacgggat caccgacaac atgcgagaga tgacaccgct
     2881 cgccgcagcc ctagcgaccg aacgtagtga gcgagtgggc gaggaagcgg aagagaactg
     2941 gaaggtacat ttggctctta cgcacttccg taaagaacta agaagagggt atcgcggaag
     3001 ccgcgaaaaa tggggatcca attttcagat catgtgagac ggtctatcag acgtcatcag
     3061 accgtctatc aaaaaacacg ttg
//
