LOCUS       NZ_CP100681             4072 bp    DNA     circular CON 23-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Anatum strain R17.0809
            plasmid pR17.0809_4.1k, complete sequence.
ACCESSION   NZ_CP100681
VERSION     NZ_CP100681.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29431218
            Assembly: GCF_024266145.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Anatum
  ORGANISM  Salmonella enterica subsp. enterica serovar Anatum
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Chiou,cs., Chen,bh., Wang,yw. and Teng,R.H.
  TITLE     28 Salmonella enterica strains that have azithromycin resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Chiou,cs., Chen,bh., Wang,yw. and Teng,R.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-JUN-2022) 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                   :: unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 212x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/23/2023 01:58:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,685
            CDSs (total)                      :: 4,570
            Genes (coding)                    :: 4,469
            CDSs (with protein)               :: 4,469
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 101
            CDSs (without protein)            :: 101
            Pseudo Genes (ambiguous residues) :: 0 of 101
            Pseudo Genes (frameshifted)       :: 43 of 101
            Pseudo Genes (incomplete)         :: 74 of 101
            Pseudo Genes (internal stop)      :: 15 of 101
            Pseudo Genes (multiple problems)  :: 28 of 101
            Pseudo Genes (short protein)      :: 1 of 101
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100681.1.
            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..4072
                     /organism="Salmonella enterica subsp. enterica serovar
                     Anatum"
                     /mol_type="genomic DNA"
                     /strain="R17.0809"
                     /serovar="Anatum"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:58712"
                     /plasmid="pR17.0809_4.1k"
                     /geo_loc_name="Taiwan: Taipei City"
                     /collection_date="2017"
                     /collected_by="Centers of Disease Control, Taiwan"
                     /subtype="ST64"
     gene            join(4067..4072,1..687)
                     /locus_tag="NL708_RS23405"
                     /old_locus_tag="NL708_23405"
     CDS             join(4067..4072,1..687)
                     /locus_tag="NL708_RS23405"
                     /old_locus_tag="NL708_23405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(943..3102)
                     /gene="mobQ"
                     /locus_tag="NL708_RS23410"
                     /old_locus_tag="NL708_23410"
     CDS             complement(943..3102)
                     /gene="mobQ"
                     /locus_tag="NL708_RS23410"
                     /old_locus_tag="NL708_23410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            3281..3535
                     /gene="mobC"
                     /locus_tag="NL708_RS23415"
                     /old_locus_tag="NL708_23415"
     CDS             3281..3535
                     /gene="mobC"
                     /locus_tag="NL708_RS23415"
                     /old_locus_tag="NL708_23415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(2745..3103)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          3104..3280
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2..687
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.93"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(947..3189)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gacttgattg cctacaagtc gaatgctttg gttgaggcca gctacaagtt gaccctacag
       61 gaacaacgtt ttctgttgct gtgtatcagt cgattgaaat ctggtgctga tgctgaattg
      121 caaaagacaa tgaccattac cgctgcggaa tattttgatt cattccctga catggggcgg
      181 aaaaatgccg aggttcagtt acaggaagcg atcgatcgtt tatgggacag gtcgatcatt
      241 ctcaagaatg acgagaagcg tgaggagttc cgctggatcc agtatcgggc acagtacgct
      301 aaaggtgagg ccaaggctcg aataaccttt tctgacgcgg taatgcctta tctgacgcaa
      361 ctgaaggggc aattcacgcg cgttgttata aaaaacatat caggtttatc aagtagttac
      421 agtataagaa tatacgagtt cctccagcaa ttccgcagta cgggagagag aattattgct
      481 cttaatgact ttcgttcaat gttagggatt gaaaataaat acaaacaatt cagagactta
