LOCUS       CP082408                3830 bp    DNA     circular BCT 11-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Ohio strain FSIS11705518
            plasmid pF18S036-2, complete sequence.
ACCESSION   CP082408
VERSION     CP082408.1
DBLINK      BioProject: PRJNA292666
            BioSample: SAMN08114325
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)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JUL-2018) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (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                     :: F18S036
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 745x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/02/2021 11:33:39
            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)                     :: 4,919
            CDSs (total)                      :: 4,798
            Genes (coding)                    :: 3,982
            CDSs (with protein)               :: 3,982
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 816
            CDSs (without protein)            :: 816
            Pseudo Genes (ambiguous residues) :: 0 of 816
            Pseudo Genes (frameshifted)       :: 741 of 816
            Pseudo Genes (incomplete)         :: 79 of 816
            Pseudo Genes (internal stop)      :: 27 of 816
            Pseudo Genes (multiple problems)  :: 26 of 816
            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="FSIS11705518"
                     /serovar="Ohio"
                     /isolation_source="animal-swine-sow"
                     /sub_species="enterica"
                     /db_xref="taxon:117541"
                     /plasmid="pF18S036-2"
                     /geo_loc_name="USA:WI"
                     /collection_date="2017"
                     /collected_by="USDA-FSIS"
     gene            complement(join(3404..3830,1..1478))
                     /locus_tag="CW090_024585"
     CDS             complement(join(3404..3830,1..1478))
                     /locus_tag="CW090_024585"
                     /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="UAF33805.1"
                     /translation="MSWAYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="nitrate- and nitrite sensing domain-containing
                     protein"
     gene            2678..2878
                     /locus_tag="CW090_024590"
     CDS             2678..2878
                     /locus_tag="CW090_024590"
                     /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="UAF33806.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(2926..3114)
                     /locus_tag="CW090_024595"
     CDS             complement(2926..3114)
                     /locus_tag="CW090_024595"
                     /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="UAF33804.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2296..2468
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.805"
                     /coverage="100.0"
                     /evalue="4.41e-59"
     Typing          complement(1775..2371)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.211"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttggtctgga aagaaatctc atcaattgac gcaacaatct gggaaatctg ctcgctggaa
       61 gaacgaattt ccgccatgct ctgactggcc tcgttagaga cgcgattagc ttccagtacg
      121 tcccgctcca tcgaatgtat cagacgctcc gcctcgctgg cgttatcggc ggtctgggtg
      181 atcgcagtag aaatctgctc catgctggcg gccgtttcca caatcgatgc cgcctgttca
      241 tccgtacgct gggccagatc ctgattaccg gcagcgatat cactactggc gctacgcaac
      301 accaccgcac cggacttaat ttcttgcacg atatgctgaa tattctcaat cgcttggtta
      361 taggcacggt tcagggctga gagctcgtcg ctgccgggga cgtcaagacg acgtgtcagg
      421 tcgccgtcca tctctgcgat ggttttcagc gtaccgttca gttgctgctg gatactgcgt
      481 gccaccatca ccgcaaaggc gatagcaatc agtagggcaa ccaggctgat taccaggaag
      541 gactgccagt cgacacgggc attgtgggca agcagcgcag catgttcctg caaggcatcc
      601 accgcgcgat tttccacctt ttgcagcgtt tcaatacgct gggtctgaag gttaaaccag
