LOCUS       CP082494                4074 bp    DNA     circular BCT 12-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Uganda var. 15+ strain
            FSIS1607821 plasmid pF18S019-4074, complete sequence.
ACCESSION   CP082494
VERSION     CP082494.1
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 4074)
  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 4074)
  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 4074)
  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..4074
                     /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="pF18S019-4074"
                     /geo_loc_name="USA:MN"
                     /collection_date="2016"
                     /collected_by="USDA-FSIS"
     gene            complement(join(2659..4074,1..744))
                     /locus_tag="BKI78_025510"
     CDS             complement(join(2659..4074,1..744))
                     /locus_tag="BKI78_025510"
                     /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="MobA/MobL family protein"
                     /protein_id="UAE60180.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGVSGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            923..1177
                     /locus_tag="BKI78_025515"
     CDS             923..1177
                     /locus_tag="BKI78_025515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091744.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="UAE60181.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobilization protein"
     gene            1709..2401
                     /locus_tag="BKI78_025520"
     CDS             1709..2401
                     /locus_tag="BKI78_025520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UAE60182.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVEELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(387..745)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          746..922
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          1710..2401
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.815"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..831)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.556"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggctctgtc agcccgctgt tcctgagttc agtgcgggaa atctgtattt ccaggttaag
       61 cctgttaatc agacgattct gttcgccgcg ttctgtttcg ataccgcgtg tttccatcgc
      121 acaggcagac tttccgaggt gaataccagg cgttttctca agcccctgtc gctcgtatga
      181 acgatggtct atctcttcct gataaccggc gttcgccagt gctctgtttg catggtcagc
      241 ccatgatgca cgccacgtct cggcatgtgt ccggtcgttc cagtccctga cctttccgcc
      301 gaacccagca ggtccgacag ccctcgtggt cagcatgatg tgcgcatggg gatttgtttt
      361 atccatgtga tggaacgcca catcagcaat catgccctga ctgacaaagt tttctctgac
      421 aaaggcgaga acggtttccc gtgcggcatc ctgcggcagt tcacggggga tagcgagttc
      481 aatttcccgc gcaagttgtg agttcttccg gcattcggcc ttctcaacgg cattccagag
      541 ttcggcacgg ttcgtacacc aggcaggggc tgtcgcgggg gtcagaatca cagcttcagc
      601 cacaccgctt ttgcgggtgt agtcgtgagt cagtccggta cgctcatcaa gcatcagtga
      661 accggaacga taggcagcgg aagctacggc gctgtagccg ctgcttctgg agataatttt
      721 catgctgaga tgataaatcg ccatttctgc cgtaatgcct ttttgtagtt ttctttcagc
      781 cccgcagggc gcacacaatc gaaacggagt ggagattgta taagtgcgca ctttgtgatt
      841 tgtcgtgcat tatgccagct cagtttttaa actaccagtg acgcgctaaa atgcgatttt
      901 tcatcgcgca cggagttaca tcatgagcag aacgctcgaa cagaagattg ctgatgctga
      961 ggcgagatta cagcgcctga aggcgaagag ccggagcctg gacacagcgc agaaggttgt
     1021 tgtgggtgca gcattgctgg caaaggtcag aaagccggag gaggtgcagt tgcgtgcctg
     1081 gttactccag ttcctgaagg cagaggtgac acgacaggct gatgtgacgc gcatactgcc
