LOCUS       NZ_CP151353             5163 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R17.0261 plasmid pR17.0261_5.1k, complete
            sequence.
ACCESSION   NZ_CP151353
VERSION     NZ_CP151353.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40122666
            Assembly: GCF_038367155.1
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  JOURNAL   Unpublished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_038367155.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:46:18
            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)                     :: 5,103
            CDSs (total)                      :: 4,973
            Genes (coding)                    :: 4,344
            CDSs (with protein)               :: 4,344
            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)              :: 629
            CDSs (without protein)            :: 629
            Pseudo Genes (ambiguous residues) :: 0 of 629
            Pseudo Genes (frameshifted)       :: 169 of 629
            Pseudo Genes (incomplete)         :: 437 of 629
            Pseudo Genes (internal stop)      :: 110 of 629
            Pseudo Genes (multiple problems)  :: 84 of 629
            Pseudo Genes (short protein)      :: 3 of 629
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151353.1.
            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="R17.0261"
                     /db_xref="taxon:624"
                     /plasmid="pR17.0261_5.1k"
                     /collected_by="Taiwan CDC"
     gene            1..927
                     /locus_tag="AADX58_RS25445"
                     /old_locus_tag="AADX58_25465"
     CDS             1..927
                     /locus_tag="AADX58_RS25445"
                     /old_locus_tag="AADX58_25465"
                     /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            930..1463
                     /locus_tag="AADX58_RS25450"
                     /old_locus_tag="AADX58_25470"
     CDS             930..1463
                     /locus_tag="AADX58_RS25450"
                     /old_locus_tag="AADX58_25470"
                     /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(1529..1738)
                     /locus_tag="AADX58_RS25455"
                     /old_locus_tag="AADX58_25475"
     CDS             complement(1529..1738)
                     /locus_tag="AADX58_RS25455"
                     /old_locus_tag="AADX58_25475"
                     /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"
     gene            3471..4385
                     /locus_tag="AADX58_RS25460"
                     /old_locus_tag="AADX58_25480"
     CDS             3471..4385
                     /locus_tag="AADX58_RS25460"
                     /old_locus_tag="AADX58_25480"
                     /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(4589..4987)
                     /locus_tag="AADX58_RS25465"
                     /old_locus_tag="AADX58_25485"
     CDS             complement(4589..4987)
                     /locus_tag="AADX58_RS25465"
                     /old_locus_tag="AADX58_25485"
                     /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"
     Typing          3472..4385
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..924
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.701"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtggcaacct atcacctcag cgttaaattt ggtggcaagg ggcaggctgc aaaccacgcc
       61 gattacatcg agcgcaaaga gaaataccgc gaccgtcagg atttggaata ttccgcacac
      121 ggaaacatgc cggaatgggc cagggataat ccttcccatt tctggcaggc ggctgaccag
      181 tttgaacgtg cgaacggttc gacctatagg gaacttgaaa ttgcattacc ccgtgaactg
      241 acaccggaac agcgccttga actggtgcag gattttgtac gtcaggaagc tggcgaacgg
      301 cacgcctgga gttttgccat tcacaatccg aaagcgagca ttgacggcgg cgaacagcct
      361 catgcgcata tcatgatgag tcagcgtgtg aatgatggca ttgaacgtac accggaacag
      421 tatttccggc gctataacgc caggtatccc gagcggggag gtgcgaaaaa ggattccgga
      481 agcctgactc tcactcagca aaaagagcag ttgcgggaat tgcgaaaacg ctgggaggtg
      541 aagcacaacg aacatatgag aaagcatggc tttgaaaggg gcttcattga ctgccggacg
      601 ctgaaagaac agggcattga acgacgtccc gaagtgcatc tgggttttga agctgccgga
      661 cggcttgatg atgcccagcg tcatgacatc atgcaaaaac ggtctgaacc ggactattcc
      721 cgccatcttg aacaggcgcg aacggtcggg catgacatca gggaatggct ggacactccg
      781 gttaagcaac atgaactggt cagaaggctt caacatgatg ttgcgcggga gcatggcttt
      841 gacatgagag acagagtgag cagacaggac cgaactgaac ctgaacgggt taaatcaccg
      901 tcacgtggat tttctatggg attctgaaca tggccagcac agaagaaaaa ttactcacgc
      961 tcctgttatc ggtggagcat ctgcaacata ccgcaatgga gcaacagaaa gctgttgctg
     1021 attctctggc tgtggcaagg gaaacacttc gcggatatcg ggatatttct gacggtgtgg
     1081 caaaacaggt cagggatgaa gtcagaaacg aggtgcagaa gctggacgta gcagggctga
     1141 taggtgagcg catcagccat gattttcagc ggctggaaga gtcagtcgca aacatgaagg
     1201 taaacgcgga tgccctgaac agggatattg cgacaattca cagcaatatc gtgcaggaat
