LOCUS       NZ_CP151308             3138 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R22.1286 plasmid pR22.1286_3.1k, complete
            sequence.
ACCESSION   NZ_CP151308
VERSION     NZ_CP151308.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40122667
            Assembly: GCF_038363105.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 3138)
  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  JOURNAL   Unpublished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 3138)
  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_038363105.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:39:45
            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)                     :: 5,120
            CDSs (total)                      :: 4,990
            Genes (coding)                    :: 4,358
            CDSs (with protein)               :: 4,358
            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)              :: 632
            CDSs (without protein)            :: 632
            Pseudo Genes (ambiguous residues) :: 0 of 632
            Pseudo Genes (frameshifted)       :: 173 of 632
            Pseudo Genes (incomplete)         :: 436 of 632
            Pseudo Genes (internal stop)      :: 109 of 632
            Pseudo Genes (multiple problems)  :: 83 of 632
            Pseudo Genes (short protein)      :: 3 of 632
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151308.1.
            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..3138
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R22.1286"
                     /db_xref="taxon:624"
                     /plasmid="pR22.1286_3.1k"
                     /collected_by="Taiwan CDC"
     gene            3..398
                     /locus_tag="AADX63_RS25550"
                     /old_locus_tag="AADX63_25535"
     CDS             3..398
                     /locus_tag="AADX63_RS25550"
                     /old_locus_tag="AADX63_25535"
                     /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_001222910.1"
                     /translation="MRISNIDWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNELQAQENARKQANQKRMEGKTQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELRYPKDNILQKLKAIRLDLETSPDHH"
                     /name="hypothetical protein"
     gene            complement(1224..1436)
                     /locus_tag="AADX63_RS25555"
                     /old_locus_tag="AADX63_25540"
     CDS             complement(1224..1436)
                     /locus_tag="AADX63_RS25555"
                     /old_locus_tag="AADX63_25540"
                     /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_202151682.1"
                     /translation="MRKFAILTRSTAGASETNRVPYLCIAMQHPENAFHAFLGIQPGEN
                     MVFLLFERKDVKNLVIALAIFRQGA"
                     /name="hypothetical protein"
     gene            complement(1503..2036)
                     /locus_tag="AADX63_RS25560"
                     /old_locus_tag="AADX63_25545"
     CDS             complement(1503..2036)
                     /locus_tag="AADX63_RS25560"
                     /old_locus_tag="AADX63_25545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_106509525.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNKDIATIH
                     HNVVKEYNTLNKYSLKWFIGVTVSFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPATGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2039..2965)
                     /locus_tag="AADX63_RS25565"
                     /old_locus_tag="AADX63_25550"
     CDS             complement(2039..2965)
                     /locus_tag="AADX63_RS25565"
                     /old_locus_tag="AADX63_25550"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001314449.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(2043..2965)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acatgcgcat cagcaacatc gactggttga agaaacgaat cggctttatc aggaagctcg
