LOCUS       NZ_CP061365             6025 bp    DNA     circular CON 16-APR-2024
DEFINITION  Shigella sonnei strain 6207 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP061365
VERSION     NZ_CP061365.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16084720
            Assembly: GCF_014725795.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 6025)
  AUTHORS   Guglielmino,C.J.D.
  TITLE     pM2901 in Shigella sonnei
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6025)
  AUTHORS   Guglielmino,C.J.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-SEP-2020) Public Health Microbiology, Queensland
            Health Forensic and Scientific Services, PO Box 594, Archerfield,
            QLD 4108, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method :: Unicycler v. AUG-2020; Flye v. AUG-2020
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_014725795.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 07:52:24
            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)                     :: 5,102
            CDSs (total)                      :: 4,977
            Genes (coding)                    :: 4,392
            CDSs (with protein)               :: 4,392
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 585
            CDSs (without protein)            :: 585
            Pseudo Genes (ambiguous residues) :: 0 of 585
            Pseudo Genes (frameshifted)       :: 168 of 585
            Pseudo Genes (incomplete)         :: 395 of 585
            Pseudo Genes (internal stop)      :: 99 of 585
            Pseudo Genes (multiple problems)  :: 74 of 585
            Pseudo Genes (short protein)      :: 3 of 585
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP061365.1.
            Bacteria and source DNA available from Queensland Health.
            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..6025
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="6207"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:624"
                     /plasmid="unnamed2"
                     /geo_loc_name="Australia"
                     /lat_lon="27.5 S 153 E"
                     /collection_date="2020"
                     /collected_by="Queensland Health"
     ARG             3..292
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide resistant sul"
                     /tool="rgi"
                     /drug_class="sulfonamide antibiotic"
                     /identity="100.0"
                     /coverage="35.42"
     ARG             5503..6023
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide resistant sul"
                     /tool="rgi"
                     /drug_class="sulfonamide antibiotic"
                     /identity="100.0"
                     /coverage="64.21"
     gene            379..>621
                     /gene="glmM"
                     /locus_tag="IC759_RS00800"
                     /old_locus_tag="IC759_00790"
                     /pseudo=""
     CDS             379..>621
                     /gene="glmM"
                     /locus_tag="IC759_RS00800"
                     /old_locus_tag="IC759_00790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008891390.1"
                     /note="catalyzes the conversion of glucosamine-6-phosphate
                     to glucosamine-1-phosphate; incomplete; partial in the
                     middle of a contig; missing C-terminus; Derived by