     1261 acaacaccct taaagggtat agctggaaat ggctgggtgg ggtgtcagtg gcttttctgg
     1321 ttatgttctg tgtgctcgga tggggaatga aaacaatact cgacaggaac tacaacgcca
     1381 cagcggcggt gtatcagaaa gttgtgacac tggaagataa actggtggag aaacctgtca
     1441 cggggaagag ccggaaaaac tgacgcgctt cgcttgtcca acgcctcacg acccgcgaaa
     1501 ggatttcgcg aaccgttcac cgtttttttc aatatgattc tgtctgcttt ggtcgataaa
     1561 gcagacgata gtattccagc cttcgtatat ataacggtac gtgctcatca gtaagagctg
     1621 gcggtattgt gttatcaggg ggaagttttt tcagatactc acgaaatgcc tggcttgatg
     1681 ccataaaatc tacagtagca tcgataatat gtggggtgtt ttcacctaat tttgccatga
     1741 tgataatcct tatattatca cggtttgtga atgatagggt gtcactatta tttatgcgtt
     1801 agtgaaccag aaaaaatccc ccgttggcat agggggatat gtaaggagaa ataacttcgc
     1861 aggtgttctt gtttgtataa cgtgaaaaga ctgcacgcaa cttaataagt ctgccgtact
     1921 tactttcagt tttcaacata aggtttataa caatgtatgg aatggaagtg agctttaagg
     1981 tttcagctct aaaaaataaa atatttatta gttggctggt tgttgttctt gttctgtatg
     2041 tatataaaca ctatcgacat attatgaccg ggaacattcc ttaccccctc tgcgctcgca
     2101 gaggtttttt ttgccattaa ttaataatga actgaaatgc agttccgata cctccatttg
     2161 cacattatcc ctgacatatg gtaccggaac cgcattaatt ttatgttata agagtttatt
     2221 tttaatgtcc agatggttta atagtattta tatgtaatta gctgtatgga tagtactggt
     2281 tttattgtat aacttgtcgt tttttttatt gtttttgtgt ggtgtgctaa tctttaagtt
     2341 ataaaaaaaa cccttggaat acaggggcaa aagtaaggaa aacaaatgga tgctcagttt
     2401 gtgtgacact ttaaactaat ggaactatag agtggaggtt gttacagtcg cttttataaa
     2461 acagcaacca gtttttttca atagtctgat gatggttgtg acagttttgt gatattgttc
     2521 aaaatgtttt ttgttgaatg tttgtttttt ggtctattgg tgtctggttt tattttttct
     2581 gctattacat atcaagaaat gtgattggtg tagcaagagt ggaatgcgat gtggataaac
     2641 taattggttg tcgaatctaa tttacttaga aaactacact tgtttttgtg tatgaattta
     2701 gtgaatttgt ctgtctatgt gttttcgtgc atttataaat ccttcgtcag gatcttaaat
     2761 ttagtgttga atatgtaggg cctgtacggt aattattatt tagcgtagct acttcatcgt
     2821 tgttcgaaca caaccaacaa cctgtaattg ttgtttctct tggttcccca cttttgtggg
     2881 gttttttatc tcttccgtgc atcgtaaagc gcggactcct tctggaaagg ttgttttagg
     2941 gcatcactga ggcatttttt gcgtttgtga atattgagca tccgataact aaaatatttc
     3001 ccatagactc tgattcttgc caccgacccc aggtcggttt tttttgtcct ggcgagatgt
     3061 gaagtttgga aacaggaaac cccgtcagag cgccacgcac caggggagaa aacttgtcgt
     3121 tttgagccgt tcggtgttca gaacgcacga aaccgatcgc acatcgcttt cgtgcatagt
     3181 tatgcaacgc cctgaaaacg attctgacgc gtttttctgg tttggcctgg tgttttcttg
     3241 tctttttgcg ttttttgcgc cagaaagcga ttgagggcgt tttacatggt acgtacaacg
     3301 ggagttatgg taaatggatc ggatttgcgg gaaggctcga caggttttgt cgttgggggt
     3361 agtgtaagcg actgaaaaac aaacgcccct gaaattcgtg tctatccgcc aagactttca
     3421 cgaaaataca ggggcgatgt cggtcgataa cctggaagga atcgtaacac atgagcgccg
     3481 cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat gatctcgctt
     3541 tcggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc cagcagaacc
     3601 agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct gcgattgact
     3661 ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg aacggacacg
     3721 ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc tcggttaagg
     3781 cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt gcggatgtga
     3841 actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg atggagtggc
     3901 gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc gcctcagagc
     3961 gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc gaaatgacgc
     4021 gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag tggcttgaag
     4081 cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt tcactggctg
     4141 aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc acgccggaaa
     4201 ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca cgcggtcgca
     4261 agggcggttc taagtctaag cgcagcacag tagctacatc tgcacgcacg ctgaaaccgt
     4321 gggaggcatt agggatcagt cgcgcctggt attaccaact gaaaaaacga ggtctcgtag
     4381 agtagaccaa ataagcctat atcagataac agcgcctttc tggcgtcttt ttgagcagca
     4441 ggttttttgc cgttttcccc cgttcagccc tgcaatggcg cggctttccg cgtgattgtg
     4501 gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc gaggaagcac
     4561 cagggaatcg gaacacggat ggaggcactt acgcgtctgg gtttggggat gtctccagat
     4621 cgtacttaag ttccttaagt gcttgtaata tcctgtcttt tttatagcat agctcgcctg
     4681 tttttgtgtc taccagtcct gcttcgatca gtagcccagc cgcgagaaag agccggtgat
     4741 tgcgttcccg tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt tttcgttcgc
     4801 tctcctgtgc ctgtaagtcg tttttttccg ctgttgccag tacgtggaga agtttgcgtt
     4861 cctgttctgt gagtccggct tcgttgtcga tcaggtcaat aatctgtctc tgtcgtgcgg
     4921 tctgttctcc gagcttcctg atgaatccga tccgtttctt cagccattcg atgttgctga
     4981 tgcgcatgtt cgtgatgctc cctggtgttt ttttgcggtg tgttgtggtc gtgcagtata
     5041 tcgcttgcgg tcggcgggtg cagggggtat cttccgtgct aattcgtaaa attagaagga
     5101 agcgcactta tatgtttctc tccttcgtcg agaaacagtg cgctcctgca gagggctgaa
     5161 acc
//
