LOCUS       NZ_CP082934             5631 bp    DNA     circular CON 01-NOV-2023
DEFINITION  Salmonella enterica subsp. enterica serovar London isolate N18-04674
            plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP082934
VERSION     NZ_CP082934.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20990803
            Assembly: GCF_025643195.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar London
  ORGANISM  Salmonella enterica subsp. enterica serovar London
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5631)
  AUTHORS   Bharat,A.
  TITLE     Importation of an OXA-48-Harbouring Salmonella enterica Serovar
            London into Canada
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5631)
  AUTHORS   Bharat,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-SEP-2021) Wastewater and Antimicrobial Resistance
            Division, Public Health Agency of Canada, 1015 Arlington St,
            Winnipeg, MB R3E3R2, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 18-JAN-2020
            Assembly Method                   :: Unicycler v. 2020-01-18
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 79.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/01/2023 03:17:10
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,799
            CDSs (total)                      :: 4,683
            Genes (coding)                    :: 4,524
            CDSs (with protein)               :: 4,524
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 70 of 159
            Pseudo Genes (incomplete)         :: 118 of 159
            Pseudo Genes (internal stop)      :: 30 of 159
            Pseudo Genes (multiple problems)  :: 49 of 159
            Pseudo Genes (short protein)      :: 1 of 159
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082934.1.
            Bacteria and source DNA available from Salmonella London submitted
            to Public Health Agency of Canada.
            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..5631
                     /organism="Salmonella enterica subsp. enterica serovar
                     London"
                     /mol_type="genomic DNA"
                     /serovar="London"
                     /isolate="N18-04674"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:149390"
                     /plasmid="unnamed4"
                     /geo_loc_name="Canada"
                     /lat_lon="49.89 N 97.13 W"
                     /collection_date="2018"
                     /collected_by="Public Health Agency of Canada"
                     /genotype="OXA-48"
     gene            join(5406..5631,1..98)
                     /locus_tag="K6991_RS23905"
                     /old_locus_tag="K6991_23780"
     CDS             join(5406..5631,1..98)
                     /locus_tag="K6991_RS23905"
                     /old_locus_tag="K6991_23780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            307..>738
                     /locus_tag="K6991_RS23910"
                     /pseudo=""
     CDS             307..>738
                     /locus_tag="K6991_RS23910"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            776..1306
                     /locus_tag="K6991_RS23915"
                     /old_locus_tag="K6991_23790"
     CDS             776..1306
                     /locus_tag="K6991_RS23915"
                     /old_locus_tag="K6991_23790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            1313..1546
                     /locus_tag="K6991_RS23920"
                     /old_locus_tag="K6991_23795"
     CDS             1313..1546
                     /locus_tag="K6991_RS23920"
                     /old_locus_tag="K6991_23795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2027..3079
                     /locus_tag="K6991_RS23925"
                     /old_locus_tag="K6991_23800"
     CDS             2027..3079
                     /locus_tag="K6991_RS23925"
                     /old_locus_tag="K6991_23800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053269.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFWRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            3081..3947
                     /locus_tag="K6991_RS23930"
                     /old_locus_tag="K6991_23805"
     CDS             3081..3947
