LOCUS       CP082631                4753 bp    DNA     circular BCT 14-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Heidelberg strain CVM
            N17S1352 plasmid pN17S1352-3, complete sequence.
ACCESSION   CP082631
VERSION     CP082631.1
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 4753)
  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 4753)
  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 4753)
  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..4753
                     /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="pN17S1352-3"
                     /geo_loc_name="USA:MD"
                     /collection_date="2017"
                     /collected_by="FDA"
     gene            complement(join(4731..4753,1..463))
                     /locus_tag="D7G91_25265"
     CDS             complement(join(4731..4753,1..463))
                     /locus_tag="D7G91_25265"
                     /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="UAH18001.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQISTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(544..1131)
                     /locus_tag="D7G91_25270"
     CDS             complement(544..1131)
                     /locus_tag="D7G91_25270"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="UAH18002.1"
                     /translation="MIVKFHPRGRGGGAGPVDYLLGKDRQRDGATVLQGKPEEVRELID
                     ASPYAKKYTSGVLSFAEKDLPPGQREKLMASFERVLMPGLDKDQYSVLWVEHQDKGRLE
                     LNFLIPNMELLTGRRLQPYYDRADRPRIDAWQTIVNGRLGLHDPNAPENRRALVTPSAL
                     PKTKQEAAQAITRGLLALASSGGLKTARTSGF"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1121..1444)
                     /locus_tag="D7G91_25275"
     CDS             complement(1121..1444)
                     /locus_tag="D7G91_25275"
                     /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="UAH18003.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(2759..3226)
                     /locus_tag="D7G91_25280"
     CDS             complement(2759..3226)
                     /locus_tag="D7G91_25280"
                     /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="UAH17998.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            3762..4313
                     /locus_tag="D7G91_25285"
     CDS             3762..4313
                     /locus_tag="D7G91_25285"
                     /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="UAH17999.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(4512..4727)
                     /locus_tag="D7G91_25290"
     CDS             complement(4512..4727)
                     /locus_tag="D7G91_25290"
                     /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="UAH18000.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          complement(1546..1733)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.34"
                     /coverage="87.0"
                     /evalue="2.7100000000000003e-47"
     Typing          1679..2191
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.636"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(566..1131)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.767"