                     automated computational analysis using gene prediction
                     method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="phosphoglucosamine mutase"
                     /name="glmM"
     gene            complement(857..2350)
                     /locus_tag="IC759_RS00805"
                     /old_locus_tag="IC759_00800"
     CDS             complement(857..2350)
                     /locus_tag="IC759_RS00805"
                     /old_locus_tag="IC759_00800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91-like element ISVsa3 family transposase"
                     /protein_id="WP_001120888.1"
                     /translation="MPHVAARTASRDRDTGRYQSHRPEQTLLYQIVDEYYPAFAALMAE
                     QGKELPGYVQREFEEFLQCGRLEHGFLRVRCESCHAEHLVAFSCKRRGFCPSCGARRMA
                     ESAALLVDEVLPEQPMRQWVLSFPFQLRFLFASRPEIMGWVLGIVYRVIATHLVKKAGH
                     THQVAKTGAVTLIQRFGSALNLNVHFHMLFLDGVYVEQSHGSARFRWVKAPTSPELTQL
                     THTIAHRVGRYLERQGLLERDVENSYLASDAVDDDPMTPLLGHSITYRIAVGSQAGRKV
                     FTLQTLPTSGDPFGDGIGKVAGSSLHAGVAARADERKKLERLCRYISRPAVSEKRLSLT
                     RGGNVRYQLKTPYRDGTTHVIFEPLDFIARLAALVPKPRVNLTRFHGVFAPNSRHRALV
                     TPAKRGRGNKVRVADEPATPAQRRASMTWAQRLKRVFNIDIETCSGCGGAMKVIACIED
                     PIVIKQILDHLKHKAETSGTRALPESRAPPAELLLGLFD"
                     /name="IS91-like element ISVsa3 family transposase"
     gene            complement(2394..2783)
                     /locus_tag="IC759_RS00810"
                     /old_locus_tag="IC759_00805"
     CDS             complement(2394..2783)
                     /locus_tag="IC759_RS00810"
                     /old_locus_tag="IC759_00805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            3001..3441
                     /locus_tag="IC759_RS00815"
                     /old_locus_tag="IC759_00810"
     CDS             3001..3441
                     /locus_tag="IC759_RS00815"
                     /old_locus_tag="IC759_00810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     gene            complement(4164..4313)
                     /locus_tag="IC759_RS00820"
                     /old_locus_tag="IC759_00815"
     CDS             complement(4164..4313)
                     /locus_tag="IC759_RS00820"
                     /old_locus_tag="IC759_00815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            4884..5042
                     /locus_tag="IC759_RS25525"
     CDS             4884..5042
                     /locus_tag="IC759_RS25525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     Typing          complement(4349..4522)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          4446..5051
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggcatgggg ttttttctgg gggctgctcc cgaaacctcg ctctcggtgc tggcgcggtt
       61 cgatgaattg cggctgcgct tcgatttgcc ggtgcttctg tctgtttcgc gcaaatcctt
      121 tctgcgcgcg ctcacaggcc gtggtccggg ggatgtcggg gccgcgacac tcgctgcaga
      181 gcttgccgcc gccgcaggtg gagctgactt catccgcaca cacgagccgc gccccttgcg
      241 cgacgggctg gcggtattgg cggcgctgaa agaaaccgca agaattcgtt aactgcacat
      301 tcgggatatt tctctatatt cgcggttcag caggcatgtc ccctttgagg gcgacccgac
      361 gacaggataa tcgaccttat ggtgcgcaaa tatttcggca cagacggtat tcgtggcaaa
      421 gccaacgaag gcgcgatgac ggcggaaacc gccttgcgcg tcggcatggc ggctggccgt
      481 gtctttcgtc gcggtgacca ccgccatcgt gtcgtgatcg gcaaggatac gcgcctgtcg
      541 ggctatatgc ttgaacccgc gctcacagcc ggtttcacct cgatgggcat ggacgtattc