       61 gagaacagac cgcacgacag aggcagatca ttgacctgct cgataacgaa gccggactaa
      121 cagaacagga gcgcaaacta ctccacgtcc tggcaaccgc agaaaaaaac gagctacagg
      181 cacaggagaa cgcacgcaaa caggccaacc aaaaacggat ggaggggaaa acacaacgac
      241 gggaacgcaa tcaccgcctg tttcttgcgg cggggttact gatcgaggcc ggactagtgg
      301 acacaaaaac aggcgaactg agatacccaa aagacaatat attacagaaa cttaaggcaa
      361 tcaggctcga tcttgaaaca agcccagatc atcattaatt ccgctgcgtg gtggtgcgtt
      421 tgcctgccgg tgttcaatgt tttcgatttc gcgacgcgct acgcgcggat ctggcacagg
      481 cgcgtaagtg cacaatgctt gcctctgtga ctcttccgct tcctcgccca ctcgctcact
      541 acgttcggtc gctggggctg cggcgagcgg tgggatcact ctcgttgtga tgcagatccg
      601 tttttttttt tgcactggag ttatcaggag tagcggtgca catgggatcg tgcgatatgc
      661 tggatggtgg aaggtcggag ggaacggcaa caactcaccc ctcccagtga agggacgggt
      721 agtttgccgc tctcgatatg ccggacggag ccaaggccat cgatcacggg gcgcgtcggt
      781 ggaagaaccc gcgcctgcgt gacgtatgcg tcttcgccgc accatctcac ccgtcacgcc
      841 accacatacc gggaactgcc gccaaggtct aactcaacca atctagccgc gctacatacg
      901 gtttttgtgg caactcatca ggtgtccgct gtcgatgaaa ctctctgcgc cggtagcgga
      961 actctcacgc gtgcggttgc cgtcgtcaca gctcccccaa ccgcaaacgg tctttgcaaa
     1021 cacgcaatca tctgcaaaaa caggattttt tcgggattct ggggaggctg tgcggtcggt
     1081 aatgcttgaa gaatacagaa ggttcatgca aactgaatga actggtttcc gttgtcaccg
     1141 caacagactc cacaggaaca ttgaggaggt cgaaaacctc aatgaacccg aagaagctcg
     1201 cctaacggcg ggcttttttc gttctacgct ccctgacgaa agatcgcaag tgcaataacg
     1261 agatttttca cgtctttacg ctcaaaaagt aaaaaaacca tgttttcccc tggctgaatc
     1321 cccaaaaacg cgtgaaatgc gttttcagga tgttgcatag ctatgcacaa atacggcaca
     1381 cgatttgttt cgctcgcccc agccgtcgaa cgggtcaaaa tggcaaactt tctcatcaga
     1441 aaacggtgaa cgggacgcgg aattttttcg cgtcccgtga ggcgttggac aagcgaagcg
     1501 cgtcagtttt tccggctctt ccctgttgct ggtttctccg ccagtttatc ttccagtgtc
     1561 acaactttct gatacaccgc cgctgtggcg ttgtagttcc tgtcgagcat tgttttcatt
     1621 ccccatccaa gcacacagaa cataaccaga aaactgaccg taacaccgat aaaccatttc
     1681 agactgtatt tattgagcgt gttgtattct ttaacaacat tgtgatgaat tgtcgcaatg
     1741 tccttgttca gggcatccgc gtttgccttc atgtttgcga ctgactcttc cagccgctga
     1801 aaatcctggc tgatgcgctc acctatcagc cctgcaacat ccagcttctg cacctcgttt
     1861 ctgacttcat ccctgacctg ttttgccaca ccgtcagaaa tatcccgata tccgcgaagt
     1921 gtttcccttg ccacagccag agaatcagca acagctttct gttgctccat tgcggtatgt
     1981 tgcagatgct ccaccgataa caggagcgtg agtaattttt cttctgtgct ggccatgttc
     2041 agaatcccat agaaaatcca cgtgacggtg atttaacccg ttcaggttca gttcggttct
     2101 gtctgctcac tctgtctctc atgtcaaagc catgctcccg cgcaacatca tgttgcagcc
     2161 ttctgaccag ttcatgttgc ttaaccggag tgtccagcca ttccctgatg tcatgcccga
     2221 ccgttcgcgc ctgttcaaga tggcgggaat agtccggttc agaccgtttt tgcatgatgt
     2281 catgacgctg ggcatcatca agccgtccgg cagcttcaaa acccagatgc acttcgggac
     2341 gtcgttcaat gccctgttct ttcagcgtcc ggcagtcaat gaagcccctt tcaaagccat
     2401 gctttctcat atgttcgttg tgcttcacct cccagcgttt tcgcaattcc cgcaactgct
     2461 ctttttgctg agtgagagtc aggcttccgg aatccttttt cgcacctccc cgctcgggat
     2521 acctggcgtt atagcgccgg aaatactgtt ccggtgtacg ttcaatgcca tcattcacac
     2581 gctggctcat catgatatgc gcatgaggct gttcgccgcc gtcaatgctc gctttcggat
     2641 tgtgaatggc aaaactccag gcgtgccgtt cgccagcttc ctgacgtaca aaatcctgca
     2701 ccagttcaag gcgctgttcc gctgtcagtt cacggggtaa tgcaatttca agttcccgat
     2761 aggtcgaacc gttcgcacgt tcaaactggt cagccgcctg ccagaaatgt gagggattat
     2821 ctcgcgccca ttccggcatg tttccgtgtg cggaatattc caaatcctga cggtcgcggt
     2881 atttctcttt gcgctcgatg taatcggcgt ggtttgcagc ctgccccttg ccaccaaatt
     2941 taacgctgag gtgataggtt gccacggttt cagccctccg caggagcgca ctgtttctcg
     3001 acgaaggaga gaaacatata agtgcgcttc cttctaattt tacgaattag cacggaagat
     3061 accccctgca cccaccgacc gcaagcgata tactgcacaa ccccaacaca ccgcaaaaaa
     3121 caccagggag catcccaa
//
