LOCUS       NZ_AP027692             1934 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain PSS-10 plasmid pPSS-10_7, complete sequence.
ACCESSION   NZ_AP027692
VERSION     NZ_AP027692.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562535
            Assembly: GCF_036501505.1
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  JOURNAL   Unpublished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 1934)
  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                   :: 159x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036501505.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:10:24
            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)                     :: 5,072
            CDSs (total)                      :: 4,948
            Genes (coding)                    :: 4,638
            CDSs (with protein)               :: 4,638
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 310
            CDSs (without protein)            :: 310
            Pseudo Genes (ambiguous residues) :: 0 of 310
            Pseudo Genes (frameshifted)       :: 83 of 310
            Pseudo Genes (incomplete)         :: 226 of 310
            Pseudo Genes (internal stop)      :: 46 of 310
            Pseudo Genes (multiple problems)  :: 42 of 310
            Pseudo Genes (short protein)      :: 3 of 310
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027692.1.
            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..1934
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PSS-10"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pPSS-10_7"
                     /geo_loc_name="Ecuador:Puyo"
                     /collection_date="2019"
     gene            join(1663..1934,1..715)
                     /locus_tag="AABK11_RS25350"
                     /old_locus_tag="VEE24_48660"
     CDS             join(1663..1934,1..715)
                     /locus_tag="AABK11_RS25350"
                     /old_locus_tag="VEE24_48660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_016245711.1"
                     /translation="MQNPKLQNLTDYSPSDAPWDAHKSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGETLNRMNMAFQRLKDRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMFTRDYVKHDRWVELWRECLRVNYDPNVDVRAVKPRKPKDGE
                     SLASATAELVRGAVAETLKYSTKPADMVADPEWFLELTKQTHKRRFVATGGALKDILKL
                     DQETDADMVIGDDIPEGDDDGSRIAFEWKTESKKYRRSPSKDKAESD"
                     /name="protein rep"
     gene            1374..1676
                     /locus_tag="AABK11_RS25355"
     CDS             1374..1676
                     /locus_tag="AABK11_RS25355"
                     /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_023150476.1"
                     /translation="MAGSIRARSLYLYLRDNSGDKKWHQALRTKASGLICVVEGFGSIL
                     LGVVALKATPATTAIVRGCDHLQKFDSKRQPTGDTAMITRQMSHRPAWDGVHAKP"
                     /name="hypothetical protein"
     Typing          complement(442..630)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.947"
                     /coverage="98.0"
                     /evalue="1.39e-59"
ORIGIN
        1 gtggcaagcc cgtttttatc agtccctgcc gcgtattgtt gcggattatc cagatgcacg
       61 ctggatgttc ctgaccctca cagtgcgaaa ctgcgcgatc ggggaattgg gtgagacact
      121 taaccgaatg aacatggcct tccagcgact taaggatcgc aaagagtttc gacctgttca
      181 gggctggatc cgcaccacgg aagttacacg tggaagtgac ggtagtgcgc acccgcactt
      241 tcacactctg atgatggttc ctccctcaat gttcacgcga gattacgtta aacatgaccg
      301 ctgggtagag ctttggcgag agtgtttgcg tgtgaattac gatccgaatg ttgatgttcg
      361 agcagtaaaa ccccgcaagc ctaaggacgg agaatcattg gcttctgcaa ctgcggaact
      421 tgtacggggc gcagtggctg aaaccctgaa atattccacg aagccggctg acatggttgc
      481 tgatcctgaa tggttcctcg aattgactaa gcagacacat aagcgccgat ttgtggctac
      541 cggtggcgca ctcaaagaca tactgaaact cgatcaggaa actgatgccg atatggtaat
      601 cggggatgat attcccgaag gcgatgatga tggttcacgc attgcttttg agtggaaaac
      661 cgaatccaaa aagtaccgtc gctcaccgtc aaaagataaa gctgaatcag actgacaggg
      721 tgtcggggcg cagccctgac cacgacgttt ttgagaggac gccgcttgtc ggcggtactc
      781 caaaaacaca tcttgtccta ttggttctac tccgatgcag gatagggcta acgccgcaaa
      841 gtgacgtcac tcaattactg agttcggttt ccgaactcag ttgggacaag atgtgttttt
      901 ggtacaccgc catcacgatg tcggtgccaa aaacgattcg tcagggctgc gccccgacac
      961 cctgccaaca cctcacgcag tcagattaaa atctgccagc gctcgctgtt tccgaaatcg
     1021 tcaaactcta aatcgtgggg tcccgctggc ttgccagtgg gttccgattt agtgattgac
     1081 gacattgctg attgaaaaat tggctgaggt ggttggattc acgaagtgag gccaaccacc
     1141 tggaagacgg tttttaattg tctggtaccg gatacaacca gaacgaatgg agttggttct
     1201 gtcgtgatgc gaaaaagtat gggttcgcaa atcacagact aaatagattt acccaattcc
     1261 attcgagtga ggttgttatg ttttttgagg ttcttaatca tgttgatagt gcgttgagcg
     1321 ttgctgtttc gctcctggcg ttgtggcagt ttttggtggc gggtgggcgt tgaatggctg
     1381 gttcgatccg cgcgcgatcc ttgtatttat acttaaggga taactctggc gataaaaaat
     1441 ggcatcaagc cttgcgtacc aaggcttcgg ggcttatttg cgttgtagaa ggttttggaa
     1501 gtattctgtt gggagtggtc gccttaaaag cgacccccgc aacgacggcc atcgttcggg
     1561 ggtgtgacca cctgcagaaa ttcgattcga agcgacaacc aacaggtgat acggcaatga
     1621 taacacgtca aatgagccat cgcccagcat gggacggtgt gcatgcaaaa ccctaaactc
     1681 cagaacctca cggattactc cccctcagac gcgccctggg acgctcacaa aagcgtttct
     1741 gacgacgtag gtgggattta ccttctcgca gccgaatatg agcgctacgg ggcgcgtatg
     1801 gcttcctgtg gcggtttact gaggtttggt tggtctaccc tcaaagaaac tggagaaact
     1861 cgccttaggc tacgtgaggc gcatttctgt cgtgtccggc actgtcctgt ctgccagtgg
     1921 aggcgatccc tgat
//