      601 ctttttggcc cgctgccgac aacgtatagg aagaataaac gcccttttca cccaagtcca
      661 acagctttgg accgcagttg actctttcga cacccctgcg atgcaaccca atccggctga
      721 cggggagcca gcaacgctga aaatttaccc tcctctttcc cactagcggc tccttttccg
      781 acaaccagca cggcggatcc ctgccgcggc gctgtgaacg cagcattttg attggtatcg
      841 ttggccttca ggctcgtcag tcaaacagac ccaggagcag ctcagccggt ggcgcccggc
      901 tttcgggtaa cgccctggtc ccgctggttt cggctttgtg cttcaggtga tcaaggatct
      961 gcttgatcac tatagggtct tcaatgcagg cgatgacttt catggcgccg ccgcagccgc
     1021 tgcaggtctc gatgtcgata ttgaaaacac gcttgagccg ttgcgcccat gtcatcgacg
     1081 ctcgccgttg tgctggtgtt gccggttcat cagccaccct gaccttgttg cccctgcccc
     1141 gttttgccgg cgtgaccaac gcccggtgcc gactgttggg tgcgaacacc ccgtggaagc
     1201 gggttaggtt gactctgggc ttcggtacca gggcggccag ccttgcaatg aaatccaatg
     1261 gttcgaaaat gacgtgcgtg gtgccgtccc ggtacggcgt cttgagctgg tagcgcacgt
     1321 tgccgcctcg tgttaacgac agccgcttct cggataccgc cgggcggctg atgtaccggc
     1381 acagccgttc gagcttcttg cgttcatcgg ccctggccgc cacgccggcg tgcaggctgg
     1441 acccggctac cttgccaatc ccgtcaccga acggatcacc actggtcggc agagtttgca
     1501 aagtgaacac ctttcgcccc gcctgtgaac cgacagcgat acggtaagtg atcgagtgcc
     1561 ccagcagggg tgtcatcggg tcgtcatcca ccgcatccga ggccagatag ctgttttcga
     1621 catcccgttc cagcaggcct tgccgttcca gatagcgacc cacccggtgg gcgatggtgt
     1681 gcgtcagctg ggtgagctct gggctggtcg gcgccttgac ccagcggaaa cgcgctgagc
     1741 cgtgggattg ctcgacatac acaccgtcga gaaacagcat gtggaagtga acattcagat
     1801 tgagcgccga tccaaaacgc tggatcaggg tgaccgcgcc cgtcttggcc acttggtggg
     1861 tatggcccgc tttcttgacc aggtgcgtgg caatgacgcg gtaaacgatg cccagcaccc
     1921 accccatgat ctcgggccgg ctggcaaaca ggaaacgcag ctgaaacggg aagctcaaca
     1981 cccactgacg catgggttgt tcaggcagta cttcatcaac cagcaaggcg gcactttcgg
     2041 ccatccgccg cgccccacag ctcgggcaga aaccgcgacg cttacagctg aaagcgacca
     2101 ggtgctcggc gtggcaagac tcgcagcgaa cccgtagaaa gccatgctcc agccgcccgc
     2161 attggagaaa ttcttcaaat tcccgttgca catagcccgg caattccttt ccctgctctg
     2221 ccataagcgc agcgaatgcc gggtaatact cgtcaacgat ctgatagaga agggtttgct
     2281 cgggtcggtg gctctggtaa cgaccagtat cccgatcccg gctggccgtc ctggccgcca
     2341 catgaggcat gttccgcgtc cttgcaatac tgtgtttaca tacagtctat cgcttagcgg
     2401 aaagttcttt taccctcagc cgaaatgcct gccgttgcta gacattgcca gccagtgccc
     2461 gtcactccca ctcttacatt gttcgcagta tctaggtaca tgttattgcg tgcaccttca
     2521 tgatgtataa tgttattaat gacagcagaa agatcgacag aattaatatt cttcgtacct
     2581 gggacagtta tcgggtgtcg gccagtgatg agaccaaagg atgcagtata agatgaacca
     2641 ctactattat catggccacc attaccacca ccgttaaaac tacctcccga acttccagag
     2701 ccgctatgac catcattgta ggggtcattt ggtcccatgt gaccaaaacc accgacagta
     2761 ccgctattta actctgtact cataaaatta tcctctttga cttttaaaaa cagcaaaaac
     2821 tgtatttata acaatgtgtt tatatacagt attcgaaata ctacgcccgt caaaaccaca
     2881 ccgtcaacag gttttttgtg tatttttcac gcctcacggg cagcctcaga ccttttgtgt
     2941 taaaacagta atatgttctg ctgttacaat acggtacaca caggagacac tgtcactttt
     3001 atggcatggc acacagttca agagacactg aaattaacag gaaagtcgcg ctcgcaatta
     3061 tatcgtgaca tggctaaagg ccttgtcagc tatcgcacag gaaaaaatga tcgccgggag
     3121 ttcgagacca gtgaactgat tcgggcctat ggcgagctgc gcacttctga gacaccaaaa
     3181 aggcacaagg agggacactc caaatctgtc gttagccagg cggaaaatgc tcagctagac
     3241 gtcattcagc agaaactgga cgctctgcag cagactgtta ccctaatgct tgaagacaag
