LOCUS       NZ_CP151396             5163 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R15.0423 plasmid pR15.0423_5.1k, complete
            sequence.
ACCESSION   NZ_CP151396
VERSION     NZ_CP151396.1
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 5163)
  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  JOURNAL   Unpublished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 5163)
  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
            CP151396.1.
            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..5163
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R15.0423"
                     /db_xref="taxon:624"
                     /plasmid="pR15.0423_5.1k"
                     /collected_by="Taiwan CDC"
     gene            join(4369..5163,1..120)
                     /locus_tag="AADX55_RS26700"
                     /old_locus_tag="AADX55_26720"
     CDS             join(4369..5163,1..120)
                     /locus_tag="AADX55_RS26700"
                     /old_locus_tag="AADX55_26720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(324..722)
                     /locus_tag="AADX55_RS26705"
                     /old_locus_tag="AADX55_26725"
     CDS             complement(324..722)
                     /locus_tag="AADX55_RS26705"
                     /old_locus_tag="AADX55_26725"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            899..1825
                     /locus_tag="AADX55_RS26710"
                     /old_locus_tag="AADX55_26730"
     CDS             899..1825
                     /locus_tag="AADX55_RS26710"
                     /old_locus_tag="AADX55_26730"
                     /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_019842150.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1828..2361
                     /locus_tag="AADX55_RS26715"
                     /old_locus_tag="AADX55_26735"
     CDS             1828..2361
                     /locus_tag="AADX55_RS26715"
                     /old_locus_tag="AADX55_26735"
                     /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_029364822.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISHDFQRLEESVANMKVNADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2427..2636)
                     /locus_tag="AADX55_RS26720"
                     /old_locus_tag="AADX55_26740"
     CDS             complement(2427..2636)
                     /locus_tag="AADX55_RS26720"
                     /old_locus_tag="AADX55_26740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          2..120
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.25e-55"
     Typing          4370..5144
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.263"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          900..1822
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.701"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggttctaagt ctaagcgcag cacagtagct acatctgcac gcacgctgaa accgtgggag
       61 gcattaggga tcagtcgcgc ctggtattac caactgaaaa aacgaggtct cgtagagtag
      121 accaaataag cctatatcag ataacagcgc ctttctggcg tctttttgag cagcaggttt