                     /coverage="89.0"
                     /evalue="4.39e-175"
     Typing          complement(4409..4752)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.217"
                     /coverage="97.0"
                     /evalue="1.88e-49"
ORIGIN
        1 agctcgaatc ctctccgaac cgtcccgctt ccgggttcac cctcacgcag cggcgtctct
       61 gctctccgca ggtcgagatc tgcacgccgc tgttcctctc ggacagcatg gcctgcgtgc
      121 tcttctgctc ccggatgatc gtgtaattgt cgagtatctg ctgtccctgc caccatagaa
      181 tgcttgcgcc cgatgctgtc agcagtgtag acaccaggac gatggtcagc cacgtctggc
      241 tgaccatacg caccatgcct ttcgtgcgct ggctcatggc tgaggacagc ttccggtcgt
      301 ggtcgaggat ggcggcgctg attctcttct cgctttcgct cagttccgct ctgacaaact
      361 tctcgtgctc gctgaatgcg actttcagca tctcgccggt actctgctgc tgcgctttcg
      421 atttctgctc taagtccttc gccagcgtta aaagactgtt catagatggc tcccttcagt
      481 cggatgtttc gccccccgtc cgggtcggca atgctgatgc tgctttttgt ggtgcgcacc
      541 acctcaaaag cctgacgtcc tggcggtttt cagccccccg gacgaggcta aggccagtaa
      601 accccgtgta attgcctgag cggcttcctg cttcgttttc ggcagcgcgg acggcgtgac
      661 cagcgcccgc cggttttcag gcgcgttcgg gtcatgcagc cccagcctgc cgttcacgat
      721 ggtctgccag gcatcaatgc gcggacggtc ggcgcggtcg taatacggct ggagacgcct
      781 gcctgtcagc agctccatgt tcgggatcag gaagttcagc tccagccgcc ccttatcctg
      841 gtgctcaacc catagcacgc tgtactggtc tttatcgagt ccgggcatca gaacccgttc
      901 aaagctcgcc atcagctttt cgcgctgccc gggcggtaaa tccttttcgg caaaggacag
      961 gacgccggat gtgtactttt ttgcgtaggg cgaggcgtcg ataagctccc tgacttcttc
     1021 cggcttcccc tgcagaacgg tggcgccgtc gcgctgtcgg tctttcccca gcagataatc
     1081 caccggaccg gcgccaccgc cgcgccctcg cgggtgaaac ttaacgatca tcgtctgcac
     1141 ccttttccag cacggcatgc cgcagccgct cgagtccggc atctatggcc atcagcgcgg
     1201 cgacgacctg cacgcggtcg tgcccgctgc cgccaccggc gttaacctgc cgggcaatct
     1261 ggttgaggtt attccccatg ccggcaagct gacgaagcag cgccggcgag attgagggaa
     1321 gcttgccggc gcgggcgggt ttctcggcca ggcacgtctg gcgcatccag gctgcaagct
     1381 gtttaccgtc gcagcgttcc agcagacggc ggtgctcatc ttcggtcacc cacatggtga
     1441 gcatcttgtt ccgtttctct gacaaaccga tctcctgata acgccgggac gggcgggaaa
     1501 tcttttcccg gtcggcgcgg tgttggacaa gccgcaggcg cgtcagtggt tttagcaggt
     1561 ttcggggcgc agccctgaac cagtcacgta gcgctagcgg agtgtatact ggctcaatat
     1621 gttacggcgg agtaacacgt aatgaaagtg cttcatgtgg caggagaaaa atgcagctgc
     1681 agggcgtaca ggagaaaatg gaggttacgg tgatatgacg cctcctcgct cactcggtcg
     1741 cttccgctcc tgacgttcgg ctgcggcggg cgttacctgc aaacggataa gagcaaaggc
     1801 atacggcatg gcaagcagga caggaaaagg atgcggcgct gccgtttttc cataggctcc
     1861 gcccccctga caagcatcac gaaatctgac gctcaaatca gtggtggcga aacccgacag
     1921 gacttaaaga taccaggcgt ttccccctgg tggctccctc gtgcgctctc ctgttcctgc
     1981 ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttatctcatt ccacgcctga
     2041 cactcagttc cgggtaggca gttcgctcca agctggactg tatgcacgac ccccccgttc
     2101 agtccgaccg ctgcgccttg tccggtaact atcgtcttga gtccaacccg gatagacacg
     2161 actaatcgcc attggcaacg gccactggta agcaggatgt gcgagagatg taacgagagt
     2221 tcttgaagtg gcggcctaac tgaggctaca ctgaaaggac agtatttggt gacatgtctc
