LOCUS       CP082493                4773 bp    DNA     circular BCT 12-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Uganda var. 15+ strain
            FSIS1607821 plasmid pF18S019-4773, complete sequence.
ACCESSION   CP082493
VERSION     CP082493.1
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 4773)
  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 4773)
  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 4773)
  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..4773
                     /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="pF18S019-4773"
                     /geo_loc_name="USA:MN"
                     /collection_date="2016"
                     /collected_by="USDA-FSIS"
     gene            join(4740..4773,1..452)
                     /locus_tag="BKI78_025480"
     CDS             join(4740..4773,1..452)
                     /locus_tag="BKI78_025480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012565228.1"
                     /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="UAE60175.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            456..671
                     /locus_tag="BKI78_025485"
     CDS             456..671
                     /locus_tag="BKI78_025485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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="UAE60176.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(870..1421)
                     /locus_tag="BKI78_025490"
     CDS             complement(870..1421)
                     /locus_tag="BKI78_025490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAE60177.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            1957..2424
                     /locus_tag="BKI78_025495"
     CDS             1957..2424
                     /locus_tag="BKI78_025495"
                     /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="UAE60178.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            3739..4062
                     /locus_tag="BKI78_025500"
     CDS             3739..4062
                     /locus_tag="BKI78_025500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="UAE60179.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4001..4762
                     /locus_tag="BKI78_025505"
                     /pseudo=""
     CDS             4001..4762
                     /locus_tag="BKI78_025505"
                     /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"
     Typing          3451..3635
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.17"
                     /coverage="86.0"
                     /evalue="5.83e-49"
     Typing          complement(2993..3505)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.829"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3..775
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.535"
                     /coverage="99.0"
                     /evalue="4.15e-141"
     Typing          4053..4771
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="99.0"
                     /evalue="4.44e-153"
ORIGIN
        1 agcagaaatc gaaagcgcag cagcagagta ccggcgagat gctgaaagtc gcattcagcg
       61 agcacgagaa gtttgtcaga gcggaactga gcgaaagcga gaagagaatc agcgccgcca
      121 tcctcgacca cgaccggaag ctgtcctcag ccatgagcca gcgcacgaaa ggcatggtgc
      181 gtatggtcag ccagacgtgg ctgaccatcg tcctggtgtc tacactgctg acagcatcgg
      241 gcgcaagcat tctatggtgg caggggcagc agatactcga caattacacg atcatccggg
      301 agcagaagag cacgcaggcc atgctgtccg agaggaacag cggcgtgcag ctctcgacct
      361 gcggagagca gagacggcgc tgcgtgaggg tgaacccgga agcgggacgg ttcggagagg
      421 attcgagctg gatgatactg gcggggaaat agcacatgac ggagctggaa aaacagttgc
      481 tgagcgcatt agagcagcta cagcaggact actcgaaaag gctggacgag tgggagaacg
      541 ccttcgcgga atggcggacg atgtttggtc ttatgcaacg ggagaacgcg gcgctgagcg
      601 agcgcgtcac gggcttgagc aggcaggtgc agagtttgag cgagcagctg cgccggttgt
      661 cacaaggctg aacgtgatag aggcacatcg tgagcaggaa cgggcggcgc agcatcagaa
      721 agcgctggag ctggaacgat ctcagcgaca gcgaacgtac aacggtccgt cactttgaat
      781 ctgtgcgccg gaaaagcatg ggcttgctgt ttctggcgca caggttcagt tctagaacat
      841 gaggctgcta tcttgttgtt cacgcttcat cagatcttga tgcttattgt tatggctgag
      901 ctatcaatcc ctgttgcgtt gctaatatcc tttttggctc tttcaattgc ctcgttaagg
      961 gagagttttt ctgttttctc ttcagccaga ccaggaatca ctgtattagg aaccgatggg
     1021 gatgaaggat ggaatttctt ccattccagt tgttccggtg ttaccccaat acgtaaaaaa
     1081 gcttcctgtg cgctcaggta agcaaccgga tagcgctgac catcggttag cattttccat
