LOCUS       CP082495                3371 bp    DNA     circular BCT 12-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Uganda var. 15+ strain
            FSIS1607821 plasmid pF18S019-3371, complete sequence.
ACCESSION   CP082495
VERSION     CP082495.1
DBLINK      BioProject: PRJNA292666
            BioSample: SAMN05900930
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Uganda var. 15+
  ORGANISM  Salmonella enterica subsp. enterica serovar Uganda var. 15+
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3371)
  AUTHORS   Li,C., Tyson,G.H., Hsu,C.H., Harrison,L., Strain,E., Tran,T.T.,
            Tillman,G.E., Dessai,U., McDermott,P.F. and Zhao,S.
  TITLE     Long-Read Sequencing Reveals Evolution and Acquisition of
            Antimicrobial Resistance and Virulence Genes in Salmonella enterica
  JOURNAL   Front Microbiol 12, 777817 (2021)
   PUBMED   34867920
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3371)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (23-JUL-2018) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 3371)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-AUG-2021) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-JUN-2020
            Assembly Method :: SMRTLink Microbial Assembly v. SMRTLink9.0
            Assembly Name                     :: F18S019
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 484x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/02/2021 19:12:38
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,109
            CDSs (total)                      :: 4,988
            Genes (coding)                    :: 4,809
            CDSs (with protein)               :: 4,809
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 179
            CDSs (without protein)            :: 179
            Pseudo Genes (ambiguous residues) :: 0 of 179
            Pseudo Genes (frameshifted)       :: 62 of 179
            Pseudo Genes (incomplete)         :: 120 of 179
            Pseudo Genes (internal stop)      :: 23 of 179
            Pseudo Genes (multiple problems)  :: 23 of 179
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..3371
                     /organism="Salmonella enterica subsp. enterica serovar
                     Uganda var. 15+"
                     /mol_type="genomic DNA"
                     /strain="FSIS1607821"
                     /serovar="Uganda var. 15+"
                     /isolation_source="Animal-Turkey-Young Turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:2724876"
                     /plasmid="pF18S019-3371"
                     /geo_loc_name="USA:MN"
                     /collection_date="2016"
                     /collected_by="USDA-FSIS"
     gene            complement(1282..1473)
                     /locus_tag="BKI78_025525"
     CDS             complement(1282..1473)
                     /locus_tag="BKI78_025525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="UAE60185.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1537..1860
                     /locus_tag="BKI78_025530"
     CDS             1537..1860
                     /locus_tag="BKI78_025530"
                     /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="UAE60186.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1850..2569
                     /locus_tag="BKI78_025535"
                     /pseudo=""
     CDS             1850..2569
                     /locus_tag="BKI78_025535"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; 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            2538..3098
                     /locus_tag="BKI78_025540"
     CDS             2538..3098
                     /locus_tag="BKI78_025540"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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="UAE60183.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            3105..3338
                     /locus_tag="BKI78_025545"
     CDS             3105..3338
                     /locus_tag="BKI78_025545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /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="UAE60184.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          1118..1201
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          1851..3355
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.219"
                     /coverage="95.0"
