LOCUS       NZ_AP027703             2699 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain PSS-12 plasmid pPSS-12_6, complete sequence.
ACCESSION   NZ_AP027703
VERSION     NZ_AP027703.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562525
            Assembly: GCF_036501905.1
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  JOURNAL   Unpublished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                   :: 241x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036501905.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:11:36
            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)                     :: 4,771
            CDSs (total)                      :: 4,656
            Genes (coding)                    :: 4,432
            CDSs (with protein)               :: 4,432
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 224
            CDSs (without protein)            :: 224
            Pseudo Genes (ambiguous residues) :: 0 of 224
            Pseudo Genes (frameshifted)       :: 64 of 224
            Pseudo Genes (incomplete)         :: 147 of 224
            Pseudo Genes (internal stop)      :: 46 of 224
            Pseudo Genes (multiple problems)  :: 34 of 224
            Pseudo Genes (short protein)      :: 4 of 224
            CRISPR Arrays                     :: 4
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027703.1.
            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="PSS-12"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pPSS-12_6"
                     /geo_loc_name="Ecuador:Puyo"
                     /collection_date="2019"
     gene            1014..1250
                     /locus_tag="AABK13_RS23845"
                     /old_locus_tag="VEE19_46280"
     CDS             1014..1250
                     /locus_tag="AABK13_RS23845"
                     /old_locus_tag="VEE19_46280"
                     /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"
     gene            complement(1752..2396)
                     /locus_tag="AABK13_RS23850"
                     /old_locus_tag="VEE19_46290"
     CDS             complement(1752..2396)
                     /locus_tag="AABK13_RS23850"
                     /old_locus_tag="VEE19_46290"
                     /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(2490..>2645)
                     /locus_tag="AABK13_RS23855"
                     /pseudo=""
     CDS             complement(2490..>2645)
                     /locus_tag="AABK13_RS23855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309907.2"
                     /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"
     ARG             complement(1756..2396)
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          676..849
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(206..697)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 tcttcttgag atcctttctg tggcgtcgta atctcttgct ctgtaaacga aaaaaccgcc
       61 ctgcaaggcg gtttttcgaa ggttctcaga gcagcaactc tttgaaccgt ggtaactggc
      121 ttacgaggag cgcagtaacc aaatctgttc tttcagttta gccttaacag gcgcataact
      181 tcaagactaa ctcctctaaa tcagttacca gtggctgctg ccagtggcga taagtcgtgt
      241 ctttccgggt tggactcaag atgatagtta ccggataagg cgcagcagtc ggactgaacg
      301 gggggttcgt gcatacagtc catccaggag cgaactgcct tcgcggaact gagtgtcagg
      361 cgtggaatga gataaacgcg gccataacag cggaatgaca ccggtaaacc gaaaggcagg
      421 aatgcggggg agcacgaggg agccaccagg gggaaacgcc tggtatcttt aagccgcatc
      481 gggtttcgcc accactgatt tgagcgtcag atttcatgat gtttgtcagg ggggcggagc
      541 ctatggaaaa acggcttcgc cgcggcctta tctcttccct gttaagctcc ttcctggtat
      601 ctcccaggaa atttccgccc cgcctgtaag ccggcaccgc tcgccgcagc cgaacgaccg
      661 agcgcagcga gtcagtgagc gaggaagcgg aatatatcct gtactacata tcctgctgac
      721 gcgctggtgc cgcctttttt ctcctgctac atgaagcact tcactgattt ccacatccgt
      781 gccaacatag tcagccagta tacactccgc tagcgctacg tgactggttc agggctgcgc
      841 cccgaaaccg gctaaaagct aatgacgcgc ctgcggcttg tccaacgcct cacggcaccg
      901 gattaaaatc cgctcccgtt caccgtttct gactgccttt caccgtcgct ggcgcttcat
      961 cgtttctact gtgtctggca gactgtgctg atttattctg actggagaac gttatggcca
     1021 gactgacaaa cttgacgcct gcagagaaaa aatttcttga tgatgctgtt gccgcagctg
     1081 aaagagcgtc aggtaaaaag ctaaatcagc ctaaccggca catcgtcctg aacagagcgc
     1141 gtgcgcaaat tgagttgcag cgttacgccg accgccagcg tgcattacgt gaggatgagc
     1201 ggcagcagtc cgattttgcc tggtcacgtc cgcgcgcgcc gcgccgctga ttttggcttt
     1261 tggcggttta gtggtgctga cgctgcgaaa tcacctgcca ttcacctgcg tgcatagcca
     1321 tgcagtcgcg cagaaatcat caggggcgtt tttccgggat actggtgagg aaaggtgctg
     1381 gaaacggccc tgatgcagca ggattgcgct gagggcgcct gcgggggtgc gggcaaggga
     1441 tgttatgttt aatcggtctg accgtcaggt acaaaaaaaa gcccttaggg ggcttttttt
     1501 ttgctatgag ttagccatat tttcgttaag acatggcttc atgattcggg agtggttatt
     1561 cgttgttctc gcgaaaatga attggttaga tattcatcaa attcctgtcc agaatgcagc
     1621 attagatggc atgtcgttga tgcggtaggt caggatattc gtccactgga gaaaacgttt
     1681 cacaatgctt gccaggagtc gtactggtta aaagtaaatc gtcaaacgca tctcccggtg
     1741 taaacgctga actaaccaat cacagcgatg ccaagccgct ccatgagcaa cgatgcctgg
     1801 tagctgtcta acttaacgcc ttgtaaatca acaccccgaa tatctaagtc acctaactcc
     1861 gaattggtca gatcgcaatg tgtgaagttt gctgctcgcc agtcgaaagt cgaaaactcg
     1921 ccgccggaga gatctgaacc actgaacgtc gcacccagta cctgagtccc catccagcgg
     1981 ttttcccaca gctcacactt ttccaacacg actttcgaaa aattggcgta gcttagatta
     2041 gtattagtga tatatgcgct gcaaaaccag gtgcgcgtgg tgatcatatt cataaagctt
     2101 gcaccgcgga aatctgcgcc ttgtgcgcgg cagtggcgaa tttcaatgcc caaggcactg
     2161 acgttgcgga aatctgccat tgataaatca cagcttttga aaatggcatc tttcagcatt
     2221 gcgcgactaa aattgcaccc tttctgactt tcgcgatcat agaactggca gccgataaat
     2281 tcagtgccgc tcaggtcggc acctgaaaaa tcgcagttaa aaaatgtact attttcaact
     2341 ttctcaccgg tgaagcgatt tctgtcaatt ttttcgccaa ctaatgccag agtcatatct
     2401 atgcctgtgt ttttatacag taatgacgcc atggtaaacc ttatgacgtt atgcgtcaaa
     2461 cccgccagta tgacacctgc aaatgcgtat tagatctggt gtttcttcag caaggcacgt
     2521 agctgatgat aagtcagacc cagtaattca gcggcttttt tctggttaaa tttagcctgc
     2581 tgtaagctgg tttgtagaaa gtctttctct tgctgctgct ggaattcacg cagatccagc
     2641 gttataacga tgtgtatcct atgtgctcgg attggataga tttccattac ggtgaagga
//
