LOCUS       CP082527                2096 bp    DNA     circular BCT 13-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain CVM
            N18S2170 plasmid pN18S2170, complete sequence.
ACCESSION   CP082527
VERSION     CP082527.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN12587126
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2096)
  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 2096)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (16-AUG-2019) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 2096)
  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
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 493x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 08/30/2021 16:43:32
            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)                     :: 4,851
            CDSs (total)                      :: 4,729
            Genes (coding)                    :: 4,621
            CDSs (with protein)               :: 4,621
            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)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 36 of 108
            Pseudo Genes (incomplete)         :: 70 of 108
            Pseudo Genes (internal stop)      :: 23 of 108
            Pseudo Genes (multiple problems)  :: 18 of 108
            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..2096
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S2170"
                     /serovar="Typhimurium"
                     /isolation_source="Chicken Breasts"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pN18S2170"
                     /geo_loc_name="USA:PA"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            complement(894..1883)
                     /locus_tag="FWW92_024255"
     CDS             complement(894..1883)
                     /locus_tag="FWW92_024255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="UAI75390.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(811..892)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          977..1168
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.964"
                     /coverage="100.0"
                     /evalue="6.14e-93"
ORIGIN
        1 aagggctgga ggcgaatttg aatcctagag ttatccctta agtataaata caaggatcgc
       61 gcgcgagatt cgcttgaatt ttgagcggga ttttcagtaa cccaaaacac ccaaccccac
      121 ccacttacac ccatctcatc cacagacttt caccccgatt ttgtgaacaa caaaaaaaac
      181 cgtcttgcag gtggttggcc tcactgcgtg acaccaacca ccatccccag tgtttttccc
      241 gtgccgtcgt caatcacaaa atcggaaccc acgccggagg cgcgggcccc cgcgattttc
      301 tgtttgacga atcagggaac ggtgaacggt acgcggaatt ttttcgcgtt ccgtgaggcg
      361 ttggcggggt gtcggggcgc agtcctgacc aggttcgtag aaccgcacag ggttgcaaag
      421 gggtgtcccc tttggcacaa gcgacggagc gaaacgcccc gttttgtgta cgccgcttat
      481 cgtgcctgtg ttttaggaga acaaaaaaat gccgtgcata cagcccacac aatgacccac
      541 ataatcaccc acaactcaaa acacacagcc cacacaatca cccacacttt aacccacaaa
      601 aaagaccaca accccattga caccccacaa aacaacccac acaaacggcg agtaaatcat
      661 tttgccgttt tcgtgccgca gccgttccgc gcaatcgaca aactggcagt cagggaatct
      721 cacgaagtgc gcacttatac aaactcacct taggttcgtt tgtcgtgcgg tctgcgacgc
      781 tcaaaaaacc gagaaacggc gggaattttc gggacaggat gtgtaattgt aataccgtca
      841 cacgcgacgc tatcacaatt gccatctggt caggggtgca ccccgacacc ccgctagcct
      901 gattcagttt tatctttcgt cggtgagcga cggtactttc tgacctcggt tttccactcg
      961 aacgcgattc gtgaaccgtc atcgtcgccc tcggaaatat catcaccgat caccatgtcg
     1021 gcgtcagttt cctgatcgag tttcagcacg tctttgagtg cgccgccggt cgccacaaag
     1081 cggcgcttgt gcgtctggcg ggtcagttcg aggaaccatt caggatcggc caccatgtca
     1141 gccggcttcg tggaatattt cagggtttcg gccaccgcac cgcgcaccag ttcggcggtc
     1201 gcgcaggcca gcgattcgcc gcccttcggc ttacgaggtt tcactgcccg gacatcaaca
     1261 ttcgggtcat aatcgacccg cagacactcc cgccagagtt caacccagcg ttcatgcctg
     1321 acgtaacttt tcccatttag catgccaggc ggcaccatca tcagggtgtg gaagtgcggg
     1381 tgtgcgctgc cgtcgctccc gcgggtgact tccgtggtac gtatccagcc ctgcacaggc
     1441 cggaactcct tgcgaacctt catgcgctga aaagctgcat tcatccggtt cagcatctcg
     1501 cccagctccc cgatcgcaca gttgcgcacg gtcagagtca ggaacatcca gcgggcatcg
     1561 ggataatccg ccacgatacg cggcagggac tggtagaaac gggcttgcca catcagggag
     1621 cgcctccact ggcagacagg acaatgccgg acacggcaga aatgcgcctc acgcagcctc
     1681 agacgcgttt ctccggtttc cttgagggta gaccacccga aacgcagtaa accaccacag
     1741 agggccatac gcgccccgta gcgctcatat tcggctgcaa gcaggtaaat ccctcccacg
     1801 tcatcagaaa cgcttctgtg agcgtcccag ggcgcatctg agggggaata gtccgtgagg
     1861 ttctggagat cagggttttt catgcgcacc acccgatagt gggcgatggc tcatctgacg
     1921 tgttatcatt gccatatcac ctgttgtgtt agtcgtatca ccaattcgaa ttcctacagg
     1981 tggtcacacc cccgaacgat tgccctcgtt gcgggggtcg cttttaatgc gaccactccc
     2041 gacagaataa ctccaaaacc attttccgac aaatccccct tcaggccttg cggcac
//