                     /evalue="0.0"
ORIGIN
        1 aggtacagga acgcgcggca cgggttcgga gtgggccatc aatggagatg tgaccgggga
       61 agtgacgaaa tcttgccatt ttgaccagtt cgacggctgg ggcgagcgaa acaaatcgtg
      121 tgccgtattt gtgcatagct atgcaacatc ctgaaaacgc atttcacgcg tttttgggga
      181 ttcagccagg ggaaaacatg gtttttttac tttttgagcg taaagacgtg aaaaatctcg
      241 ttattgcact tgcgatcttt cgtcggcggg cgtagaacga aaacagctcg ccaggaaggc
      301 gagctgtttc gggttcattg aggtctctga cctcctcaat gttcctgtgg aaactgttga
      361 gatccacaac agaaaccagt tcattcagtt tgcatgagcc ttctgtattc ttcaagaatt
      421 tttcaacagc acagtctccc aggaaccccg aaaaaaacct gtttttgcag atacttgcgt
      481 atttgcgaga atcgtttgcg gttgggggag ctgtgacgac ggcgaccgca cgcgtgagag
      541 ttccgctacc ggcgcagaga gtttcatcga cagcggacac ctgatgagtt gccacaaaaa
      601 ccgtatgtag cgcggctaga ttggttgagt tagaccttgg cggcagttcc cggtatgtgg
      661 tggcgtgacg ggtgagatgg tgcggcgaag acgcatacgt cacgcaggcg cgggttcttc
      721 cactgacgcg ccccgtgatc gatggccttg gctccgtccg gcatatcgag agcggcaaac
      781 tacccgtccc ttcactggga ggggtgagtt gttgccgttc cctccaacct ttcaccatcc
      841 ggcatatcgc acgatcccat gtgcaccgca actcctgata actccagtgc aaaaaaaaaa
      901 acggatctgc atcacaacga gagtgatccc accgctcgcc gcagccccag cgaccgaacg
      961 tagtgagcga gtgggcgagg aagcggaaga gtcacagatg caagcattgt gcacttacgc
     1021 gcctgtgcca gtgtccgcgt gtgtgctgtt tatcgggtgc gctgttttta catctgtgcg
     1081 gctttttact cctgacatgg tgcacttccc atccactctg caccgatgca aaatgagata
     1141 agccagtata cacatcgcta tcgctctgtg aactgggtca gggctgcgcc ccgacacccg
     1201 cactgacgcg ccctggcggg cttgtctgct cccggcatcc gctcacaggc aagctgtgaa
     1261 cgtctccggg agctgcatgt ttcagttgct ttcaccgtca tcgccgaagc gtgcgaggca
     1321 actgcggtag agttcgtcgg cgtggtcgtg aagtgattcg cagatgtctg cctgttcgtc
     1381 cgcgtccaga tcgttgagtt tttccagcag ggttagcgtc tggcttctga taaagcgagc
     1441 catgttaagg gctgtttttt cctgtttggt catggtctta aggctccttg tatgggggat
     1501 ttgttagggg gaatgatacc gatgaaacgc gagaagatgc tcacgatacg ggttaccgat
     1561 gaggagcacg cccggttact ggaacgctgc gagggtaaac gactggcgga atggatgcgg
     1621 cgggtctgtc tgggggagcc ggttgcacgc acaggaaaac tgccgacact atcgccgcca
     1681 ttgctgcggc atctggctgc catcgggaac aacctgaacc agacagcccg gaaggtgaac
     1741 agcggccagt ggtcttcgat tgaccgggtt catgtggtgg ccgcactgat ggccatcgag
     1801 ggtgaattgc gccagttgcg gcaggctgtc agggaacagg gggtacggga tgatagttaa
     1861 atttcatgcc agggggaaag gcggtggaag tggcccggtc gattacctgc tggggcggga
     1921 gcgtaaccgc gaaggcgcaa cggtgctccg gggtaacccg gaagaagtgc gagaactcat
     1981 tgattccacg ccattttcga agaaatacac ttcaggcgtt ctgtcgttcg cggagaagga
     2041 gttaccgccg ggtgaacgcg aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg
     2101 tctcgaaaaa gaccagtaca gcattctctg ggtggaacac caggataagg ggcggctcga
     2161 actgaatttt gtcatcccga acatggagct acagagcggt aagcgcctcc agccgtacta
     2221 cgaccgcgcg gacaggccga ggataaatgc ctggcagacg ctggttaatc atcattacgg
     2281 gctgcgtgac ccgaacgcac cggagaacag acggacgctt gtcacgccaa ataatctgcc
     2341 aaaagcgaag caggaggccg cagaagcgat tacacggggt cttgaggctc tttaccatgc
     2401 cggagcaata aaaacgcgtc aggatgtcac agaggcgctt acagcggcag gttttgaggt
     2461 ggtgaggaca accaaaagca gcatcagtat tgccgacccg gagggggggc ggaatctcag
     2521 gctaaagggg gcgctgtatg agcaatcttt tacaaatggg aacagacttc gagaagaaac
     2581 tgaaagagcg agccgcttct accgagaaca tgctgaacag cgagttcagg aagctcgaag
     2641 agtctgtaga caaggcattg agcttaaaca ggcagaaaat cagagacgct atcagcgaac
     2701 atacaacatc cgtgaaaaag caactggata cgctgagcac caccgtgagc atgcagttca
     2761 gcaccacaga ggccgaactg tcccggcagc agaaaaaact gctctggcgg gtgatcaaag
     2821 ggcggatact gtttccggcg ctgaccgcgc tcagcgtcac gggcggcatt ttcctggggt
     2881 gctgggggct gatggagtgg caggaaagca agattgcgaa aaatatcctg actatcagag
     2941 agcaggaaaa cacgctggcg aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg
     3001 gcgagaacgg gaaatttctg gtgttgccgg acggggtgaa aggggaaaac acctggacgg
     3061 tgggcgacaa gaacgccgtg aggctggtca gggagtaaac gagtatgacg gaactggaag
     3121 ggcatttgct gaacgcctta gagcatttgc aacaggacta tatgcggcgg ctgaacgagt
     3181 gggagagcgc cttcgcggaa ttgcagaaga tgcacgaggt tacgcaacgg aacaacgcga
     3241 tactgaacga gcgcgtcgtg atattgagtc agcaggtgca gagattagcc gggcaagtgg
     3301 atcgcttgag tcggttattt atcgcgaaca acagctaagg gatgaacagg agcgtgcccg
     3361 gtacagacat g
//
