LOCUS       CP082590                2421 bp    DNA     circular BCT 13-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain CVM
            N18S0736 plasmid pN18S0736-6, complete sequence.
ACCESSION   CP082590
VERSION     CP082590.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN12930391
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
  ORGANISM  Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2421)
  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 2421)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (07-OCT-2019) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 2421)
  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                   :: 503x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/01/2021 16:59:44
            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)                     :: 4,862
            CDSs (total)                      :: 4,741
            Genes (coding)                    :: 4,642
            CDSs (with protein)               :: 4,642
            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)              :: 99
            CDSs (without protein)            :: 99
            Pseudo Genes (ambiguous residues) :: 0 of 99
            Pseudo Genes (frameshifted)       :: 37 of 99
            Pseudo Genes (incomplete)         :: 63 of 99
            Pseudo Genes (internal stop)      :: 22 of 99
            Pseudo Genes (multiple problems)  :: 19 of 99
            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..2421
                     /organism="Salmonella enterica subsp. enterica serovar
                     4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S0736"
                     /serovar="SI 4,5,12:i:-"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:440524"
                     /plasmid="pN18S0736-6"
                     /geo_loc_name="USA:NY"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            join(2381..2421,1..160)
                     /locus_tag="F9183_023755"
     CDS             join(2381..2421,1..160)
                     /locus_tag="F9183_023755"
                     /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="UAH92556.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(208..396)
                     /locus_tag="F9183_023760"
     CDS             complement(208..396)
                     /locus_tag="F9183_023760"
                     /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="UAH92557.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(648..965)
                     /locus_tag="F9183_023765"
     CDS             complement(648..965)
                     /locus_tag="F9183_023765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000718044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAH92558.1"
                     /translation="MKKIFILSAALIMAGCATKQYPQAANVTGPESSAMDCKAVALEIA
                     KTRSVQQEIEATGEFDGRTVLGFLGDFGIGNGMAKGEARKKAANRLNQLEALKAAKCAD
                     Q"
                     /name="hypothetical protein"
     Typing          complement(1173..1693)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.868"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gatttccgct atgcttcgcc gttcgggcgg tgatgcgggt gctgttatgt ttgaggcgta
       61 tcgccatatt gtgtccgata ccaatcaagc tcgtcgttcc tgcatgctcg acctgctcga
      121 aagcgtcagg catgactatg tacacggtgg atatacatag ttgccctgga tacgcttttc
      181 gtctaagtga gcgttctttt cgtctcttta ttcgccgtcc tgtataccga agcgtgcgct
      241 cagcttctga taaagcgctt ctgcctgttc gtgcattcgc tcacagtcgg ctgcctcgtc
      301 atcaagatcg agcacgtcga gtttttcgag cagcagcagc gactgcgccc ggataaattt
      361 tgccatgttc agtgcggctg attcctgttt tgtcatacgg ctttttcccg gttttatggt
      421 gatcgcagac tgaaatctta cttcattcac ttgagtgcat agccatgcag gtacgcagaa
      481 atcatcagcg cgtttctgag cggttttcag ggggtaagat gtgttctttt gcaggtgagg
      541 tcgtagaaac gccctgagag cctctcaggc ggtgcacgca acagatgtta tggtaaatcc
      601 agctgattgg caggtacaaa aaaagcccgg cagggctttt ttgtacctta ttgatctgca
      661 cactttgcag ccttcagggc ttccagctga tttagccggt tagctgcttt tttgcgggct
      721 tcgccttttg ccatgccatt tcctatccca aaatcaccca ggaaacctaa tacggtgcgc
      781 ccgtcaaatt cgccggttgc ctcaatttct tgttgtacac tgcgcgtttt ggcgatttcc
      841 agagctaccg ctttgcaatc cattgcggaa gattctggac cggtgacgtt cgcggcctgt
      901 ggatattgct ttgttgcgca tcctgccatg atcagcgctg ccgataggat gaatattttt
      961 ttcaaaatta tccttattta tttaggcata gttaagagat acccatttta tcatttaggc
     1021 atagttaaga gatacccatt ttatcggcag gaaatgaggg ttttttagtt gaattttggg
     1081 aggggcaagg ttccatattg gtcgaggatt ctggagctga ccggcaacgg ccagcgcggc
     1141 tatgggccat gcggtggttg agcatagaaa ggatcttctt gagttccttt ttttctacgc
     1201 gtaatctctt gctctgaaaa cgaaaaaacc acctggggag gtggtttttc gaaggttaag
     1261 tcagttgggg aactgcttaa cctggtaact ggcttcagca gagcgcagat accaaatact
     1321 gtccttccag tgtagccgta gttaggccac cacttcaaga actctatagc accacctaaa
     1381 ttaactcgct ctgctaatcc tgttaccagt ggctgctgcc agtggcgctt tgtcgtgtct
     1441 ttccgggttg gactcaagac gatagttacc ggataaggcg cagcagtcgg actgaacggg
     1501 gggttcgtgc atacagtcca gcttggagcg aactgccttc ccggaactga gtgtcaggcg
     1561 tggaatgaga taaacgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa
     1621 caggagagcg cacgagggag ccaccagggg gaaacgcctg gtatctttaa gtcctgtcgg
     1681 gtttcgccac cactgatttg agcgtcagat ttcgtgatgc ttgtcagggg ggcggagcct
     1741 atggaaaacc ggcaacgccg cggccttttc ttttgcctct cgatcctctc tcattgcctg
     1801 tgccttaatg tctccgttcc ctccgctcgc cgcagccgaa cgaccgagcg tagcgagtca
     1861 gtgagcgagg aagcggaata tccccggact tatcttcggc accgtacgcg ccagtgctgc
     1921 attttttaat acgatgcagg atagggcaaa cgccgcaaaa tgacgtcatc cgacatcatt
     1981 ccgccgcgtt cgtccagtga cctacagtcg gctctggggt gtcggggctg tgccctgacc
     2041 aggcgttttg gagtatcgcc accgtggtgg cggtgctaca aaacatatcc tgtcccttcc
     2101 ttggcatctc tgaagtttag ccagtataca ctccgctagc gctacgtgac tggttcaggg
     2161 ctgcgccccg acacccgcta aaagcactga cgcgcctgcg gcttgcccaa ccccgcgccg
     2221 tccgggaaag aatttcccga tcgacccgac gtttctgttt acctgtgatg ttaacgtttg
     2281 gatctttttc ccgggtttac ctattttctt ctaatgaagc gttcacagct gacgttaata
     2341 gatgggtgct ttcatgtttg gtttttcacc aggagaactt atgaaccttt gccccgatga
     2401 acgtctgctc tttgtgcgga t
//