      181 tttgccgttt tcccccgttc agccctgcaa tggcgcggct ttccgcgtga ttgtggtggt
      241 agtgctcgcc gcagtctcat gaccgagcgt agcgagcgaa tgagcgagga agcaccaggg
      301 aatcggaaca cggatggagg cacttacgcg tctgggtttg gggatgtctc cagatcgtac
      361 ttaagttcct taagtgcttg taatatcctg tcttttttat agcatagctc gcctgttttt
      421 gtgtctacca gtcctgcttc gatcagtagc ccagccgcga gaaagagccg gtgattgcgt
      481 tcccgtcgtt gtttttttcc ctcgattcgt ttttggaccg cctgttttcg ttcgctctcc
      541 tgtgcctgta agtcgttttt ttccgctgtt gccagtacgt ggagaagttt gcgttcctgt
      601 tctgtgagtc cggcttcgtt gtcgatcagg tcaataatct gtctctgtcg tgcggtctgt
      661 tctccgagct tcctgatgaa tccgatccgt ttcttcagcc attcgatgtt gctgatgcgc
      721 atgttcgtga tgctccctgg tgtttttttg cggtgtgttg tggtcgtgca gtatatcgct
      781 tgcggtcggc gggtgcaggg ggtatcttcc gtgctaattc gtaaaattag aaggaagcgc
      841 acttatatgt ttctctcctt cgtcgagaaa cagtgcgctc ctgcagaggg ctgaaaccgt
      901 ggcaacctat cacctcagcg ttaaatttgg tggcaagggg caggctgcaa accacgccga
      961 ttacatcgag cgcaaagaga aataccgcga ccgtcaggat ttggaatatt ccgcacacgg
     1021 aaacatgccg gaatgggcca gggataatcc ttcccatttc tggcaggcgg ctgaccagtt
     1081 tgaacgtgcg aacggttcga cctataggga acttgaaatt gcattacccc gtgaactgac
     1141 accggaacag cgccttgaac tggtgcagga ttttgtacgt caggaagctg gcgaacggca
     1201 cgcctggagt tttgccattc acaatccgaa agcgagcatt gacggcggcg aacagcctca
     1261 tgcgcatatc atgatgagtc agcgtgtgaa tgatggcatt gaacgtacac cggaacagta
     1321 tttccggcgc tataacgcca ggtatcccga gcggggaggt gcgaaaaagg attccggaag
     1381 cctgactctc actcagcaaa aagagcagtt gcgggaattg cgaaaacgct gggaggtgaa
     1441 gcacaacgaa catatgagaa agcatggctt tgaaaggggc ttcattgact gccggacgct
     1501 gaaagaacag ggcattgaac gacgtcccga agtgcatctg ggttttgaag ctgccggacg
     1561 gcttgatgat gcccagcgtc atgacatcat gcaaaaacgg tctgaaccgg actattcccg
     1621 ccatcttgaa caggcgcgaa cggtcgggca tgacatcagg gaatggctgg acactccggt
     1681 taagcaacat gaactggtca gaaggcttca acatgatgtt gcgcgggagc atggctttga
     1741 catgagagac agagtgagca gacaggaccg aactgaacct gaacgggtta aatcaccgtc
     1801 acgtggattt tctatgggat tctgaacatg gccagcacag aagaaaaatt actcacgctc
     1861 ctgttatcgg tggagcatct gcaacatacc gcaatggagc aacagaaagc tgttgctgat
     1921 tctctggctg tggcaaggga aacacttcgc ggatatcggg atatttctga cggtgtggca
     1981 aaacaggtca gggatgaagt cagaaacgag gtgcagaagc tggacgtagc agggctgata
     2041 ggtgagcgca tcagccatga ttttcagcgg ctggaagagt cagtcgcaaa catgaaggta
     2101 aacgcggatg ccctgaacag ggatattgcg acaattcaca gcaatatcgt gcaggaatac
     2161 aacaccctta aagggtatag ctggaaatgg ctgggtgggg tgtcagtggc ttttctggtt
     2221 atgttctgtg tgctcggatg gggaatgaaa acaatactcg acaggaacta caacgccaca
     2281 gcggcggtgt atcagaaagt tgtgacactg gaagataaac tggtggagaa acctgtcacg
     2341 gggaagagcc ggaaaaactg acgcgcttcg cttgtccaac gcctcacgac ccgcgaaagg
     2401 atttcgcgaa ccgttcaccg tttttttcaa tatgattctg tctgctttgg tcgataaagc
     2461 agacgatagt attccagcct tcgtatatat aacggtacgt gctcatcagt aagagctggc
     2521 ggtattgtgt tatcaggggg aagttttttc agatactcac gaaatgcctg gcttgatgcc
     2581 ataaaatcta cagtagcatc gataatatgt ggggtgtttt cacctaattt tgccatgatg
     2641 ataatcctta tattatcacg gtttgtgaat gatagggtgt cactattatt tatgcgttag