     1141 gcttttggag tgtgaatttc tgcgtattca tcaaaggtta tgacgttcct gtcgtcgtaa
     1201 tcagggcttt taaaacaccc ggtaattttg gcgatcagga atgctgtgcc gtgttccagg
     1261 tcttttactg cccacgtttc ccttctgttt cttactgcta tgaggtaatc ggcatcgttg
     1321 agcctgtctg ttctggcatg ccagtagcct gaccccccct cggttctcat tatgttcaaa
     1381 tccttcccgg taaaaaccac aacagctttc atatctttca tatagaaacc cttaataggt
     1441 gagtcaattt cattttttta tgaaatctat acgatagaat tcgtgttgta aatgtttttt
     1501 atgcgataaa atgcagcccc ctacctcttt tattgttagt gataaggctt cctgtttgtt
     1561 tttttgataa accggttaaa acaggggctt ggacgaggat atacattgaa agcatgagcc
     1621 attcacgtgg ctgcatggct atgcagccgc gtgaaattta tcaggcgcag aatgcgcggt
     1681 ttagcgggga gtttactgcc ggttttaccg ggctaacgcc gctttcacgc tgaacccgtc
     1741 cggagcggtg cgggcaaggg atgttatggt aaatctagct gctagggcga ttcgcacgtc
     1801 acattttcag gtgtgatatc cttatgcgcc aaggatgaaa ggacaaaaaa ataatccata
     1861 aggattcttt ttatcgtctc tgcttttttc ttgggctcct tccgcttgtt tcctctctgg
     1921 taccatatgc ggactctact caataaggat cgttttgtgc ctgctccaaa caattacggt
     1981 gtagctggtt cacctaacag cgctatagct caccctgatg ggcttgattg ctatggccgt
     2041 gtccctgaaa ttaattctaa aggtgatgtt attcctgctg gcgacatctt cttgcgtgtt
     2101 ggtaggcata ctggccctaa ccggggcttt ggtgttcgcc atatctgggc tgagcacgag
     2161 caggaactgg ttaagctggg atatgcgacc gttaatgatg tggctcgttt tgtccgggat
     2221 attattcgtc gtggcgtacc aatatattgc gagttcaaca gtacaagcgg taaacatcgg
     2281 cctgcagtgc taaagtcgtc ggtaggcatc gtaattcttg agcccagaga agcgcctgaa
     2341 actgagtcag gttggatcta tgtcgttgtg actgcgtaca cacgaaggac ggcgcacggt
     2401 actttggttg gtcatattga ataaaaaaat agggcgctaa aaagcgccct ttatgaattc
     2461 gttggtagtc gcagcatttc cttagcacat agggttcaga aaccgacgct tgtcgtaact
     2521 acccggcaga tgaccagcca tctgactgcc cggcacagaa ggcctattac tggttgatgc
     2581 cccctgcgaa tgctcttgca gtacaataat cataaacatc gtgatgtaga tttgcaacca
     2641 acattttggt tgcaacctat atactaattt ttttcgataa ccctggaatc cattgctgtg
     2701 tctggatttc ttgaagctcc tggctataga taccctatat cctaacagtt attctgctgt
     2761 gaatatcaga aatgaacact tgagatcatc agtggctcgt cgtagtctct tgctcagaaa
     2821 cgaaaaaacc accctggcag gtggtttttt cgaaggttag ttaatcctgg cagattctct
     2881 aaccgtggta acagtcttgt gcgagacatg tcaccaaata ctgtcctttc agtgtagcct
     2941 cagttaggcc gccacttcaa gaactctcgt tacatctctc gcacatcctg cttaccagtg
     3001 gccgttgcca atggcgatta gtcgtgtcta tccgggttgg actcaagacg atagttaccg
     3061 gacaaggcgc agcggtcgga ctgaacgggg ggttcgtgca tacagtccag cttggagcga
     3121 actgcctacc cggaactgag tgtcaggcgt ggaatgagat aaacgcggcc ataacagcgg
     3181 aatgacaccg gtaaaccgaa aggcaggaac aggagagcgc acgagggagc caccaggggg
     3241 aaacgcctgg tatctttaag tcctgtcggg tttcgccacc actgatttga gcgtcagatt
     3301 tcgtgatgct tgtcaggggg gcggagccta tggaaaaacg gcagcgccgc atccttttcc
     3361 tgtcctgctt gccatgccgt atgcctttgc tcttatccgt ttgcaggtaa cgcccgccgc
     3421 agccgaacgt caggagcgga agcgaccgag tgagcgagga ggcgtcatat caccgtaacc
     3481 tccattttct cctgtacgcc ctgcagctgc atttttcccc tgccacatga agcactttca
     3541 ttacgtgtta ctccgccgta acatattgag ccagtataca ctccgctagc gctacgtgac
     3601 tggttcaggg ctgcgccccg aaacctgcta aaaccactga cgcgcctgcg gcttgtccaa
     3661 caccgcgccg accgggaaaa gatttcccgc ccgtcccggc gttatcagga gatcggtttg
     3721 tcagagaaac ggaacaagat gctcaccatg tgggtgaccg aagatgagca ccgccgtctg
     3781 ctggaacgct gcgacggtaa acagcttgca gcctggatgc gccagacgtg cctggccgag
     3841 aaacccgccc gcgccggcaa gcttccctca atctcgccgg cgctgcttcg tcagcttgcc
     3901 ggcatgggga ataacctcaa ccagattgcc cggcaggtta acgccggtgg cggcagcggg
     3961 cacgaccgcg tgcaggtcgt cgccgcgctg atggccatag atgccggact cgagcggctg
     4021 cggcatgccg tgctggaaaa gggtgcagac gatgatcgtt aagtttcacc cgcgagggcg
     4081 cggcggtggc gccggtccgg tggattatct gctggggaaa gaccgacagc gcgacggcgc
     4141 caccgttctg caggggaagc cggaagaagt cagggagctt atcgacgcct cgccctacgc
     4201 aaaaaagtac acatccggcg tcctgtcctt tgccgaaaag gatttaccgc ccgggcagcg
     4261 cgaaaagctg atggcgagct ttgaacgggt tctgatgccc ggactcgata aagaccagta
     4321 cagcgtgcta tgggttgagc accaggataa ggggcggctg gagctgaact tcctgatccc
     4381 gaacatggag ctgctgacag gcaggcgtct ccagccgtat tacgaccgcg ccgaccgtcc
     4441 gcgcattgat gcctggcaga ccatcgtgaa cggcaggctg gggctgcatg acccgaacgc
     4501 gcctgaaaac cggcgggcgc tggtcacgcc gtccgcgctg ccgaaaacga agcaggaagc
     4561 cgctcaggca attacacggg gtttactggc cttagcctcg tccggggagc tgaaaacccg
     4621 ccaggacgtc actgaggcgc taaaaagcgc aggttttgag gtggtgcgca ccacaaaaag
     4681 cagcatcagc attgccgacc cggacggggg gcgaaacatc cgactgaagg gagccatcta
     4741 tgaacagtct tttaacgctg gcgaaggact tag
//
