LOCUS       CP082613                5202 bp    DNA     linear   BCT 14-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Reading strain CVM
            N18S0035 plasmid pN18S0035-3.
ACCESSION   CP082613
VERSION     CP082613.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN12586937
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Reading
  ORGANISM  Salmonella enterica subsp. enterica serovar Reading
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5202)
  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 5202)
  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 5202)
  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                   :: 616x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 08/31/2021 13:53:09
            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)                     :: 4,524
            CDSs (total)                      :: 4,404
            Genes (coding)                    :: 4,302
            CDSs (with protein)               :: 4,302
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 102
            CDSs (without protein)            :: 102
            Pseudo Genes (ambiguous residues) :: 0 of 102
            Pseudo Genes (frameshifted)       :: 46 of 102
            Pseudo Genes (incomplete)         :: 56 of 102
            Pseudo Genes (internal stop)      :: 23 of 102
            Pseudo Genes (multiple problems)  :: 20 of 102
            CRISPR Arrays                     :: 1
            ##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..5202
                     /organism="Salmonella enterica subsp. enterica serovar
                     Reading"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S0035"
                     /serovar="Reading"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:165302"
                     /plasmid="pN18S0035-3"
                     /geo_loc_name="USA:MO"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            complement(594..1583)
                     /locus_tag="FWK53_22560"
     CDS             complement(594..1583)
                     /locus_tag="FWK53_22560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="UAH46144.1"
                     /translation="MKNPELQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRLKDRKEFRPVQGWIRTTEVTRSS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYDPNVDVRAVKPRKPKDG
                     ESLAGATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     gene            complement(2821..3810)
                     /locus_tag="FWK53_22565"
     CDS             complement(2821..3810)
                     /locus_tag="FWK53_22565"
                     /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="UAH46145.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     gene            complement(4917..5159)
                     /locus_tag="FWK53_22570"
     CDS             complement(4917..5159)
                     /locus_tag="FWK53_22570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020324558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="UAH46146.1"
                     /translation="MVADPEWFLELTRQTHKRRFVATGGALKDVLKLDQETDADMVIGD
                     DISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(511..591)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="90.0"
                     /evalue="5.64e-30"
     Typing          complement(2738..2819)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(4834..4915)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          677..868
