LOCUS       NZ_CP124489             4064 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0542 plasmid pAVS0542-B, complete
            sequence.
ACCESSION   NZ_CP124489
VERSION     NZ_CP124489.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360960
            Assembly: GCF_030036895.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4064)
  AUTHORS   Biggel,M.
  TITLE     Genomic characteristics of ESBL-producing Escherichia coli ST131
            isolated from the water ecosystem in a defined region in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4064)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) 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 Name                   :: GCF_030036895.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:22:32
            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)                     :: 4,935
            CDSs (total)                      :: 4,829
            Genes (coding)                    :: 4,625
            CDSs (with protein)               :: 4,625
            Genes (RNA)                       :: 106
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 79
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 204
            CDSs (without protein)            :: 204
            Pseudo Genes (ambiguous residues) :: 0 of 204
            Pseudo Genes (frameshifted)       :: 74 of 204
            Pseudo Genes (incomplete)         :: 151 of 204
            Pseudo Genes (internal stop)      :: 47 of 204
            Pseudo Genes (multiple problems)  :: 55 of 204
            Pseudo Genes (short protein)      :: 1 of 204
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124489.1.
            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..4064
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0542"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0542-B"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-06-23"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(2516..4064,1..599)
                     /gene="mobQ"
                     /locus_tag="QJP68_RS24635"
                     /old_locus_tag="QJP68_24635"
     CDS             join(2516..4064,1..599)
                     /gene="mobQ"
                     /locus_tag="QJP68_RS24635"
                     /old_locus_tag="QJP68_24635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_053920598.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELKTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(848..1549)
                     /locus_tag="QJP68_RS24640"
                     /old_locus_tag="QJP68_24640"
     CDS             complement(848..1549)
                     /locus_tag="QJP68_RS24640"
                     /old_locus_tag="QJP68_24640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2083..2337)
                     /gene="mobC"
                     /locus_tag="QJP68_RS24645"
                     /old_locus_tag="QJP68_24645"
     CDS             complement(2083..2337)
                     /gene="mobC"
                     /locus_tag="QJP68_RS24645"
                     /old_locus_tag="QJP68_24645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2339..2515)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2516..2874
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(849..1549)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..596
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.444"
                     /coverage="99.0"
                     /evalue="3.25e-120"
     Typing          2430..4063
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.357"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aactgctgac gcaggtttgc cagacatggc cgcaacatac ccgcaatctc cgccagccga
       61 agacatggcc ggagtctttc tgtcttggag aagaccgcca gccagccatg ccatcaccag
      121 cggcaaggaa ggtggatttt atgcagggac gtctgccacc gacgctgatg ccggtcatga
      181 gttctgtcga ccgggaaacc cgccagcttc agcttttgct ggtcatgggc gtggatgact
      241 ctctgggcgg tgttatccgg cttaatggta cgctgtatcc cgcgtttgcc gttccctcag
      301 ccgataacag gcatctggtc atcagtgcgc tgaccgataa ggggttacgg tatgcagggt
      361 atggtgttgc cgtaaatcac gatgcagaca gccacatatc acctgcacca gaactgatgc
      421 agtttcatct gaaaacccgt gaggcaccgc tttttgctgc cgtcaacaca ccagaaaaac
      481 agccggatca tctgttccgc tcgctgggtt ttaatcgtac ctgggaggaa tggcagcgcg
      541 aggaagatgc acgaacacac accaccgaga ggagacatga tcgcggttgg tcacagtgaa
