LOCUS       CP082635                3223 bp    DNA     circular BCT 14-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Heidelberg strain CVM
            N17S1352 plasmid pN17S1352-5, complete sequence.
ACCESSION   CP082635
VERSION     CP082635.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN10133040
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Heidelberg
  ORGANISM  Salmonella enterica subsp. enterica serovar Heidelberg
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3223)
  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 3223)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (27-SEP-2018) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 3223)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-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
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 302x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/01/2021 17:44:04
            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)                     :: 5,121
            CDSs (total)                      :: 4,999
            Genes (coding)                    :: 4,886
            CDSs (with protein)               :: 4,886
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 43 of 113
            Pseudo Genes (incomplete)         :: 74 of 113
            Pseudo Genes (internal stop)      :: 21 of 113
            Pseudo Genes (multiple problems)  :: 21 of 113
            CRISPR Arrays                     :: 3
            ##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..3223
                     /organism="Salmonella enterica subsp. enterica serovar
                     Heidelberg"
                     /mol_type="genomic DNA"
                     /strain="CVM N17S1352"
                     /serovar="Heidelberg"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:611"
                     /plasmid="pN17S1352-5"
                     /geo_loc_name="USA:MD"
                     /collection_date="2017"
                     /collected_by="FDA"
     gene            145..630
                     /locus_tag="D7G91_25580"
     CDS             145..630
                     /locus_tag="D7G91_25580"
                     /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="UAH18057.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            634..849
                     /locus_tag="D7G91_25585"
     CDS             634..849
                     /locus_tag="D7G91_25585"
                     /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="UAH18058.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1017..1349
                     /locus_tag="D7G91_25590"
     CDS             1017..1349
                     /locus_tag="D7G91_25590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001070439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="UAH18059.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(1558..1728)
                     /locus_tag="D7G91_25595"
     CDS             complement(1558..1728)
                     /locus_tag="D7G91_25595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UAH18060.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="replication initiation protein"
     gene            2367..2690
                     /locus_tag="D7G91_25600"
     CDS             2367..2690
                     /locus_tag="D7G91_25600"
                     /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="UAH18061.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2629..3189
                     /locus_tag="D7G91_25605"
                     /pseudo=""
     CDS             2629..3189
                     /locus_tag="D7G91_25605"
                     /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          2080..2271
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="89.0"
                     /evalue="3.38e-71"
     Typing          complement(1617..2097)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          4..947
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.221"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2681..3222
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.028"
