LOCUS       CP082461                2285 bp    DNA     circular BCT 11-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Agona strain FSIS1607563
            plasmid pF18S017-2285, complete sequence.
ACCESSION   CP082461
VERSION     CP082461.1
DBLINK      BioProject: PRJNA292666
            BioSample: SAMN05750475
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Agona
  ORGANISM  Salmonella enterica subsp. enterica serovar Agona
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2285)
  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 2285)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (23-JUL-2018) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 2285)
  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                     :: F18S017
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 267x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/02/2021 13:15:02
            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)                     :: 5,063
            CDSs (total)                      :: 4,942
            Genes (coding)                    :: 4,824
            CDSs (with protein)               :: 4,824
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 53 of 118
            Pseudo Genes (incomplete)         :: 67 of 118
            Pseudo Genes (internal stop)      :: 18 of 118
            Pseudo Genes (multiple problems)  :: 18 of 118
            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..2285
                     /organism="Salmonella enterica subsp. enterica serovar
                     Agona"
                     /mol_type="genomic DNA"
                     /strain="FSIS1607563"
                     /serovar="Agona"
                     /isolation_source="Animal-Turkey-Young Turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:58095"
                     /plasmid="pF18S017-2285"
                     /geo_loc_name="USA:MN"
                     /collection_date="2016"
                     /collected_by="USDA-FSIS"
     gene            659..907
                     /locus_tag="BHM61_025275"
     CDS             659..907
                     /locus_tag="BHM61_025275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000508159.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAE55370.1"
                     /translation="MGFWDKAFDVAKTVGKAAWEETKAANERAKQYREEVVSLSDRELA
                     RIIATERHSTPLRAGAAMAELKRRGYANAEEIKALLK"
                     /name="hypothetical protein"
     gene            1683..1877
                     /locus_tag="BHM61_025280"
     CDS             1683..1877
                     /locus_tag="BHM61_025280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="UAE55369.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(1169..1424)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          complement(1549..1647)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1951..2033)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.81"
                     /coverage="100.0"
                     /evalue="1.76e-34"
ORIGIN
        1 gcaatctaaa tcctagcagg gctggctagt attgtcacta ccagcttaat accattcaac
       61 gacattaaac ccatatctgc accttagatg ctcaggtcta cgccccggac tccggcagga
      121 taaacaggca actggtggaa acgtaactta accgcgaaag agttaagctc tgccccgtct
      181 cgctgtacga taactagcac ctgataaaat gagcaactaa ggagctgtaa gaggtaaagt
      241 gtgattgcaa acgtctggca cttcacccac aaaatcaagc cgttgcaagg taagaaaaac
      301 aaagaaacga tctagacgaa ggtcgctacg ctccccgtga tttatacatt acccaccacg
      361 ggggcattag gcttttattg cttttttttg atagttatca tgttcttagt aacactaaga
      421 gcaacctgat agccgtcctc cagcacatcg ttgacaccaa ttaaacggat tatgtagagt
      481 gcactataca attctttgtt taacagaggt ggaaaatggc accaacaata tatagagcta
      541 agtgcttgga ttgtaagcat gaatggacta gcagagcagg ttatgggaca ccagactact
      601 gcccaaaatg ccgtagccgc agaatatcaa catctccgat tggataaagg agaccactat
      661 gggattctgg gataaagctt ttgatgtagc taaaaccgta ggaaaagctg catgggaaga
      721 aacaaaagct gcaaatgaac gagccaagca gtacagagaa gaggtagtgt cacttagcga
      781 tcgcgaacta gcaagaatca ttgcaacaga acgccacagc acaccattaa gagctggcgc
      841 tgcaatggct gagttaaaaa gaagaggcta tgctaatgcc gaagaaataa aagccctcct
      901 aaaataacca tagactccat ttaccataac gtcgcattac gcgcaccgct aaaacgcgct
      961 gaacgcgatt ctgccgcgaa caccgcaaaa agagatgttt taccaagcga aaaccggaaa
     1021 aatgcgtcag gatcgctttc agctcactgc atagctatgc atgaaagtga atggcgatcg
     1081 gtttgggcgc atacggtgcc catgagacac attttcggac attttcagtt cgtgaatccc
     1141 tgactcattg ctacatatct gaacagacac ccctggcagc gcccccaggg gcgtcctgta
     1201 aaaaaacaca ccgcgccgct agcagcaccc ctaatataaa atgatgtttt ttatgaaaat
     1261 agtcagtacc acccctaaaa agcggtgttg gcgcagctac aacaccgcgc cgacaccgct
     1321 tttttaaata tcacaaagag agcaagaaga actaatttgt cataactctc tatttataaa
     1381 gaaaaatcag caaaaaattg tttttgcgtg gggtgtgggc atttcaggca tgagaacaga
     1441 ctcgcgtttt tccggagtat cagcggaatt attgattaag aaacactcga cgcagagcga
     1501 aattttatgc aacagcggct gcactgcaca gggattattt atcagttgat atgctgtgcc
     1561 atgatacgtc ctaaaaaaac aggacaggat gtgcaattgt aataccgtcg cccgcaacgt
     1621 cttacaatta ccacctggtc agggtccacc cgacacccgg tactgacgga gaacaacgga
     1681 aggtgaacaa acagcaacaa actgcgctga atatggcgcg atttatcaaa agccagagcc
     1741 tgacactgct tgaaaaactg gatgctctgg atgccgacga acaggcggcc atgtgcgaac
     1801 gactgcacga actcgcggaa gaactccaga acagcatcca ggttcgcttt gagaccgaaa
     1861 gtgaaacagg aacataacga agctgacgga ggcgctcacg gcttgtccgc gagcgttttc
     1921 ggcagcagac aagcccgcca gggcgcgtca gcgggtgtcg gggcgaagcc ctgacccagt
     1981 cacgtagcga tagcggagtg tatactggct taactatgcg gcatcaatgc agattgtatg
     2041 aaaagtgccc catgccgggt gtgaaatacc gcacagatgc gtaaggagaa aatgccgcat
     2101 caggcgcact tccgcttcct cgctcactga ctcgctacgc tcggtcgttc ggctgcggcg
     2161 agcggtgaaa acgatctgac atgatcaaaa tgatcttcat gcgctaaatg tacaaaagcc
     2221 ccgtgacaga atcacagggc ttcggtactc taattctttg cagatacctg ccaggatcag
     2281 acgta
//