                     /locus_tag="K6991_RS23930"
                     /old_locus_tag="K6991_23805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_263258482.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIHLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            4807..5127
                     /locus_tag="K6991_RS23935"
                     /old_locus_tag="K6991_23810"
     CDS             4807..5127
                     /locus_tag="K6991_RS23935"
                     /old_locus_tag="K6991_23810"
                     /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_187655770.1"
                     /translation="MDNRVSVFEKGESARRSRTTERSESVSEEAEERLNWHFLLTHLCG
                     ISHRTWRTFHTIRTDAEWLSQYTLRYRYVTGSGLRPDTPKVNGLTRPGGLVCSRHPLTD
                     KL"
                     /name="hypothetical protein"
     gene            complement(5150..5341)
                     /locus_tag="K6991_RS23940"
                     /old_locus_tag="K6991_23815"
     CDS             complement(5150..5341)
                     /locus_tag="K6991_RS23940"
                     /old_locus_tag="K6991_23815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4975..5056
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          4331..4518
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          89..1650
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          5374..5630
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="99.0"
                     /evalue="2.48e-49"
ORIGIN
        1 accgggttca ggtggtggcc gcactgatgg ccatcgggga tgagctgcgc cggctgcgtc
       61 tggcggtcag ggaacagggg gcgcgggatg atagttaagt ttcatgccag gggaaaaggt
      121 ggtggcagtg gtccggttga ttacctgctg ggaagggagc gtaaccggga aggggcaacg
      181 gtgcttcagg ggaatccgga agaggtccgg gaactcatcg atgccacgcc atttgcgaag
      241 aaatacacgt caggtgttct gtcgttcgcg gagaaggagc tgccgcctgg agggcgtgaa
      301 aaagtgatgg cgagctttga gcgtgtactg atgcccggtc tcgagaaaaa tcagtacagc
      361 atcctgtggg tggagcacca ggacaaggga cggcttgagc tgaattttgt cattccgaac
      421 atggagctac agaccggaaa acgcctccag ccgtactacg accgggcaga caggccgaga
      481 attgatgcct ggcagacgct ggtgaatcac cattacggtc tgcatgaccc caacgccccg
      541 gagaaccgcc ggacgctgac ccttcctgat aacctgccgg aaacgaaaca ggcgcttgct
      601 gagggcgtca cacgcgggat agacgcgctt taccatgccg gagagataaa aggccgtcag
      661 gatgtgattc aggcgctcac agaggcgggg cttgaagtgg tcagggtgac gcgaagcagt
      721 atcagcattg cagacccgaa cggcgggagg aatatcagac tgaaaggagc gttttatgag
      781 caatctttta cagacgggcg cggagttcga gaaaaagctg aaagagagag ccgaatctac
      841 agagaaaatg ctgaacgacg agttcaggaa gctcgaagaa tctgtaaaca gggaactgac
      901 ctcaaacgaa tctttaatca ggaacgctat caacgaccat acaacagccc tgaaagaact
      961 gctggagagg tatcagaaaa cgaccgtcga tacgatggac gcgcactgga aaaccgtact
     1021 gaaaatgagc gtgaaacgct ggctgtggct gattatcgtc tcagtactga tgtttgccac
     1081 gaccgggagt ctgctgtggt accagggcat gaagataaac gcgaatatga atattctccg
     1141 cgagcagaaa gagagtctgg agaagctgaa cgcgaagaca tggggcgtgc gttatcacga
     1201 ggacagcaac ggacgttttc tggtgttgcc gaaggggatg aaagccgaaa cgaactggac
     1261 gaaggacaac ggcaaactga acgcagtgag actggtgcag gagtgacaga gcatgacgga
     1321 gctggaaaga catttgctga acgcattaga gcaactgcaa caggactata tgcagcggct
     1381 gaacgaatgg gagaacgcct tcgtggaatt gcagaaaatg ttttcgctta cgcaacggga
     1441 caacgcgatg ctgaacgggc gagtcatgca gttgagtcag caggtgcagc acttgagcga
     1501 gcggacagaa cgcttgagcc agttatacag cgagaacagg agataaggga tgaacggctg
     1561 atgcaggaac gcgaacatga gttatctctg gagcgggagc gtcagccgga aatccaggag
     1621 cggacactgg atggcccttc gctgggatgg tgaaaccatg aaaaatgacg tgttcagtgg
     1681 attaaggcgg gctaatgtgg cctgtagcat ctggttgcat aggtattcat gcggttaaaa
     1741 tttatcaggt gcgatcgcgg cagtttttcg ggtggtttgt tgccattttt acctgtctgc
     1801 tgccgtgatc gcaccgaacg cgttttggcg gtgcgtacaa tgcgacgtta tggtaaatgg
     1861 agcggatttt caggaaggag tgatactaac aactcgaaca ctgtgcaaat aatgattttt
     1921 ttaaaatatc ggtaacgata ataaattatt tcgttttacg ccggtaataa atataatgta
     1981 gtttcagtat ataaaaaaat atatgaggtg tcttgtggga gctttcatga atcttcaaca
     2041 acgtataaat aaactaccac aattatcatc cagtttttca tttggaaaag atattgataa
     2101 tattcattca tttatcttta acgaaacttc taaagataaa attgaagatt tactaagaaa
     2161 atgggtgtca ggcaatcagc cctgtgtatt tggtaaattg gcaagcaaga aaattaaagg