      601 tgtgaacaat attttgtttt gtttaacatc gtgttatgtt cgtcgatgtt catcgacagg
      661 gatgaatgca agaagcacac tcacataacg caagcatagt tttgtttttc cgccccccaa
      721 aaattggggg gtcttttttc gctgcatcag agcgtttttg acgcaatttt tcacttcaat
      781 agtaccttcg cactactaac acaaaaaaaa cgcagcaggg agcgttttag gtgccttaaa
      841 atcgatttta gatcgtcatc ttgatctgtt tgtcttcctt gaagcgaaaa tgcagggcta
      901 caaccgtgcg cccctttttg atcgtctcaa cagttacaac cagatcgctt ttttcgttca
      961 gttcggcgat ggctggcttg attatcatct tattcaagtc tttgaattgt tgatatttat
     1021 cttcaacggc aagcatggtt cggaaatcat cgatagctat cgttctgtca ccggtgctgc
     1081 ggaactgctg gagcagctcg taaatgcgga tgctgtaggt gctggaaagg ctggagacgt
     1141 tcttcacgac tacccgcgta aactgcccct tgagctgtgt cagatacggc atgatggcat
     1201 cggagaaggt gatatctact ttcgcctcac ctttgaaata ctgcgcccgg tactgcaccc
     1261 agcggaactc ttctcgtttt tcctcgttct tgatgattac tgacctgtcc cagaggcgat
     1321 ctatcgcttc cttgagccta gcttcagcgt gctgccgtcc catgtcagga aaggcatcat
     1381 gaaactctgc agccgtgatg gtcatggttt tttgttcatc cggcgaaggg gaatcttctc
     1441 cggattttag gcggctgata cagaccagca ggaagcgctg ttcctgcaaa gtgagcttgt
     1501 agcttgcctc gataagggcg tttgatttgt aagctatcag atctgacatt tcgcttgctc
     1561 gttgctattg gtggcgtttt tttactgtac gccacttatc atatgggtgg aagttttttt
     1621 tttgcaaccc cctttttctg tggattacac ccccaaaagc tccacctttc acccccaaaa
     1681 gctccacctt tcacccccaa aagctccacc tttcaccccc aaaagctcca cttatcttgc
     1741 cagaacatct ttaaaatcat ggtgttacaa gacctaaaaa ggttttaaaa aaaaagatct
     1801 aaaaataaga tcttaaaaac ttaacggcga gcctgtggat aacttggggt gctgaaaaca
     1861 aaaaaccaat aaaaacaatg cgttgcaata aagcagaatt gcaagtttcg aatacacccc
     1921 ctccaaccct gtggaaaccc agtattcatg cgggttcagc gcatatcacc tgccgaaaaa
     1981 ccgtgcgtat gtgctcaacc tggcgactga ttcacttccg cttcctcgcc cactcgctcg
     2041 ctaacgctcg gtcgctgggg ctgcggcgag cggacgatac aatcactgtt ctggcagcgc
     2101 ctccagctcg ttaatcagcg gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc
     2161 cttcaggaac tggagtaacc aggcacgcaa ctgcacctcc tccggctttc tgacctttgc
     2221 cagcaatgca gcacccacaa caaccttctg cgctgtgtcc aggctccggc tcttcgcctt
     2281 caggcgctgt aatctcgcct cagcatcagc aatcttctgt tcgagcgttc tgctcatgat
     2341 gtaactccgt gcgcgatgaa aaatcgcatt ttagcgcgtc actggtagtt taaaaactga
     2401 gctggcataa tgcacggcaa atcacgaagt gcgcacttat acaatctcca ctccgtttcg
     2461 attgtgtgcg ccctgcgggg ctgaaagaaa actacaaaaa ggcattacgg cagaaatggc
     2521 gatttatcat ctcagcatga aaattatctc cagaagcagc ggctacagcg ccgtagcttc
     2581 cgctgcctat cgttccggtt cactgatgct tgatgagcgt accggactga ctcacgacta
     2641 cacccgcaaa agcggtgtgg ctgaggctgt gattctgacc cccgccaccg cccctgcctg
     2701 gtgtacgaac cgtgccgaac tctggaatgc cgttgagaag gccgaacgcc ggaagaactc
     2761 acaacttgcg cgggaaattg aactcgccat cccccacgaa ctgccgcagg atgccgcacg
     2821 ggaaaccgtt ctcgcctttg tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt
     2881 ggcgttccat cacatggata aaacaaatcc ccatgcgcac atcatgctga ccacgagggc
     2941 tatcggacct gctgggttca gcggaaaggt cagggactgg aacgaccgga cacatgccga
     3001 gacgtggcgg gcatcatggg ctgaccatgc aaacagggca ctggcgaacg ccggttatca
     3061 ggaagagata gaccatcgtt catacgagcg acaggggctt gagaaaacgc ctggtattca
     3121 cctcggaaag tctgcctgtg cgatggaaac acgcggtatc gaaacagaac gcggcgaaca
     3181 gaatcgtctg attaacaggc ttaacctgga aatacagatt tcccgcaccg aactcaggaa
     3241 cggagggctg acagagcctg cccgccgtgt ggctgacctt ctgaatatcg ggcttcctga
     3301 caacgcaact tcgtacacac tacgtgacat tatcgaagcg ttgccgaagg acagtaactc
     3361 ggcatggaaa ctcaccagta atgccatgtc gatgatggca gatatgcagg cgacgcgcag
     3421 acgctgggaa gagctgaaga ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa
     3481 aaaatcatcg ccgttttcgt ccggtttttc ccgtattccc ctgatgcaat gggcggcacc
     3541 ggaataccgt agtgagcagg gaaaaatcca gtctctgagc cagcaaatgg aaaaattacg
     3601 acagcattac cggaaggtgg agaaacagga cattcccgcg agtcagatgg catttgaaaa
     3661 acagtggcag cagtgggggg aatccggcct tgcagctctc agagcccagt tgcttaaacg
     3721 tgaagaggaa ttgcgccgga aggaacagga agatactgaa cgtagtcgcg cggagcagct
     3781 caggaaaaat gacaatgccg ttatggattc aggggtgctg agagcagtcg ttacggggta
     3841 tggcgaggct cccatgcctg gtaacgggga aatgacctgt taccttctgc ttcacaaccg
     3901 gaacggagaa tatacgctct gggggaacga gctggagaaa taccgcacca gaatctttga
     3961 gagtgttgat ttaatgcgtg acaggagtgg ttatatctgt gaccgaagcg aaatcggcca
     4021 acgtccgcca ctgcaacgtg tttattcctc tgcaaccttt gagc
//
