LOCUS       CP082514                3830 bp    DNA     circular BCT 12-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Ohio strain FSIS1606132
            plasmid pF18S004-3, complete sequence.
ACCESSION   CP082514
VERSION     CP082514.1
DBLINK      BioProject: PRJNA292666
            BioSample: SAMN04600712
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Ohio
  ORGANISM  Salmonella enterica subsp. enterica serovar Ohio
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3830)
  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 3830)
  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                     :: F18S005
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 214x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/02/2021 14:10:19
            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)                     :: 4,781
            CDSs (total)                      :: 4,661
            Genes (coding)                    :: 3,205
            CDSs (with protein)               :: 3,205
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 1,456
            CDSs (without protein)            :: 1,456
            Pseudo Genes (ambiguous residues) :: 0 of 1,456
            Pseudo Genes (frameshifted)       :: 1,379 of 1,456
            Pseudo Genes (incomplete)         :: 85 of 1,456
            Pseudo Genes (internal stop)      :: 30 of 1,456
            Pseudo Genes (multiple problems)  :: 32 of 1,456
            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..3830
                     /organism="Salmonella enterica subsp. enterica serovar
                     Ohio"
                     /mol_type="genomic DNA"
                     /strain="FSIS1606132"
                     /serovar="Ohio"
                     /isolation_source="animal-swine-market swine"
                     /sub_species="enterica"
                     /db_xref="taxon:117541"
                     /plasmid="pF18S004-3"
                     /geo_loc_name="USA:UT"
                     /collection_date="2016"
                     /collected_by="USDA-FSIS"
     gene            join(3063..3830,1..1137)
                     /locus_tag="A4H74_023895"
     CDS             join(3063..3830,1..1137)
                     /locus_tag="A4H74_023895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003839290.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nitrate- and nitrite sensing domain-containing
                     protein"
                     /protein_id="UAD81957.1"
                     /translation="MSWAYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="nitrate- and nitrite sensing domain-containing
                     protein"
     gene            1427..1615
                     /locus_tag="A4H74_023900"
     CDS             1427..1615
                     /locus_tag="A4H74_023900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="UAD81958.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1663..1863)
                     /locus_tag="A4H74_023905"
     CDS             complement(1663..1863)
                     /locus_tag="A4H74_023905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAD81959.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          complement(2074..2246)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.805"
                     /coverage="100.0"
                     /evalue="4.41e-59"
     Typing          2171..2755
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.709"
                     /coverage="97.0"
                     /evalue="0.0"
ORIGIN
        1 acggctttta ataaagccgc cgaaggcgga tttggagtca acccgactga ctggtttaac
       61 cttcagaccc agcgtattga aacgctgcaa aaggtggaaa atcgcgcggt ggatgccttg
      121 caggaacatg ctgcgctgct tgcccacaat gcccgtgtcg actggcagtc cttcctggta
      181 atcagcctgg ttgccctact gattgctatc gcctttgcgg tgatggtggc acgcagtatc
      241 cagcagcaac tgaacggtac gctgaaaacc atcgcagaga tggacggcga cctgacacgt
      301 cgtcttgacg tccccggcag cgacgagctc tcagccctga accgtgccta taaccaagcg
      361 attgagaata ttcagcatat cgtgcaagaa attaagtccg gtgcggtggt gttgcgtagc
      421 gccagtagtg atatcgctgc cggtaatcag gatctggccc agcgtacgga tgaacaggcg
      481 gcatcgattg tggaaacggc cgccagcatg gagcagattt ctactgcgat cacccagacc