     3301 atggcgcggg aagcagaaaa ccgcctgcga aatgaggaga gggaacaact acaggccgaa
     3361 attagccgtc tggctgacgc gctggcacag gaaaaaaagc ggggattctg gtcgcggctg
     3421 tttcgctccg gttcagagta acagtgcagg tgactctgat ttaccataac atctgttatc
     3481 agcaccgcct gagaggccct cagggcgttt ctgacgggaa accggtaaaa caggcaacaa
     3541 accacccgaa aacccgccag aaacgcgcag gctctgtttt tacggcatgc atgagtatgc
     3601 gcacaagtgc atagcgcgga aattcacacc attcagccgg ggtaagtcct gtttccggcg
     3661 ttcttcccat ccgaaaacgg tgaacgggga cgcaatttat tgcgtggccg tgaagcgttg
     3721 ccggcgcagc cggaaaaccc gctgtcagca cgttcaggaa gggggtgatg tacaaatggc
     3781 acagaggatg aaagtgacgt atgagctgaa ggaatgatgt aaaagtgatg tatgaactga
     3841 aggagcgatg taattctgta gtcaggaaga ataacccgtt catgcaggca tgaacgatac
     3901 agtgaggaac gctttttttg tcacgatctc cccttaacct gcgtaaatca cccgccatgg
     3961 ttgattattt ttcaacctca aaatggtcat acacctaacg cagccgcgat tttcatcgca
     4021 actgcatgaa ttaaaagaaa aaaaaggaat atttcgtttt cacgagtaat acccgggtat
     4081 taaaaatcca ctgtaattac atgaaaataa agaaataaaa ggtaataccg gagtattacc
     4141 acgtacgcgg gcaagcgaaa aagctataac gcttcccggc cgacaggcga cccaaaatcc
     4201 acaggggcat gcaggttctc ttcagtaacc tgcgccatta aatcaaaaag gtcatattcg
     4261 ccgggaagct gcgtatcagt cgaatccagt tgttcatcat attcagatgg catggggtga
     4321 tatccagtag ctgagaggtt gttagcgggt ttcggggcgc agccctgaac cagtcatgta
     4381 gcgctagcgg agtgtatact ggcttactat gttgccacga ttgcgaaaat cagtgaagtg
     4441 cttcatgtgg caggagaaaa aaggcagcac cggcgcgtca gcagaatatg cgatacagga
     4501 gatattccgc ttcctcgctc actgactcgc tacgctcggt cgttcggctg cggcgagcgg
     4561 taccggctta cggacgggga cggaaatttc ctggaagata ccaggaagac acttagcaaa
     4621 gaagagataa ggccacggcg aagccgtttt tccataggct ccgcccccct gacaagcatc
     4681 gcaaaatctg acgctcaaat cagtggtggc gaaacccgac aggactataa agatcccagg
     4741 cgtttccccc tggtagctcc ctcgtgcgct ctcctgttcc tgcctttcgg tttaccggtg
     4801 tcattccgct gttatggccg cggtttctca ttccacgcct gacactcagt tccgtgaagg
     4861 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac cgctgcgcct
     4921 tgtccggtaa ctatcaactt gagtccaacc cggaaagaca cgacaaaacg ccactggcag
     4981 cagccattag taacaggagt gcacgagaag atagattaag aggtcttgaa gtagaggcct
     5041 gactgcggct acactgaaag aacagttttg gtaatggcgg tctcgtgaac cctgttaccg
     5101 ggttaagcag ttccccaact gacttaacct tcgaacaaac cgcctcccca ggcggttttt
     5161 tcgtttacag agcaagagat tacgattcat tgaaaaggat ctcaagaaga tcctttgtag
     5221 attactatca attaatcttc cgaacatgac accagtcact gttgattacg gttaaaccgc
     5281 tccgtaacag gtttccctcg tattggtgac ttgcagcacc aaagaagcaa aaaagataaa
     5341 tatatctact tattgagaga tgatatattt atttccaaaa tgctacagat acatcatcat
     5401 gaaacggatc accgcaaaca ggttactcgc ctggggattc cctttcgacc cgagcatccg
     5461 tatgagactc atgctcgatt attattatta tagaagcccc catgaataaa tcgctcatca
     5521 ttttcggcat cgtcaacata acctcggaca gtttctccga tggaggccgg tatctggcgc
     5581 cagacgcagc cattgcgcag gcgcgtaagc tgatggccga gggggcagat gtgatcgacc
     5641 tcggtccggc atccagcaat cccgacgccg cgcctgtttc gtccgacaca gaaatcgcgc
     5701 gtatcgcgcc ggtgctggac gcgctcaagg cagatggcat tcccgtctcg ctcgacagtt
     5761 atcaacccgc gacgcaagcc tatgccttgt cgcgtggtgt ggcctatctc aatgatattc
     5821 gcggttttcc agacgctgcg ttctatccgc aattggcgaa atcatctgcc aaactcgtcg
     5881 ttatgcattc ggtgcaagac gggcaggcag atcggcgcga ggcacccgct ggcgacatca
     5941 tggatcacat tgcggcgttc tttgacgcgc gcatcgcggc gctgacgggt gccggtatca
     6001 aacgcaaccg ccttgtcctt gatcc
//