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.891"
                     /coverage="100.0"
                     /evalue="2.88e-86"
     Typing          2904..3095
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.964"
                     /coverage="100.0"
                     /evalue="6.14e-93"
     Typing          5000..5190
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="1.03e-90"
ORIGIN
        1 ttctgtttga cgaatcaggg aacggtgaac ggtacgcgga attttttcgc gttccgtgag
       61 gcttggcggg tgtcggggcg cagtcctgac caggttcgta gaaccgcacg ggttgcaaag
      121 gggtgtcccc tttggcacaa gcgacggagc gaaacgcccc gttttgtgta cgccgcttat
      181 cgtgcctgtg ttttaggaga acaaaaaaat gccgtgcata cagcccacac aatgacccac
      241 ataatcaccc acaactcaaa acacacagcc cacacaatca cccacacttt aacccacaaa
      301 aaagaccaca accccattga caccccacaa aacaacccac acaaacggcg agtaaatcat
      361 tttgccgttt tcgtgccgca gccgttccgc gcaatcgaca aactggcagt cagggaatct
      421 cacgaagtgc gcacttatac aaactcacct taggttcgtt tgtcgtgcgg tctgcgacgc
      481 tcaaaaaacc gagaaacggc gggaattttc gggacaggat gtgcaattgt aataccgtca
      541 cacgcgacgc tatcacaatt gccatctggt cagggctgca ccccgacacc ctgctagtct
      601 gattcagttt tatctttcgt cggtgagcga cggtactttc tgacctcggt tttccactcg
      661 aacgcgatgc gtgaaccgtc atcgtcaccc tcggaaatat catccccaat caccatgtcg
      721 gcatcggttt cctgatcgag cttcagtacg tctttgagtg caccgccggt cgccacaaag
      781 cggcgcttgt gcgtctggcg ggtcagttcg aggaaccatt caggatcggc caccatgtca
      841 gccggcttcg tggaatattt cagggtttcg gccaccgcac cgcgcaccag ttcggcagtg
      901 gcaccggcca gcgattcgcc atcctttggc ttacggggtt ttactgcccg gacatcaaca
      961 ttcgggtcgt aactgacccg caggcactcc cgccagagtt caacccagcg agcatgtttt
     1021 acgtaaccgt caccagatag cattgagggc ggcaccatca tcagggtgtg gaagtgggga
     1081 tgtgcgctgc cgtcactgct gcgggtgact tccgtggtgc gtatccagcc ctgaacaggc
     1141 cggaactcct tgcgatcctt cagtcgctgg aaagctgcat tcatccggtt cagcatctcg
     1201 cccagctccc cgatcgcaca gttgcgcacg gtcagggtca ggaacatcca gcgggcatca
     1261 gggtaatccg ccacgatacg cggcagggac tggtagaaac gggcttgcca catcagggag
     1321 cgcctccact ggcagacagg acagtgccgg acacggcaga aatgcgcctc acgcagcctc
     1381 agacgcgttt ctccggtttc cttgagggta gaccacccga aacgcaataa accgccacag
     1441 agggccatac gcgccccgta gcgctcatat tcggccgcaa gcaggtaaat ccctcccacg
     1501 tcgtcagaaa cgcttctgtg agcgtcccag ggcgcatctg agggggaata gtccgtgagg
     1561 ttctggagtt caggattttt catgcacacc acccgattgt gggcgatggc tcatctgacg
     1621 tgttatcatt gccatatcac ctgtgttagc cgtatcacca attcgaatct ctacaggtgg
     1681 tcacgccccc gaacgatgcc cgtcgttgcg ggggtcactt ttaacgcgac cacttccgac
     1741 agaatacttc caaacccatt tcggagcaaa tgtgccctca agccttgcgg gacaagggct
     1801 ggaggccaat ttgaatccca gagttatccc ttaagtataa atacaaggaa cgcgcgcgag
     1861 ctttgagcaa aaaataaacg caaaatcagc gctttttcac aaccaaaaac ctcaacaaca
     1921 ccagaagcgg gatcgcaatg ctaagcgccg catcaatgcg atcaaaagcc tcaaaaaaca
     1981 tcttcacctc ccacaaagtt ttataaatct atctggtttg tgattttcgc atccgtgttt
     2041 tcgttttgca gtactgccaa tttaatttca tacgttaaaa ccatatccag cagcagatct
     2101 ttcaaaccgc ctcgcaggtg gttggtctca ctgcgtgaca ccaaccacca tccccagtgt
     2161 ttttcccgtg ccgtcgtcaa tcacaaaatc ggaacccacg ccggaggcgc gggcccccgc
     2221 gattttctgt ttgacgaatc agggaacggt gaacggtacg cggaattttt tcgcgttccg
     2281 tgaggcgttg gcggggtgtc ggggcgcagt cctgaccagg ttcgtagaac cgcacagggt
     2341 tgcaaagggg tgtccccttt ggcacaagcg acggagcgaa acgccccgtt ttgtgtacgc
     2401 cgcttatcgt gcctgtgttt taggagaaca aaaaaatgcc gtgcatacag cccacacaat