      661 tcagtcgggt tgactccaaa tccgccttcg gcggctttat taaaagccgt ctcccgcagt
      721 tcaagagcac gagttgcttc agcggactga agagatttgt ccagctcagc cgcctgcaca
      781 ggtgtgctaa agctgcgagc tgccgtcagc caggcatcct gctggcctac cacatcgcta
      841 aacatgctga actggccgtc gtcaaagcga tccatcgaga agatattgga cagcagcgca
      901 cgttctacac cagcctgctc cttcaaattc aagagactat aataagccgc cagttcgttc
      961 accatcgagc ctgaggtgct taaatgcccc atcccgccga caaacttcag cacgtcagag
     1021 atggtttggg tatagaactg actcgctttt ggtgaatcga tagttaattc gctgatggcg
     1081 gtacgggttg agtcgagaaa ctgaatactt tcattaaacg ttttcagggg ggcggcaata
     1141 tttccctgga gtaaatcctt attcgtatcg gtcagcaacc gcttaaatgt tgccagcacc
     1201 ttgtcggtta actgccgctg ggcagctaag tcatcgcgaa acttttggcc gcgcgcgccg
     1261 ataaatccag cgctcattcc acgttcgctc tggagttgat gcaccacatc acccgcgctg
     1321 cgggcgagcg tggtgagctg tccaatggtg ttcatctgct gttcggtatt gatacggctg
     1381 acaatacccg aaccggcgaa ccagaccaag gcaagcagta gcgggaataa tgcaataaac
     1441 aacttcattt gcattgaaat acgataagcc catgacatat cgatactttc cttactttct
     1501 tgagggatcg caggagtatc ggtagataca tgcataaact ttatagttta ttgttggggg
     1561 aacgggcacc acattcggca gtggcgctgg tagcaatcca taaaggatct tcttgagatc
     1621 ctttgacgat cgtcgtaatc tcttgctctg taaacgaaaa aaccaccctt gcaggtggtt
     1681 tttcgaaggt tagataatcc tggcagattc tctaaccgtg gtaacagtct tgtgcgagac
     1741 atgtcaccaa atttgtcctt ctagtgtagc ctcagtcagg ccactacttc aagaactctc
     1801 gatacatctc tcgcacatcc tgtttaccag tggccgctgc cagtggcgat ttttcgtgtc
     1861 tttccgggtt ggactcaaga cgatagttac cggaaaaggc gcagcagtcg gactgaacgg
     1921 ggggttcgtg catacagtcc agcttggagc gaactgcctt cccggaactg agtgtcaggc
     1981 gtggaatgag ataaacgcgg ccataacagc ggaatgacac cggtaaaccg aaaggcagga
     2041 acaggagagc gcacgaggga gctaccaggg ggaaacgcct gggatcttta tagtcctgtc
     2101 gggtttcgcc gccactgatt tgagcgtcag atttcgtgat gcttgtcagg ggggcggagc
     2161 ctatggaaaa acggcttcgc cgcggcctta ccgtttccct gttaagtttc ttcctggcat
     2221 ctcccaggaa atttccgccc cattcgtaat cccgcaccgc tcgccgcagc cgaacgaccg
     2281 agcgcagcga gtcagtgagc gaggaagcgg aatatctcct gtctcatata ttccgcttac
     2341 gctctgctgc tgcattttcc tcctgccaca tgaagcactt cactgattcc cgcacccgtg
     2401 cctacataat aagccagtat acactccgct agcgttacgt gactggttca gggctgcgcc
     2461 ccgacacccg ctaaaagcac tgacgcgcct gcggcttgcc caaccccgcg ccgtccggga
     2521 aagaatttcc cgatcgaccc gacgtttctg tttacctgtg atgttaacgt ttggatcttt
     2581 ttcccgggtt tacctatttt aatgaagcgt aatgaagcgt tcacagctga cgttaataga
     2641 tgggtgcttc atgtttggtt tttcaccagg agaacttatg aacctttgcc ccgatgaacg
     2701 tctgctcttt gtgcggatga tttccgctat gcttcgccgt tcgggcggtg atgcgggtgc
     2761 tgttatgttt gaggcgtatc gccatattgt gtccgatacc aatcaagctc gtcgttcctg
     2821 catgctcgac ctgctcgaaa gcgtcaggca tgactatgta cacggtggat atacatagtt
     2881 gccctggata cgcttttcgt ctaagtgagc gttcttttcg tctctttatt cgccgtcctg
     2941 tataccgaag cgtgcgctca gcttctgata aagcgcttct gcctgttcgt gcattcgctc
     3001 acagtcggct gcctcgtcat caagatcgag cacgtcgagt ttttcgagca gcagcagcga
     3061 ctgcgcccgg ataaattttg ccatgttcag tgcggctgat tcctgttttg tcatacggct
     3121 ttttcccggt tttatggtga tcgcagactg aaatcttact tcattcactt gagtgcatag
     3181 ccatgcaggt acgcagaaat catcaggggc gttttttctc gatatgggca cagaaaggtg
     3241 tatgtttcag gtcggagtcc tcagaaacgc tctcagagcc tctcaggcgg tgcacgcaac
     3301 gggagttatg gtaaatccta gttatttgca ggcataaaaa agccgccttt taggcggttt
     3361 tttctgattg taagttatca agaccggatg ctgaacggca gtatcagaca ataaagcgat
     3421 cgaccagcgt ggacatcgct tcagactggc cgtccagcat ctggctggcg ctcgccgcct
     3481 gagagaccag cgctgcgttt tgctgagtga cctgctccag ctgattcagt gcctgatgca
     3541 cctgcgacac gccaagcgac tgctcattcg ccgcacgggc aatatcgctc acgtactgtt
     3601 tcatccgccc ggtattttcc gccgctgctt tcagcgcggt gccggacgcg gtgactcgtg
     3661 ctaccccttc gccaatctta tccatattct ggttaatcag ctcacggatc tgactggcct
     3721 ctcgtgcaca gcgctgggaa aggttacgca cctccgtcgc cactaccgca aagcctttgc
     3781 caagctcacc ggcacgtgcc gcttcaacgg cggcgttaag cgccagcaag
//