      541 gccgataacg ccagcgaggc ggagcgtctg atacattcga tggagcggga cgtactggaa
      601 gctaatcgcg tctctaacga ggccagtcag agcatggcgg aaattcgttc ttccagcgag
      661 cagatttccc agattgttgc gtcaattgat gagatttctt tccagaccaa cttgctggcg
      721 cttaacgccg ccgttgaagc ggcacgtgcc ggtgagcttg gcaaaggctt tgcggtagtg
      781 gcgacggagg tgcgtaacct ttcccagcgc tgtgcacgag aggccagtca gatccgtgag
      841 ctgattaacc agaatatgga taagattggc gaaggggtag cacgagtcac cgcgtccggc
      901 accgcgctga aagcagcggc ggaaaatacc gggcggatga aacagtacgt gagcgatatt
      961 gcccgtgcgg cgaatgagca gtcgcttggc gtgtcgcagg tgcatcaggc actgaatcag
     1021 ctggagcagg tcactcagca aaacgcagcg ctggtctctc aggcggcgag cgccagccag
     1081 atgctggacg gccagtctga agcgatgtcc acgctggtcg atcgctttat tgtctgatac
     1141 tgccgttcag catccggtct tgataactta caatcagaaa aaaccgccta aaaggcggct
     1201 tttttatgcc tgcaaataac taggatttac cataactccc gttgcgtgca ccgcctgaga
     1261 ggctctgaga gcgtttctga ggactccgac ctgaaacata cacctttctg tgcccatatc
     1321 gagaaaaaac gcccctgatg atttctgcgt acctgcatgg ctatgcactc aagtgaatga
     1381 agtaagattt cagtctgcga tcaccataaa accgggaaaa agccgtatga caaaacagga
     1441 atcagccgca ctgaacatgg caaaatttat ccgggcgcag tcgctgctgc tgctcgaaaa
     1501 actcgacgtg ctcgatcttg atgacgaggc agccgactgt gagcgaatgc acgaacaggc
     1561 agaagcgctt tatcagaagc tgagcgcacg cttcggtata caggacggcg aataaagaga
     1621 cgaaaagaac gctcacttag acgaaaagcg tatccagggc aactatgtat atccaccgtg
     1681 tacatagtca tgcctgacgc tttcgagcag gtcgagcatg caggaacgac gagcttgatt
     1741 ggtatcggac acaatatggc gatacgcctc aaacataaca gcacccgcat caccgcccga
     1801 acggcgaagc atagcggaaa tcatccgcac aaagagcaga cgttcatcgg ggcaaaggtt
     1861 cataagttct cctggtgaaa aaccaaacat gaagcaccca tctattaacg tcagctgtga
     1921 acgcttcatt acgcttcatt aaaataggta aacccgggaa aaagatccaa acgttaacat
     1981 cacaggtaaa cagaaacgtc gggtcgatcg ggaaattctt tcccggacgg cgcggggttg
     2041 ggcaagccgc aggcgcgtca gtgcttttag cgggtgtcgg ggcgcagccc tgaaccagtc
     2101 acgtaacgct agcggagtgt atactggctt attatgtagg cacgggtgcg ggaatcagtg
     2161 aagtgcttca tgtggcagga ggaaaatgca gcagcagagc gtaagcggaa tatatgagac
     2221 aggagatatt ccgcttcctc gctcactgac tcgctgcgct cggtcgttcg gctgcggcga
     2281 gcggtgcggg attacgaatg gggcggaaat ttcctgggag atgccaggaa gaaacttaac
     2341 agggaaacgg taaggccgcg gcgaagccgt ttttccatag gctccgcccc cctgacaagc
     2401 atcacgaaat ctgacgctca aatcagtggc ggcgaaaccc gacaggacta taaagatccc
     2461 aggcgtttcc ccctggtagc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg
     2521 gtgtcattcc gctgttatgg ccgcgtttat ctcattccac gcctgacact cagttccggg
     2581 aaggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgactgctgc
     2641 gccttttccg gtaactatcg tcttgagtcc aacccggaaa gacacgaaaa atcgccactg
     2701 gcagcggcca ctggtaaaca ggatgtgcga gagatgtatc gagagttctt gaagtagtgg
     2761 cctgactgag gctacactag aaggacaaat ttggtgacat gtctcgcaca agactgttac
     2821 cacggttaga gaatctgcca ggattatcta accttcgaaa aaccacctgc aagggtggtt
     2881 ttttcgttta cagagcaaga gattacgacg atcgtcaaag gatctcaaga agatccttta
     2941 tggattgcta ccagcgccac tgccgaatgt ggtgcccgtt cccccaacaa taaactataa
     3001 agtttatgca tgtatctacc gatactcctg cgatccctca agaaagtaag gaaagtatcg
     3061 atatgtcatg ggcttatcgt atttcaatgc aaatgaagtt gtttattgca ttattcccgc
     3121 tactgcttgc cttggtctgg ttcgccggtt cgggtattgt cagccgtatc aataccgaac
     3181 agcagatgaa caccattgga cagctcacca cgctcgcccg cagcgcgggt gatgtggtgc
     3241 atcaactcca gagcgaacgt ggaatgagcg ctggatttat cggcgcgcgc ggccaaaagt
     3301 ttcgcgatga cttagctgcc cagcggcagt taaccgacaa ggtgctggca acatttaagc
     3361 ggttgctgac cgatacgaat aaggatttac tccagggaaa tattgccgcc cccctgaaaa
     3421 cgtttaatga aagtattcag tttctcgact caacccgtac cgccatcagc gaattaacta
     3481 tcgattcacc aaaagcgagt cagttctata cccaaaccat ctctgacgtg ctgaagtttg
     3541 tcggcgggat ggggcattta agcacctcag gctcgatggt gaacgaactg gcggcttatt
     3601 atagtctctt gaatttgaag gagcaggctg gtgtagaacg tgcgctgctg tccaatatct
     3661 tctcgatgga tcgctttgac gacggccagt tcagcatgtt tagcgatgtg gtaggccagc
     3721 aggatgcctg gctgacggca gctcgcagct ttagcacacc tgtgcaggcg gctgagctgg
     3781 acaaatctct tcagtccgct gaagcaactc gtgctcttga actgcgggag
//