     2281 gcacaagact gttaccacgg ttagagaatc tgccaggatt aactaacctt cgaaaaaacc
     2341 acctgccagg gtggtttttt cgtttctgag caagagacta cgacgagcca ctgatgatct
     2401 caagtgttca tttctgatat tcacagcaga ataactgtta ggatataggg tatctatagc
     2461 caggagcttc aagaaatcca gacacagcaa tggattccag ggttatcgaa aaaaattagt
     2521 atataggttg caaccaaaat gttggttgca aatctacatc acgatgttta tgattattgt
     2581 actgcaagag cattcgcagg gggcatcaac cagtaatagg ccttctgtgc cgggcagtca
     2641 gatggctggt catctgccgg gtagttacga caagcgtcgg tttctgaacc ctatgtgcta
     2701 aggaaatgct gcgactacca acgaattcat aaagggcgct ttttagcgcc ctattttttt
     2761 attcaatatg accaaccaaa gtaccgtgcg ccgtccttcg tgtgtacgca gtcacaacga
     2821 catagatcca acctgactca gtttcaggcg cttctctggg ctcaagaatt acgatgccta
     2881 ccgacgactt tagcactgca ggccgatgtt taccgcttgt actgttgaac tcgcaatata
     2941 ttggtacgcc acgacgaata atatcccgga caaaacgagc cacatcatta acggtcgcat
     3001 atcccagctt aaccagttcc tgctcgtgct cagcccagat atggcgaaca ccaaagcccc
     3061 ggttagggcc agtatgccta ccaacacgca agaagatgtc gccagcagga ataacatcac
     3121 ctttagaatt aatttcaggg acacggccat agcaatcaag cccatcaggg tgagctatag
     3181 cgctgttagg tgaaccagct acaccgtaat tgtttggagc aggcacaaaa cgatccttat
     3241 tgagtagagt ccgcatatgg taccagagag gaaacaagcg gaaggagccc aagaaaaaag
     3301 cagagacgat aaaaagaatc cttatggatt atttttttgt cctttcatcc ttggcgcata
     3361 aggatatcac acctgaaaat gtgacgtgcg aatcgcccta gcagctagat ttaccataac
     3421 atcccttgcc cgcaccgctc cggacgggtt cagcgtgaaa gcggcgttag cccggtaaaa
     3481 ccggcagtaa actccccgct aaaccgcgca ttctgcgcct gataaatttc acgcggctgc
     3541 atagccatgc agccacgtga atggctcatg ctttcaatgt atatcctcgt ccaagcccct
     3601 gttttaaccg gtttatcaaa aaaacaaaca ggaagcctta tcactaacaa taaaagaggt
     3661 agggggctgc attttatcgc ataaaaaaca tttacaacac gaattctatc gtatagattt
     3721 cataaaaaaa tgaaattgac tcacctatta agggtttcta tatgaaagat atgaaagctg
     3781 ttgtggtttt taccgggaag gatttgaaca taatgagaac cgaggggggg tcaggctact
     3841 ggcatgccag aacagacagg ctcaacgatg ccgattacct catagcagta agaaacagaa
     3901 gggaaacgtg ggcagtaaaa gacctggaac acggcacagc attcctgatc gccaaaatta
     3961 ccgggtgttt taaaagccct gattacgacg acaggaacgt cataaccttt gatgaatacg
     4021 cagaaattca cactccaaaa gcatggaaaa tgctaaccga tggtcagcgc tatccggttg
     4081 cttacctgag cgcacaggaa gcttttttac gtattggggt aacaccggaa caactggaat
     4141 ggaagaaatt ccatccttca tccccatcgg ttcctaatac agtgattcct ggtctggctg
     4201 aagagaaaac agaaaaactc tcccttaacg aggcaattga aagagccaaa aaggatatta
     4261 gcaacgcaac agggattgat agctcagcca taacaataag catcaagatc tgatgaagcg
     4321 tgaacaacaa gatagcagcc tcatgttcta gaactgaacc tgtgcgccag aaacagcaag
     4381 cccatgcttt tccggcgcac agattcaaag tgacggaccg ttgtacgttc gctgtcgctg
     4441 agatcgttcc agctccagcg ctttctgatg ctgcgccgcc cgttcctgct cacgatgtgc
     4501 ctctatcacg ttcagccttg tgacaaccgg cgcagctgct cgctcaaact ctgcacctgc
     4561 ctgctcaagc ccgtgacgcg ctcgctcagc gccgcgttct cccgttgcat aagaccaaac
     4621 atcgtccgcc attccgcgaa ggcgttctcc cactcgtcca gccttttcga gtagtcctgc
     4681 tgtagctgct ctaatgcgct cagcaactgt ttttccagct ccgtcatgtg ctatttcccc
     4741 gccagtatca tcc
//