     2221 gcttgatttc catttatcta ttgtaaatag cccccaacta tataatgatg atggtcattt
     2281 gtttgatttt tggcgtaatg aaagagttcg ttttaaagaa cgcgcaagaa gaggagaggt
     2341 cagtgcgcat ctcatttatt ttattcatcc acaacttgcc tttgctcgtc catcagaaga
     2401 gttagtggac atacaaaaat atatttgttc gctgcatatg ccagagtgct atccaataaa
     2461 agaggatgtt atttatactg aaagcgtacc atttcaggat aaagatgggc taaaaatata
     2521 taaggctggt gttaatgttt tttactcttc tgctcataga acaagaaatc atgatagaag
     2581 aataccaggg ggaatactta tttctgtaaa tgccccgggg cattttatga ggctggcgat
     2641 agaaaaaggt ttctataaag atcaagaaca agcgttagcg gatattcgta acatgactat
     2701 tcagtctgtt ggtaagggtg ggtattcaca tccggaaggg atttctacaa catggcattc
     2761 agaatctaat ttggatcgtt ttggatgccc agtgcacacc ggtaatagtt cttattacag
     2821 cggtttttat catactgatg tattaattcc aggagaatta actaaggatg aaagattgct
     2881 ccatgaaata gaaaatagtg atccaatgat cttcaactgg aatgtattgt tttatgtttc
     2941 attagaagag tttcctatag atgatcctta ttatggagag tttattggta ttcctgtaga
     3001 tgatgcatct atgtttttta actcctttca accaaggaaa tttgaaaaca aaccccttta
     3061 tgagaaagag gatgattaat atgattaaag gaatgctttt tgctttttta gcagcgttct
     3121 catggggggc agctatcgta atgagcaaaa aaggagttga agaactagat gccggagggg
     3181 tgtttttctg gcagatttgt agtgcagtaa tactatcttg gatagttctt tttataaaaa
     3241 gaaaaaaact cccattaaac tcaaaagcga tacttgctta tgcgacaggc gtttttgaac
     3301 cattcttagc gtatactttt acactctacg gactttattt tatttcagca ggaagcgcat
     3361 caattatttt ttcacttgaa tcagtgttta tattggtgtt gtctgttctt atttgctcag
     3421 ttaaaattaa ttccccgcaa tattttatat tgttccttat aggtgcaatt gttggcagta
     3481 ttttggtagc cttgccagac atcagtaatg gatcgaataa tattgttgga tattgtcttg
     3541 ttgttgccgg tgtgttatcg gcagcatttt atgttgttat atcgtctcgc cttattaaat
     3601 cgtttgagcc tatcacatta ttgagcggac agttgacatt ctcccttata ctgtcatcgc
     3661 tctttatttt tatatctaaa tcatcaattc atcttccgtt ggaatccgtg attattgttt
     3721 tttcatctgg aatattacaa tattttttag ctttttgttt ttacttgaac tccttgcgtt
     3781 ggctcccagt tcatttggca gggataatgt tgtactttat tccgctagtt gcattatttt
     3841 tgtcatggtt gtttttggat gaacaattca cattcttaca gggggtagga tttattgtaa
     3901 ctgtgctaag tgtatatttt cttaacagaa aatactcaga ggagtaacat tctgttcagg
     3961 attgcccccc ggcctccatc gataccgtgc caaatgcacg taaaaaacgg gagcgtttct
     4021 ggtgtcggaa tgtaaccaag ggggtcagag gcgcgctaaa acgctctcag gggagtcaaa
     4081 tagagacgtt tgtaacaaaa agatcaaagg atcctcttga gatccttttt ttctgcgcgt
     4141 aatctgctgc ctgtaaacga aaaaaccgcc ttgcagggcg gtttgatcga aggttaagtc
     4201 agcttgcaga ctgcttaacc aggtaactgt cttatgcgag acgagtcacc aaaattgttc
     4261 ttctagtgta gccgcactcc ggcagccact tcaagtactc tctaaatatc tcgcacatga
     4321 cttttaccaa tggctgctgc cagtggcgct ttgtggtgtc ttttccgggt tggacccaag
     4381 agaacagtta ccggagaagg cgcagcagtc gggctgaacg gggggttcct gcatacagcc
     4441 cagcccggag cgaactgcct aagtcgcccc gagataccag aagacgtgag ctatgagaaa
     4501 gcgccacgtg tcccgtaagg gagaaaggcg gaaaaggtat ccggtaatcg atatggcggg
     4561 aacgtggggg cgcaggaggg agcgattcac cggaaacggt gatgatcttt aagccacgtc
     4621 gggtttcgcc accgctggcg gatttcatgg ttgagccgca aggctcccac agatgcaccg
     4681 aaaaagtgtc tgttttgtga agtccgtcag gggggcggag cctatggaaa aagcgcctcc
     4741 ggcgcggcct ttcccggggt ttcgtttttt gcgcacatgt tctttcctgg tttatccccg
     4801 ggttctgtgg ataacagggt tagcgttttt gagaaaggag agtccgctcg ccgcagccga
     4861 acgaccgagc gtagcgagtc agtgagcgag gaagcggaag agcgcctgaa ctggcatttt
     4921 ctccttacgc atctgtgcgg catttcacac cggacatggc gcacttttca tacaatccgc
     4981 actgatgccg aatggttaag ccagtataca ctccgctatc gctacgtgac tgggtcaggg
     5041 cttcgccccg acaccccaaa ggtcaacggc ctgacgcgcc ctggcgggct tgtctgctcc
     5101 cggcatccgc tcacagacaa gctgtgaccg tctccgggag ctgcatgtgt cagcggtttt
     5161 caccgtcatc cccgaagcgt gcgaggcaac tgcggtaaag ctcatcggcg tggtcgtgaa
     5221 gcgattcaca gatgtctgcc tgttcatccg cgtccagttc gttgagcttc tccagcagcg
     5281 ttaatgtctg gcctctgatg aagcgggcca tgttaagggc ggttttttcc tgtttggtca
     5341 ctgatgcctc cgtgtaaggg ggggttctgt tcatgggggt aatgataccg atgaaacgcg
     5401 agaggatgct cacgatacgg gttactgatg atgaacatgc ccggttactg gaacgctgtg
     5461 agggtaaaca actggcggta tggatgcggc gggtctgcct gggtgagccg gttgcccgtt
     5521 ccgggaagct gccgacactg gcaccgccgt tactgcgtca gctggccgcc atcgggaata
     5581 accttaacca gacagcgagg aaggtgaaca gcgggcagtg gtcttccggt g
//
