LOCUS       NZ_CP151402             1902 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R15.0423 plasmid pR15.0423_1k, complete
            sequence.
ACCESSION   NZ_CP151402
VERSION     NZ_CP151402.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39735790
            Assembly: GCF_038367755.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 1902)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     WGS of Shigella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1902)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-APR-2024) Center for Diagnostics and Vaccine
            Development, Centers for Disease Control, Taiwan, No.20, Wenxin S.
            3rd Rd., Nantun Dist., Taichung City 408, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: flye v. v2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038367755.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:40:44
            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)                     :: 5,363
            CDSs (total)                      :: 5,233
            Genes (coding)                    :: 4,513
            CDSs (with protein)               :: 4,513
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 720
            CDSs (without protein)            :: 720
            Pseudo Genes (ambiguous residues) :: 0 of 720
            Pseudo Genes (frameshifted)       :: 202 of 720
            Pseudo Genes (incomplete)         :: 517 of 720
            Pseudo Genes (internal stop)      :: 124 of 720
            Pseudo Genes (multiple problems)  :: 116 of 720
            Pseudo Genes (short protein)      :: 3 of 720
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151402.1.
            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..1902
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R15.0423"
                     /db_xref="taxon:624"
                     /plasmid="pR15.0423_1k"
                     /collected_by="Taiwan CDC"
     gene            984..1523
                     /locus_tag="AADX55_RS26810"
                     /old_locus_tag="AADX55_26830"
     CDS             984..1523
                     /locus_tag="AADX55_RS26810"
                     /old_locus_tag="AADX55_26830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893324.1"
                     /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_000893325.1"
                     /translation="MLEQQFEDFEQQKRRDHQVQDQSKNAKQKRDRLNPPDWSQVTKAG
                     WNMLDAISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNNTKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFESSLKYSNHDSEQG"
                     /name="replication/maintenance protein RepL"
     gene            1530..1817
                     /locus_tag="AADX55_RS26815"
                     /old_locus_tag="AADX55_26835"
     CDS             1530..1817
                     /locus_tag="AADX55_RS26815"
                     /old_locus_tag="AADX55_26835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049092722.1"
                     /translation="MRIKYESRWRLEELKLEICSSIDELINKYGIEYATGINLYMNCED
                     KEFNLVDVINEDGNKIMFVVSNDEKIQKPKKIAKKKTPAPVIELDKYRKK"
                     /name="hypothetical protein"
     Typing          527..608
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.59"
                     /coverage="100.0"
                     /evalue="2.9e-32"
     Typing          complement(154..412)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.308"
                     /coverage="99.0"
                     /evalue="1.08e-121"
ORIGIN
        1 gcctcgaatc ccttgcgtgt ttttgttcca cgctctccag aacgaccgag ccgccacggt
       61 tccgatagcg ccttgagcgc aaccggaaac cgtctgggga gaaccccaga cccccatcgc
      121 tgtaataccg acggtctacg accacctacc agccgaatag ctgcctatgc cgtgcaaata
      181 ggctttgcag ggggctgacg ctgttcctgg cgacctgaaa gcccctggtt aggggtatcg
      241 gcgcgcctga cctcctgaga gcctctgtaa gcgtttttcg cgccttccat gccctgacgg
      301 gcatttaaaa cccgtttcgt gcgtctgaga gcttctgagc gcgtttgaag ggctatctga
      361 cgactcatcc ctgaaagaac aacaacggga tcaccgacaa catgcgagag gtgacaccgc
      421 tcgccgcaag tcgatgaccg agcgtagcga gcgaatcgac gaggaagcgg aagagaaccg
      481 gaagccacat tgagcactta cgcactgatg cggggtgtcg gggtgaagcc ctgaccaggt
      541 ggtgaatgtc tgagtgcgcg tgcgcggtcc gacattccca catcctgtcc cgatttctga
      601 ggctttttag cggtgaacgg acggcaaaac catgatggag ttgttgaacg ttgagagcat
      661 gaaatctggc aaaaatcacg gctggtaagg cttgcagagg agtaagccag tatacactcc
      721 gctatcgcta cgtgactggg tcagggctgc gccccgacac cccaaaagca gttaggtagt
      781 gttaaatcat gagcagtaaa aaaacgcttt gatagatctt tagagcaaaa attgacattt
      841 ctttaaaaat cattgactta agacaccttc atacgaaacg ttatttgcat gtgtatacgc
      901 aaacatgttt gcatgtgttg tttcgtactg tacgatataa atttcgtaag gtgcgaaata
      961 tcattgcagg taaggatgca agtatgttgg aacagcaatt tgaagacttt gaacagcaaa
     1021 aacggcgaga tcatcaggta caagatcaat ccaagaacgc taagcaaaaa cgagatcggt
     1081 tgaatcctcc agactggtcg caggttacta aggctggttg gaatatgttg gacgctatat
     1141 cagaaaaagt tcctagagca tttcggttat attctttttt tgcccagaat atagataaat
     1201 catgtggggc tgttgtatgt gatcaaaaat tcttagctga ttatttcggt gttagtttaa
     1261 gaacgatcca atattggatt ggagatttag aaagtattgg cgcaatagtt aaaataccag
     1321 taggcatata ttatgcctat gcattagatc cttatcaggt atggcgtgga tataacaata
     1381 ctaaaaaata tgcagcattt aacgcaaaaa cattaactca aaaagatggg gttatagatc
     1441 gtaaattgcg gcttatgctt tctaggcgtg aagagtttga aagttcctta aagtactcta
     1501 atcatgactc agagcagggg tgatgcacta tgagaattaa atatgaatca cgttggagat
     1561 tagaagaact aaaattagaa atatgcagtt caatagatga gttaattaat aaatatggta
     1621 ttgaatatgc aacaggaata aatctttata tgaattgtga agataaagaa tttaatcttg
     1681 ttgatgttat caatgaagat ggaaataaaa taatgtttgt cgttagcaac gatgaaaaaa
     1741 tacaaaagcc aaaaaaaata gcaaagaaaa aaactccagc acctgtaatt gagctagata
     1801 aatatcgaaa aaaatgacca ttgagccagc ggcaggcgga caatcagggg ctacgtgtta
     1861 acgttctgac cttgattgtc tatcctgcat tgctcttttg cc
//
