LOCUS       NZ_AP027647             2699 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain PSJ-32-1 plasmid pPSJ-32-1_5, complete
            sequence.
ACCESSION   NZ_AP027647
VERSION     NZ_AP027647.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562569
            Assembly: GCF_036500085.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hoang,H.T.T., Yamamoto,M., Calvopina,M., Bastidas-Caldes,C.,
            Khong,D.T., Nguyen,T.N. and Yamamoto,Y.
  TITLE     Comparative genome analysis of colistin-resistant Escherichia coli
            strains possessing mcr isolated in Ecuador and Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2699)
  AUTHORS   Yamamoto,Y. and Hoang,H.T.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-MAR-2023) Contact:Yoshimasa Yamamoto The United
            Graduate School of Drug Discovery and Medical Information Sciences,
            Gifu University; Yanagido 1-1, Gifu 501-1194, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Coverage                   :: 245x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036500085.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:19:24
            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)                     :: 4,682
            CDSs (total)                      :: 4,561
            Genes (coding)                    :: 4,302
            CDSs (with protein)               :: 4,302
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 259
            CDSs (without protein)            :: 259
            Pseudo Genes (ambiguous residues) :: 0 of 259
            Pseudo Genes (frameshifted)       :: 57 of 259
            Pseudo Genes (incomplete)         :: 188 of 259
            Pseudo Genes (internal stop)      :: 53 of 259
            Pseudo Genes (multiple problems)  :: 38 of 259
            Pseudo Genes (short protein)      :: 3 of 259
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027647.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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..2699
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PSJ-32-1"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pPSJ-32-1_5"
                     /geo_loc_name="Ecuador:Puyo"
                     /collection_date="2019"
     gene            <821..976
                     /locus_tag="AABJ87_RS23400"
                     /old_locus_tag="VEE41_44850"
                     /pseudo=""
     CDS             <821..976
                     /locus_tag="AABJ87_RS23400"
                     /old_locus_tag="VEE41_44850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_707212.3"
                     /GO_function="GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            1070..1714
                     /locus_tag="AABJ87_RS23405"
                     /old_locus_tag="VEE41_44860"
     CDS             1070..1714
                     /locus_tag="AABJ87_RS23405"
                     /old_locus_tag="VEE41_44860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrB19"
                     /protein_id="WP_012954666.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     gene            complement(2216..2452)
                     /locus_tag="AABJ87_RS23410"
                     /old_locus_tag="VEE41_44870"
     CDS             complement(2216..2452)
                     /locus_tag="AABJ87_RS23410"
                     /old_locus_tag="VEE41_44870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012772745.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     ARG             1071..1711
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(2..92)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.53e-40"