                     /coverage="99.0"
                     /evalue="9.76e-112"
ORIGIN
        1 cctcatccgg ggagctgaaa acgcgtcagg acgtcactga ggcgctggaa agcgcaggtt
       61 ttgaggtggt gcgcaccaca aaaagcagca tcagcattgc cgacccggac ggggggcgaa
      121 acatccgact gaagggagcc atctatgaac agtcttttaa cgctggcgaa ggacttagag
      181 cagaaatcga aagcgcagca gcagactacc ggcgagatgc tgaaagccgc attcagcgag
      241 cacgagaagt ctgtcagagc ggaactgagc gaaagcgaga agagaatcag cgccgccatc
      301 ctcgaccacg accggaagct gtcctcagcc atgagccagc gcacgaaagg gatgctgcgc
      361 atggtcagcc agacgtggct gaccatcgtt ctggtctccg cgctgctgat agcgtcgagc
      421 gcgggcattc tgtggtggca ggggcagcag atactcgaga actatacgac catccgggag
      481 cagaagagca cgcaggccat gctgtcagag aggaacagcg gcgtacagct ctcgacctgc
      541 ggcgagcaga gacgccgctg cgtgagggtg aacccggaag cgggacagtt cggagaggac
      601 tcgagctgga tgatactggc ggggaaatag cacatgacgg agctggaaaa acagttgctg
      661 agcgcattag agcagctaca gcaggactac tcgaaaaggc tggacgagtg ggagaacgcc
      721 ttcgcggaat ggcggacgat gtctggtctt attcaacggg agaacgcggc gctgaacgag
      781 cgcgtcacgg tcttgagcag gcaggtgcag agtttgagcg agcagctgcg ccggttgtcg
      841 aaaggctgaa cgcgatagaa actcaccggc agcaggagcg ggcggtgcag caccagaaag
      901 cgctggagct ggaacgatcg cagtggcagc atcatggtcc ttcgctatga taagccgggt
      961 tctattaatt agttgttatg taaagatatt taaatttttc aacatgaggt atttttatga
     1021 atacatatat tttcctggga ggggctattg tggctgaagt cataggcacc acctttatga
     1081 aatattcaga aggatttaca cgcctgtggc cgtctgtagg aactgcaata agttattgcg
     1141 ctgcctttta tctgctttcc caaacattgg aaaatatacc taccggtatt gcttacgcaa
     1201 tttggtctgg tgcgggaatt gtactaataa gcctagctgg ttggttggtt agcggtcaaa
     1261 aacttgattg gcccgcaatt gcaggaatgt tccttatttg cgttggagtt ttggttatta
     1321 atattttttc aaaatcttct gcgcattaac tttttaccga agcatattgg ccaaagcaaa
     1381 aggatttcct tgagatcctt tctttctgcg cgtaatcttt ttccctgtaa acaaaaaaac
     1441 caccgctacc aacggtggtt cgtttgccgg aattcagagc taccaactct ttgttccgat
     1501 ggtaactggc tttcacggag cgcagatacc taaactgtcc tttcagtgta gccgcactca
     1561 ggctttcact tcaagaactc tgtaggcatt ctctacaatc tctgctccgt gaacccagtt
     1621 accaatggct accgccactg gcgatttgtc gtgtctttcc gggttggact caagttgata
     1681 gttaccggaa cgggcgtggt agtcggactg aacggggggt tcgtgcatac agtccatcct
     1741 ggagcgaact gcctacccgg aaccgagttt caggcgtgga atgagaaacc gcggccataa
     1801 cagcggaatg acaccggtaa accgaaaggc aggaatgcgg gggagcacga gggagccacc
     1861 agggggaaac gcctggtatc tttaagccgc atcgggtttc gccaccgctg atttgagcgt
     1921 cattttcgtg atactcgtca ggggggcgga gcctatggaa aaacggcaac tccgcatcct
     1981 tttcttggcc tttcctgctt cgagcggcat ttgcttatcc cgtaatctgt gagctggtaa
     2041 cgcccgccgc agtctcacgg caggagcgta gcgaccgagt gagcgaggag gcgtcatttc
     2101 atcaccacct gcattttgca cttacgcccg gcagccgcat ttttcccctg tcacatgaag
     2161 cactttcata aattgccact ccgtcataac atgtttagcc agtatacact ccgctagcgc
     2221 tacgtgactg gttcagggct gcgccccgaa acccgctaaa accactgccg cgcctgcggc
     2281 ttgtccaaca ccgtgccgac cgggaaaaga tttcccgtcc gtcccggcgt tatcaggagg
     2341 ccggattggc agacaaacgc agcaaaatgc tcaccatgtg ggtgactgag gacgagcacc
     2401 ggcgtctgct ggagcgctgc gagggtaagc aactcgcggc ctggatgcgg cagacgtgcc
     2461 tggacgagaa gcccgcacgc gccggcaaac ttccgtcgat ctcgccggcg ctgcttcgtc
     2521 agcttgccgg catggggaac aaccttaacc agattgcccg ccaggttaac gccggtggtg
     2581 gaagcggaca cgaccgcgtg cagattgtcg ccgcgctgat ggccatcgat gccggactcg
     2641 agcggttgcg gcatgccgta ctggaaaagg gtgctgatga tgatcgttaa gtttcatcct
     2701 cgggggcgcg gcggcggcgg cgggccggtc gattatctgc tgggtaaaga tcgccagcgc
     2761 gacggcgcca gcgttctgca ggggaagccg gatgaagtcc gggagcttat cgacgcctcg
     2821 ccctacgcca aaaagtacac ttccggcgtt ctgtcttttg ccgaacagga tttaccgccc
     2881 ggccagcgcg aaaagctgat ggcgagtttc gagcgggttc tgatgcccgg actcgataaa
     2941 gaccagtaca gcgtgctgtg ggttgagcac cgggacaagg ggcggctgga gctgaacttc
     3001 ctgatcccga acacggagct tctgaccggc aagcggctac agccgtatta cgaccgcgcc
     3061 gaccgtccgc gcatcgatgc ctggcagacc atagtgaacg gcaggctggg gctgcatgac
     3121 ccgaacgcgc cggagaaccg gcgggtgctg gtctcgcctt ccgcgctgcc ggaagcgaag
     3181 caggaagccg cccaggcgat tacgagcggc ctgcttgccc ttg
//