     2461 gacccacata atcacccaca actcaaaaca cacagcccac acaatcaccc acactttaac
     2521 ccacaaaaaa gaccacaacc ccattgacac cccacaaaac aacccacaca aacggcgagt
     2581 aaatcatttt gccgttttcg tgccgcagcc gttccgcgca atcgacaaac tggcagtcag
     2641 ggaatctcac gaagtgcgca cttatacaaa ctcaccttag gttcgtttgt cgtgcggtct
     2701 gcgacgctca aaaaaccgag aaacggcggg aattttcggg acaggatgtg taattgtaat
     2761 accgtcacac gcgacgctat cacaattgcc atctggtcag gggtgcaccc cgacaccccg
     2821 ctagcctgat tcagttttat ctttcgtcgg tgagcgacgg tactttctga cctcggtttt
     2881 ccactcgaac gcgattcgtg aaccgtcatc gtcgccctcg gaaatatcat caccgatcac
     2941 catgtcggcg tcagtttcct gatcgagttt cagcacgtct ttgagtgcgc cgccggtcgc
     3001 cacaaagcgg cgcttgtgcg tctggcgggt cagttcgagg aaccattcag gatcggccac
     3061 catgtcagcc ggcttcgtgg aatatttcag ggtttcggcc accgcaccgc gcaccagttc
     3121 ggcggtcgcg caggccagcg attcgccgcc cttcggctta cgaggtttca ctgcccggac
     3181 atcaacattc gggtcataat cgacccgcag acactcccgc cagagttcaa cccagcgttc
     3241 atgcctgacg taacttttcc catttagcat gccaggcggc accatcatca gggtgtggaa
     3301 gtgcgggtgt gcgctgccgt cgctcccgcg ggtgacttcc gtggtacgta tccagccctg
     3361 cacaggccgg aactccttgc gaaccttcat gcgctgaaaa gctgcattca tccggttcag
     3421 catctcgccc agctccccga tcgcacagtt gcgcacggtc agagtcagga acatccagcg
     3481 ggcatcggga taatccgcca cgatacgcgg cagggactgg tagaaacggg cttgccacat
     3541 cagggagcgc ctccactggc agacaggaca atgccggaca cggcagaaat gcgcctcacg
     3601 cagcctcaga cgcgtttctc cggtttcctt gagggtagac cacccgaaac gcagtaaacc
     3661 accacagagg gccatacgcg ccccgtagcg ctcatattcg gctgcaagca ggtaaatccc
     3721 tcccacgtca tcagaaacgc ttctgtgagc gtcccagggc gcatctgagg gggaatagtc
     3781 cgtgaggttc tggagatcag ggtttttcat gcgcaccacc cgatagtggg cgatggctca
     3841 tctgacgtgt tatcattgcc atatcacctg ttgtgttagt cgtatcacca attcgaattc
     3901 ctacaggtgg tcacaccccc gaacgattgc cctcgttgcg ggggtcgctt ttaatgcgac
     3961 cactcccgac agaataactc caaaaccatt ttccgacaaa tcccccttca ggccttgcgg
     4021 cacaagggct ggaggcgaat ttgaatccta gagttatccc ttaagtataa atacaaggat
     4081 cgcgcgcgac attcgcttga attttgagcg ggattttcag tcacccaaaa cacccaaccc
     4141 cacccactta cacccatctc atccacagac tttcaccccg attttgtgaa caacaaaaaa
     4201 aaccgtcttg caggtggttg gcctcactgc gtgacaccaa ccaccatccc cagtgttttt
     4261 cccgtgccgt cgtcaatcac aaaatcggaa cccacgccgg aggcgcgggc ccccgcgatt
     4321 ttctgtttga cgaatcaggg aacggtgaac ggtacgcgga attttttcgc gttccgtgag
     4381 gcgttggcgg ggtgtcgggg cgcagtcctg accaggttcg tagaaccgca cagggttgca
     4441 aaggggtgtc ccctttggca caagcgacgg agcgaaacgc cccgttttgt gtacgccgct
     4501 tatcgtgcct gtgttttagg agaacaaaaa aatgccgtgc atacagccca cacaatgacc
     4561 cacataatca cccacaactc aaaacacaca gcccacacaa tcacccacac tttaacccac
     4621 aaaaaagacc acaaccccat tgacacccca caaaacaacc cacacaaacg gcgagtaaat
     4681 cattttgccg ttttcgtgcc gcagccgttc cgcgcaatcg acaaactggc agtcagggaa
     4741 tctcacgaag tgcgcactta tacaaactca ccttaggttc gtttgtcgtg cggtctgcga
     4801 cgctcaaaaa accgagaaac ggcgggaatt ttcgggacag gatgtgtaat tgtaataccg
     4861 tcacacgcga cgctatcaca attgccatct ggtcaggggt gcaccccgac accccgctag
     4921 cctgattcag ttttatcttt cgtcggtgag cgacggtact ttctgacctc ggttttccac
     4981 tcgaacgcga ttcgtgaacc gtcatcgtcg ccctcggaaa tatcatcacc gatcaccatg
     5041 tcggcgtcag tttcctgatc gagtttcagc acgtctttga gtgcgccgcc ggtcgccaca
     5101 aagcggcgct tgtgcgtctg gcgggtcagt tcgaggaacc attcaggatc ggccaccatg
     5161 tcagccggct tcgtggaata ttcagggttt cggccaccgc ac
//
