LOCUS       NZ_CP151322             2089 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R21.0552 plasmid pR21.0552_2k, complete
            sequence.
ACCESSION   NZ_CP151322
VERSION     NZ_CP151322.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39735802
            Assembly: GCF_038364745.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 2089)
  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  JOURNAL   Unpublished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 2089)
  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_038364745.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:43:35
            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)                     :: 5,428
            CDSs (total)                      :: 5,299
            Genes (coding)                    :: 4,560
            CDSs (with protein)               :: 4,560
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 739
            CDSs (without protein)            :: 739
            Pseudo Genes (ambiguous residues) :: 0 of 739
            Pseudo Genes (frameshifted)       :: 212 of 739
            Pseudo Genes (incomplete)         :: 527 of 739
            Pseudo Genes (internal stop)      :: 127 of 739
            Pseudo Genes (multiple problems)  :: 121 of 739
            Pseudo Genes (short protein)      :: 3 of 739
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151322.1.
            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..2089
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R21.0552"
                     /db_xref="taxon:624"
                     /plasmid="pR21.0552_2k"
                     /collected_by="Taiwan CDC"
     gene            1..966
                     /locus_tag="AADX62_RS27135"
                     /old_locus_tag="AADX62_27120"
     CDS             1..966
                     /locus_tag="AADX62_RS27135"
                     /old_locus_tag="AADX62_27120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_012421200.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQIAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            970..1236
                     /locus_tag="AADX62_RS27140"
                     /old_locus_tag="AADX62_27125"
     CDS             970..1236
                     /locus_tag="AADX62_RS27140"
                     /old_locus_tag="AADX62_27125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          395..626
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 atgtcagaag ataaattcct ttcggactac agcccccgtg atgcagtttg ggatacccag
       61 cgcacgctta ccgattctgt cgggggtatc taccagattg ctgctgaatt cgagcgctat
      121 gcactccgta tggcctcctg tagcggtttg ttacgttttg gttggtctac catcatggaa
      181 accggagaaa cgcgcctacg gcttcgtagt gcgcaatttt gccgtgtccg tcattgccct
      241 gtctgccagt ggagaagaac cctcatgtgg caagcccgtt tttatcaggc tctaccgaaa
      301 atcgttgtgg attacccgtc ttcccgatgg ttgtttctga cgttaactgt caggaactgc
      361 gagataggtg aacttggaac agtccttaca gcaatgaatg cggcgtttaa gcgaatggaa
      421 aagcgaaagg agctatcacc tgttcagggg tggatcaggg ctacggaggt gacgcgaggt
      481 aaggatggca gcgcacatcc gcattttcac tgtctgctga tggtgcaacc ttcttggttt
      541 aaagggaaga actacgttaa gcacgaacgt tgggtagaac tctggcgcga ttgcttgcgg
      601 gtgaactatg agccgaatat cgatattcgg gcagtaaaaa ctaagacagg tgaggttgtg
      661 gccaacgttg ccgagcaact gcaaagcgcg gttgctgaaa cgctgaaata ctccgttaaa
      721 ccggaagata tggcaaacga tcctgagtgg tttcttgagc tgacgcggca gcttcacaag
      781 cgccgtttta tctcgaccgg tggggcgcta aaaaacgtcc tccagttgga tcgagaaacc
      841 aatgaggatc ttgtcattgc cgacgatgta ggggatggca ctgatgacgg gaagcggacg
      901 gcgtttgtct gggattcagg taaacggcgt tacaaacgcg cccctgagaa ggataaatcg
      961 gattaacgta tgaatattaa tattgaatac ctgaatggaa ataagactat tggtttattt
     1021 tttttaagaa gtgaagcggt gattcctgac aggtttaaaa accttatttt gcttattgat
     1081 ggattaagtt ttggcacatt tggttttcat ccgcacgaag gttttgagga tgaattaatt
     1141 ttatatattc agaaaacaaa cgagagggta aaaactcttt ttgtgaaaat agatttaaac
     1201 ggtatcaagt ttggattttt aagaacgcat tcttagttct ggaaaagagc cagcggcagg
     1261 ctgaggtgat aggtacgaga ttgcatgcaa tctctagtgc tctgtctatc ctgcattatc
     1321 ctcagcatta tcctcagcct tgccaactcg acaccaatgc aggatagaca atccgatgtc
     1381 aaatgttaac actctgcgag tggtacattt tccccggatt atcgtcctga gcctgccgct
     1441 ggctctcttt ctaccgcctc gctttgctcg ttgctcaacg cctcacagac acggattaaa
     1501 atccgcatcc gttcaccgtt ttttaaagtc cgttaaaagc atgatgccat ctccgagagt
     1561 taatctcgtc aaatgctaaa tcgtgggggt cccctttggg gttccgattt agtgattgac
     1621 gacaccaccg attaaaaaac ttatgcgggg tggatggttt cacgaagtga ggccatccac
     1681 ctgtaagaca gggttttgtt tttattccct gttttggtga tcgggtgtgt ggaaaaggtt
     1741 gggctcagcc gttcgggagt gcttgttttg gggggttaaa attgtggtta ttttttgcgc
     1801 aagtctcgcg cgtgatcctt gtatttatac ttaagggata aatggcggat atgaaatagt
     1861 ggtttagccc agtaatgacg aggctttgag tgggttttga caggtcaaag aaaatggagc
     1921 agaattgagg cgtttttaat cggcgttggg gagtgcgtca acactcccca acatttcgaa
     1981 tgtgtcacct cagcggcaaa ctctggtgac atgtactggc tcgcaatgca caggtacgtg
     2041 atgaatatac cacatcaaat cacagcctgc ccagatcgga gcaggctta
//