     2701 tgaaccagaa aaaatccccc gttggcatag ggggatatgt aaggagaaat aacttcgcag
     2761 gtgttcttgt ttgtataacg tgaaaagact gcacgcaact taataagtct gccgtactta
     2821 ctttcagttt tcaacataag gtttataaca atgtatggaa tggaagtgag ctttaaggtt
     2881 tcagctctaa aaaataaaat atttattagt tggctggttg ttgttcttgt tctgtatgta
     2941 tataaacact atcgacatat tatgaccggg aacattcctt accccctctg cgctcgcaga
     3001 ggtttttttt gccattaatt aataatgaac tgaaatgcag ttccgatacc tccatttgca
     3061 cattatccct gacatatggt accggaaccg cattaatttt atgttataag agtttatttt
     3121 taatgtccag atggtttaat agtatttata tgtaattagc tgtatggata gtactggttt
     3181 tattgtataa cttgtcgttt tttttattgt ttttgtgtgg tgtgctaatc tttaagttat
     3241 aaaaaaaacc cttggaatac aggggcaaaa gtaaggaaag caaatggatg ctcagtttgt
     3301 gtgacacttt aaactaatgg aactatagag tggaggttgt tacagtcgct tttataaaac
     3361 agcaaccagt ttttttcaat agtctgatga tggttgtgac agttttgtga tattgttcaa
     3421 aatgtttttt gttgaatgtt tgttttttgg tctattggtg tctggtttta ttttttctgc
     3481 tattacatat caagaaatgt gattggtgta gcaagagtgg aatgcgatgt ggataaacta
     3541 attggttgtc gaatctaatt tacttagaaa actacacttg tttttgtgta tgaatttagt
     3601 gaatttgtct gtctatgtgt tttcgtgcat ttataaatcc ttcgtcagga tcttaaattt
     3661 agtgttgaat atgtagggcc tgtacggtaa ttattattta gcgtagctac ttcatcgttg
     3721 ttcgaacaca accaacaacc tgtaattgtt gtttctcttg gttccccact tttgtggggt
     3781 tttttatctc ttccgtgcat cgtaaagcgc ggactccttc tggaaaggtt gttttagggc
     3841 atcactgagg cattttttgc gtttgtgaat attgagcatc cgataactaa aatatttccc
     3901 atagactctg attcttgcca ccgaccccag gtcggttttt tttgtcctgg cgagatgtga
     3961 agtttggaaa caggaaaccc cgtcagagcg ccacgcacca ggggagaaaa cttgtcgttt
     4021 tgagccgttc ggtgttcaga acgcacgaaa ccgatcgcac atcgctttcg tgcatagtta
     4081 tgcaacgccc tgaaaacgat tctgacgcgt ttttctggtt tggcctggtg ttttcttgtc
     4141 tttttgcgtt ttttgcgcca gaaagcgatt gagggcgttt tacatggtac gtacaacggg
     4201 agttatggta aatggatcgg atttgcggga aggctcgaca ggttttgtcg ttgggggtag
     4261 tgtaagcgac tgaaaaacaa acgcccctga aattcgtgtc tatccgccaa gactttcacg
     4321 aaaatacagg ggcgatgtcg gtcgataacc tggaaggaat cgtaacacat gagcgccgcg
     4381 cttcaatact tcgaagaaaa tttaccccac cgtccctatc acacggatga tctcgctttc
     4441 ggccttcgta tctccggcaa agggcgcgcg cttcttgcac ggtatatcca gcagaaccag
     4501 cctcatgcac agttctggct ggtttttgac gttgaccgcg agggggctgc gattgactgg
     4561 agcgaccgga acgctcccgc gccgaacatc accgttaaaa atcctgtgaa cggacacgct
     4621 cacctgctct acgcactcaa catcgccgtg agaaccgcgc ctgatgcctc ggttaaggcg
     4681 ctgaaatatg ccgcagcggt tgaacgttcg ctgtgtgaga aactttgtgc ggatgtgaac
     4741 tacagcggcc tgatttgcaa aaatccgttc cacctggaat ggctggtgat ggagtggcgc
     4801 gaggaagcct ataccctcga tgaactggct gattatctcg atttgagcgc ctcagagcgt
     4861 cgtagcatcg ataaacatta cgggatgggg cgaaactgcc acctgttcga aatgacgcgc
     4921 aaatgggctt acagggcgat tcgtcagggc tggccagcgt tctcacagtg gcttgaagcg
     4981 gtgatccagc gtgtcgaaat gtacaatgca tcgcttcccg ttccgctttc actggctgaa
     5041 tgtcgggcta ttggcaagag cattgcgaaa tacacgcaca ggaacttcac gccggaaact
     5101 ttcgcacagt atgtggctga tacgcacacg ccagaaattc aggctgcacg cggtcgcaag
     5161 ggc
//