      541 aataaaatac taataaaacc ctgtgttgac gaactgaaca aaaaaagcga cctggctgta
      601 acggttgaga cgatcaaaaa ggggcgcacg gttgtagccc tgcattttcg cttcaaggaa
      661 gacaaacaga tcaagatgac gatctaaaat cgattttaag gcacctaaaa cgctccctgc
      721 tgcgtttttt ttgtgttagt agtgcgaagg tactattgaa gtgaaaaatt gcgtcaaaag
      781 cgctctaatg cagcgaaaaa agaaccccca atttttgggg gcggaaaaac aaaactatgc
      841 ttgcattatg tgtgtgcttc ttgcattcat ccctgtcgat gaacatagaa gaacatcgac
      901 gaacataaca cgatgttaaa caaaacaaaa tattgttcac attcactgtg accaaccgcg
      961 atcatgtctc ctctcggtgg tgtgtgttct tgcatcttcc tcgcgccgcc attcatccca
     1021 ggtacgattg aaacccagag agcggaacag atgatccggc tgtttttctg gtgtgttgac
     1081 ggcagcaaaa agcggtgcct cacgggtttt cagatgaaac tccataagtt ccggcgcagg
     1141 tgatatgtgg ctgtctgcat cgtgatttac ggcaacacca taccctgcat accgtaaccc
     1201 cttatcggtc agtgcactga tgaccagctg gctgttatcg gctgagggaa cggcaaacgc
     1261 gggatacagc gtaccattaa gccggacaac accgcccaga gagtcatcca cgcccatgac
     1321 cagcaaaagc tgaagctggc gggtttcccg gtcgacagaa ctcattaccg gcatcagcgt
     1381 cggtagcaga cgtccctgcg taaaatccac cttccttgct gccagtgatg gcatggctgg
     1441 ctggcggtct tctccaagac agaaagactc cggccatgtc ttcggctggc ggagattgcg
     1501 ggtatattgc ggccatgtct ggcaaacctg cgtcagaagt tgctcaaagg tcgcagagga
     1561 ataaacacgt tgcagtggtg gatgttgacc gatttcgctt cggtcacaga tataaccact
     1621 cctgtcacgc attaaatcaa cacgctcaaa gattctggtg cggtatttct ccagctcgtt
     1681 cccccagagc gtgtattctc cgttccggtt gtgaagcaga aggtaacagg tcatttcccc
     1741 gttaccaggc atgggggcct cgccataccc cgtaacgact gcgctcagta cccctgaatc
     1801 cataacggca ttgtcatttt tcctgagctg ttccgctcgt cgctccgcgc gactacgttc
     1861 tgtatcctcc tgctccttcc ggcgcaattc ctcttcacgt ttaagcaact ggactctgag
     1921 agctgcaagg ccggatgccc cccactgctg ccactgtttt tcaaatgccg tctgactcgc
     1981 gggaatgtcc tgtttctcca ccttccggta atgctgtcgc aatttttcca tttgctggct
     2041 cagcgactgg atttttccct gttcgctacg gtattccggt gccgcccatt gcatcagggg
     2101 aatacgggaa aaaccggacg aaaacggcga tgattttttc aggctggcag catggctcat
     2161 cgcttccttt cgttcggtgt tcagctcttc ccagcgtctg cgcgtcgcct gcatatctgc
     2221 catcatcgac atggcattac tggtgagttt ccatgccgca ttactgtcct tcggcaacgc
     2281 ttcgatgatg tcacgtagtg tgtacgaagt tgcgttgtca ggaagcacga tattcagaag
     2341 gtcagccaca cggcgggcag gctctgtcag cccgctgttc ctgagttcag tgcgggaaat
     2401 ctgtatttcc aggttaagcc tgttaatcag acgattctgt tcgccgcgtt ctgtttcgat
     2461 accgcgtgtt tccatcgcac aggcagactt tccgaggtga ataccaggcg ttttctcaag
     2521 cccctgtcgc tcgtatgaac gatggtctat ctcttcctga taaccggcgt tcgccagtgc
     2581 tctgtttgca tggtcagccc atgatgcacg ccacgtctcg gcatgtgtcc ggtcgttcca
     2641 gtccctgacc tttccgccga acccagcagg tccgacagcc ctcgtggtca gcatgatgtg
     2701 cgcatgggga tttgttttat ccatgtgatg gaacgccaca tcagcaatca tgccctgact
     2761 gacaaagttt tctctgacaa aggcgagaac ggtttcccgt gcggcatcct gcggcagttc
     2821 acgggggata gcgagttcaa tttcccgcgc aagttgtgag ttcttccggc attcggcctt
     2881 ctcaacggca ttccagagtt cggcacggtt cgtacaccag gcaggggctg tcgcgggggt
     2941 cagaatcaca gcttcagcca caccgctttt gcgggtgtag tcgtgagtca gtccggtacg
     3001 ctcatcaagc atcagtgaac cggaacgata ggcagcggaa gctacggcgc tgtagccgct
     3061 gcttctggag ataattttca tgctgagatg ataaatcgcc atttctgccg taatgccttt
     3121 ttgtagtttt ctttcagccc cgcagggcgc acacaatcga aacggagtgg agattgtata
     3181 agtgcgcact ttgtgatttg tcgcgcatta tgccagctca gtttttaaac taccagtgac
     3241 gcgctaaaat gcgatttttc atcgcgcacg gagttacatc atgagcagaa cgctcgaaca
     3301 gaagattgct gatgctgagg cgagattaca gcgcctgaag gcgaagagcc ggagcctgga
     3361 cacagcgcag aaggttgttg tgggtgcagc attgctggca aaggtcagaa agccggagga
     3421 ggtgcagttg cgtgcctggt tactccagtt cctgaaggca gaggtgacac gacaggctga
     3481 tgtgacgcgc atactgccgc tgattaacga gctggaggcg ctgccaggac agtgattgta
     3541 tcgtccgctc gccgcagccc cagcgaccga gcgttagcga gcgagtgggc gaggaagcgg
     3601 aagtgaatcc gtcgccaggt tgagcacata cgcacggttt ttcggtaggt gatatgcgct
     3661 gaacccgcat gaatactgga tttccacagg gttggaaggg gagtattcgg aacttgcaat
     3721 tctgctttct tgcaacacat tgtttttatt ggttttttgt tttcagcgcc ccaagttatc
     3781 cacaggctcg ccgttaagtt tttagatctt gtttttaaga tcttgttttt aatacttgtt
     3841 ttagggtcaa aattcattaa taaaatcaat atgttataga ggtatatgtg gaggaattta
     3901 aggtaaaggt ggaggaattt aaggtgttta ggtggaggaa tttaaggtaa aggtggagga
     3961 atttaaggtg ttattcacag aaatgtgagg atataaaaaa aaatattcca catttcttat
     4021 ttgtggggca cattaaagca tcaccacatt tgaacgggat ctttgtatgt cg
//