     Typing          complement(2618..2699)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.55e-35"
     Typing          71..562
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 cagtgaagtg cttcatgtag caggagaaaa aaggcggcac cagcgcgtca gcaggatatg
       61 tagtacagga tatattccgc ttcctcgctc actgactcgc tgcgctcggt cgttcggctg
      121 cggcgagcgg tgccggctta caggcggggc ggaaatttcc tgggagatac caggaaggag
      181 cttaacaggg aagagataag gccgcggcga agccgttttt ccataggctc cgcccccctg
      241 acaaacatca tgaaatctga cgctcaaatc agtggtggcg aaacccgatg cggcttaaag
      301 ataccaggcg tttccccctg gtggctccct cgtgctcccc cgcattcctg cctttcggtt
      361 taccggtgtc attccgctgt tatggccgcg tttatctcat tccacgcctg acactcagtt
      421 ccgcgaaggc agttcgctcc tggatggact gtatgcacga accccccgtt cagtccgact
      481 gctgcgcctt atccggtaac tatcatcttg agtccaaccc ggaaagacac gacttatcgc
      541 cactggcagc agccactggt aactgattta gaggagttag tcttgaagtt atgcgcctgt
      601 taaggctaaa ctgaaagaac agatttggtt actgcgctcc tcgtaagcca gttaccacgg
      661 ttcaaagagt tgctgctctg agaaccttcg aaaaaccgcc ttgcagggcg gttttttcgt
      721 ttacagagca agagattacg acgccacaga aaggatctca agaagatcct tcaccgtaat
      781 ggaaatctat ccaatccgag cacataggat acacatcgtt ataacgctgg atctgcgtga
      841 attccagcag cagcaagaga aagactttct acaaaccagc ttacagcagg ctaaatttaa
      901 ccagaaaaaa gccgctgaat tactgggtct gacttatcat cagctacgtg ccttgctgaa
      961 gaaacaccag atctaatacg catttgcagg tgtcatactg gcgggtttga cgcataacgt
     1021 cataaggttt accatggcgt cattactgta taaaaacaca ggcatagata tgactctggc
     1081 attagttggc gaaaaaattg acagaaatcg cttcaccggt gagaaagttg aaaatagtac
     1141 attttttaac tgcgattttt caggtgccga cctgagcggc actgaattta tcggctgcca
     1201 gttctatgat cgcgaaagtc agaaagggtg caattttagt cgcgcaatgc tgaaagatgc
     1261 cattttcaaa agctgtgatt tatcaatggc agatttccgc aacgtcagtg ccttgggcat
     1321 tgaaattcgc cactgccgcg cacaaggcgc agatttccgc ggtgcaagct ttatgaatat
     1381 gatcaccacg cgcacctggt tttgcagcgc atatatcact aatactaatc taagctacgc
     1441 caatttttcg aaagtcgtgt tggaaaagtg tgagctgtgg gaaaaccgct ggatggggac
     1501 tcaggtactg ggtgcgacgt tcagtggttc agatctctcc ggcggcgagt tttcgacttt
     1561 cgactggcga gcagcaaact tcacacattg cgatctgacc aattcggagt taggtgactt
     1621 agatattcgg ggtgttgatt tacaaggcgt taagttagac agctaccagg catcgttgct
     1681 catggagcgg cttggcatcg ctgtgattgg ttagttcagc gtttacaccg ggagatgcgt
     1741 ttgacgattt acttttaacc agtacgactc ctggcaagca ttgtgaaacg ttttctccag
     1801 tggacgaata tcctgaccta ccgcatcaac gacatgccat ctaatgctgc attctggaca
     1861 ggaatttgat gaatatctaa ccaattcatt ttcgcgagaa caacgaataa ccactcccga
     1921 atcatgaagc catgtcttaa cgaaaatatg gctaactcat agcaaaaaaa aagcccccta
     1981 agggcttttt tttgtacctg acggtcagac cgattaaaca taacatccct tgcccgcacc
     2041 cccgcaggcg ccctcagcgc aatcctgctg catcagggcc gtttccagca cctttcctca
     2101 ccagtatccc ggaaaaacgc ccctgatgat ttctgcgcga ctgcatggct atgcacgcag
     2161 gtgaatggca ggtgatttcg cagcgtcagc accactaaac cgccaaaagc caaaatcagc
     2221 ggcgcggcgc gcgcggacgt gaccaggcaa aatcggactg ctgccgctca tcctcacgta
     2281 atgcacgctg gcggtcggcg taacgctgca actcaatttg cgcacgcgct ctgttcagga
     2341 cgatgtgccg gttaggctga tttagctttt tacctgacgc tctttcagct gcggcaacag
     2401 catcatcaag aaattttttc tctgcaggcg tcaagtttgt cagtctggcc ataacgttct
     2461 ccagtcagaa taaatcagca cagtctgcca gacacagtag aaacgatgaa gcgccagcga
     2521 cggtgaaagg cagtcagaaa cggtgaacgg gagcggattt taatccggtg ccgtgaggcg
     2581 ttggacaagc cgcaggcgcg tcattagctt ttagccggtt tcggggcgca gccctgaacc
     2641 agtcacgtag cgctagcgga gtgtatactg gctgactatg ttggcacgga tgtggaaat
//