     1141 gctgattaac gagctggagg cgctgccagg acagtgattg tatcgtccgc tcgccgcagc
     1201 cccagcgacc gagcgttagc gagcgagtgg gcgaggaagc ggaagtgaat ccgtcgccag
     1261 gttgagcaca tacgcacggt ttttcggtag gtgatatgcg ctgaacccgc atgaatactg
     1321 gatttccaca gggttggaag gggagtattc ggaacttgca attctgcttt cttgcaacac
     1381 attgttttta ttggtttttt gttttcagcg ccccaagtta tccacaggct cgccgttaag
     1441 tttttagatc ttgtttttaa gatcttgttt ttaatacttg ttttagggtc aaaattcatt
     1501 aataaaatca atatgttata gcggtatatg tggaggaatt taaggtaaag gtggaggaat
     1561 ttaaggtgtt taggtggagg aatttaaggt aaaggtggag gaatttaagg tgttattcac
     1621 agaaatgtga ggatataaaa aaaaatattc cacatttctt atttgtgggg cacattaaag
     1681 catcaccaca tttgaacggg atctttgtat gtcggacttg attgcctaca agtcgaatgc
     1741 tttggttgag gccagctaca agttgaccct acaggaacaa cgttttctgt tgctgtgtat
     1801 cagtcgattg aaatctggtg ctgatgctga attgcaaaag acaatgacca ttaccgctgc
     1861 ggaatatttt gattcattcc ctgacatggg gcggaaaaat gccgaggttc agttacagga
     1921 agcgatcgat cgtttatggg acaggtcgat cattctcaag aatgacgaga agcgtgagga
     1981 gttccgctgg atccagtatc gggcacagta cgctaaaggt gaggccaagg ctcgaataac
     2041 cttttctgac gcggtaatgc cttatctgac gcaactgaag gggcaattca cgcgcgttgt
     2101 tataaaaaac atatcaggtt tatcaagtag ttacagtata agaatatacg agttcctcca
     2161 gcaattccgc agtacgggag agagaattat tgctcttaat gactttcgtt caatgttagg
     2221 gattgaaaat aaatacaaac aattcagaga cttaaataaa atactaataa aaccctgtgt
     2281 tgaagaactg aacaaaaaaa gcgacctggc tgtaacggtt gagacgatca aaaaggggcg
     2341 cacggttgta gccctgcatt ttcgcttcaa ggaagacaaa cagatcaaga tgacgatcta
     2401 aaatcgattt taaggcacct aaaacgctcc ctgctgcgtt ttttttgtgt tagtagtgcg
     2461 aaggtactat tgaagtgaaa aattgcgtca aaagcgctct aatgcagcga aaaaagaacc
     2521 cccaattttt gggggcggaa aaacaaaact atgcttgcat tatgtgtgtg tgcttcttgc
     2581 attcatccct gtcgatgaac atcgaagaac atcgacgaac ataacacgat gttaaacaaa
     2641 acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct cggtggtgtg
     2701 tgttcttgca tcttcctcgc gccgccattc atcccaggta cgattgaaac ccagagagcg
     2761 gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg gtgcctcacg
     2821 ggttttcaga tgaaactcca taagttccgg cgcaggtgat atgtggctgt ctgcatcgtg
     2881 atttacggca acaccatacc ctgcataccg taacccctta tcggtcagtg cactgatgac
     2941 cagctggctg ttatcggctg agggaacggc aaacgcggga tacagcgtac cattaagccg
     3001 gacaacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa gctggcgggt
     3061 ttcccggtcg acagaactca ttaccggcat cagcgtcggt agcagacgtc cctgcgtaaa
     3121 atccaccttc cttgctgcca gtgatggcat ggctggctgg cggtcttctc caagacagaa
     3181 agactccggc catgtcttcg gctggcggag attgcgggta tattgcggcc atgtctggca
     3241 aacctgcgtc agaagttgct caaaggtcgc agaggaataa acacgttgca gtggtggatg
     3301 ttgaccgatt tcgcttcggt cacagatata accactcctg tcacgcatta aatcaacacg
     3361 ctcaaagatt ctggtgcggt atttctccag ctcgttcccc cagagcgtgt attctccgtt
     3421 ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg gggcctcgcc
     3481 ataccccgta acgactgcgc tcagtacccc tgaatccata acggcattgt catttttcct
     3541 gagctgttcc gctcgtcgct ccgcgcgact acgttctgta tcctcctgct ccttccggcg
     3601 caattcctct tcacgtttaa gcaactggac tctgagagct gcaaggccgg atacccccca
     3661 ctgctgccac tgtttttcaa atgccgtctg actcgcggga atgtcctgtt tctccacctt
     3721 ccggtaatgc tgtcgcaatt tttccatttg ctggctcagc gactggattt ttccctgttc
     3781 gctacggtat tccggtgccg cccattgcat caggggaata cgggaaaaac cggacgaaaa
     3841 cggcgatgat tttttcaggc tggcagcatg gctcatcgct tcctttcgtt cggtgttcag
     3901 ctcttcccag cgtctgcgcg tcgcctgcat atctgccatc atcgacatgg cattactggt
     3961 gagtttccat gccgcattac tgtccttcgg caacgcttcg atgatgtcac gtagtgtgta
     4021 cgaagttgcg ttgtcaggaa gcacgatatt cagaaggtca gccacacggc gggc
//
