LOCUS       CP082687                2511 bp    DNA     circular BCT 09-SEP-2021
DEFINITION  Salmonella enterica subsp. enterica serovar Bredeney strain CVM
            N18S0406 plasmid pN18S0406-6, complete sequence.
ACCESSION   CP082687
VERSION     CP082687.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN11967990
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Bredeney
  ORGANISM  Salmonella enterica subsp. enterica serovar Bredeney
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2511)
  AUTHORS   Li,C., Tyson,G., Hsu,C.-H., Harrison,L., Strain,E., Tran,T.-T.,
            Tillman,G., Dessai,U., McDermott,P. and Zhao,S.
  TITLE     Long-read sequencing reveals evolution and acquisition of
            antimicrobial resistance and virulence genes in Salmonella enterica
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2511)
  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 2511)
  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                   :: 313x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 08/31/2021 14:41:29
            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)                     :: 4,842
            CDSs (total)                      :: 4,722
            Genes (coding)                    :: 4,604
            CDSs (with protein)               :: 4,604
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 45 of 118
            Pseudo Genes (incomplete)         :: 77 of 118
            Pseudo Genes (internal stop)      :: 19 of 118
            Pseudo Genes (multiple problems)  :: 21 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..2511
                     /organism="Salmonella enterica subsp. enterica serovar
                     Bredeney"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S0406"
                     /serovar="Bredeney"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:134047"
                     /plasmid="pN18S0406-6"
                     /geo_loc_name="USA:MD"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            complement(386..529)
                     /locus_tag="FH339_001025"
     CDS             complement(386..529)
                     /locus_tag="FH339_001025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UAH60651.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHVKTPLAAATGKGYTRLLVQ
                     SS"
                     /name="replication initiation protein"
     gene            complement(1690..1875)
                     /locus_tag="FH339_001030"
     CDS             complement(1690..1875)
                     /locus_tag="FH339_001030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012814655.1"
                     /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="UAH60649.1"
                     /translation="MTRQESAALNMAKFIRSQTLLLLERLEQMDLDEAAGCCEHLHDQA
                     EALYTMLNAQTGEEDA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2242..2469)
                     /locus_tag="FH339_001035"
     CDS             complement(2242..2469)
                     /locus_tag="FH339_001035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="UAH60650.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPKES
                     DSGLLGYTDANGVKQQINKTDVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     Typing          1564..1643
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.67e-34"
     Typing          complement(365..925)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.339"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 ctaactatag gtcatttttt atgtgaaaag aggcttgatg gtgggctgca tatcgagtta
       61 ggtgcgaggt gttatggtta aagtgtggtg tctggcgggg agggggcagt gcgggcttat
      121 atctgatgta atccgaccga tacatatacc aagatgattt aagtattcct ctttgtgagg
      181 ttggatgtct aatttataaa aggatcttct tgagatcctt ttttttcgcg cgtaatctct
      241 tgccctgtaa acgaaaaaac cacccggcaa ggtggttttt cgaaggttca gcaaaccggc
      301 aagtttctga accgtggtaa cagggtgtac aagaccgctg ccaccaaatt tgtccttcta
      361 gtgtagccgc agtcaggcgt caacttcaag aactctgcac cagtaatctt gtatacccct
      421 taccagtggc cgctgccagt ggcgttttta cgtgtctttc cgggttggac tcaagacgat
      481 agttaccgga taaggcgcag cagtcggact gaacgggggg ttcgtgcata cagtccatcc
      541 tggagcgaac tgccttcccg gaaccgagtg tcaggcgtgg aatgagaaac cgcggccata
      601 acagcggagt gacaccggta aaccgaaagg caggaatgcg ggggagcacg agggagccat
      661 cagggggaaa cgcctggtat ctttaagccg catcgggttt cgccaccact gatttgagcg
      721 tcagatttcg tgatgctcgt caggggggcg gagcctatgg aaaaacggct tcggcgcggc
      781 cttatgcctt cttcgctaag tatcttcctg gcatccccta gctggcatcc cctaggaaat
      841 ttctgctcca cccgtaagcc cgtaccgctc gccgcagccg aacgaccgag cgcagcgagt
      901 gagtgagcga ggaagcggaa tatatcctgt attacatttt ctcctgacgc gttttctttc
      961 attttctgcg cctgtcttat gtagcagtta tgctatgcgt tactgcggtg ttacatttta
     1021 gccagtatac actccgctag cgctgagtga ctggtccggc gctgcgcccg gaacccgcct
     1081 gtaccggttc agcagccgtt ccgggctgac tgcaattttt ttattttcct gcccgctacc
     1141 ctgtaaacct ttcttctgcg ttgccgttaa caggaggtaa gccatgtttg gtttttcttc
     1201 cggagacctg atgactcttg atgatgagcg acacctgttt gtgtctgttg tttcgggctg
     1261 gctccggcgt gccgggggga tgccggagcc atgatgctgg atgcataccg gcagattttg
     1321 tctgaaactg aaccggccgt aaggacggtc atgctcgaat ttcttgaatc cgttcgcatt
     1381 cattacattt cgtcctgagc attttctgta tttctgtcca tacttaaacg aggcggccgt
     1441 cacggacgat ggtcgtcgtt gcatgatgct gttatggatg agtgaaagta atctaatcta
     1501 acttgactta ccttccgggc agctccccgg tttttttttg cctgttcccg gggaaccact
     1561 caggacagga tgtgtatttg taataccgcg cacgcgccgg catcacaaat acccaggtca
     1621 gggctgcgcc ccgacacccc gccatcgcct cacggccgcg cactgaattg cgcacccgtt
     1681 caccgatttt cacgcatctt cctcgcctgt ctgtgcgttc agcatggtgt aaagtgcttc
     1741 ggcctgatcg tgcaggtgct cacagcagcc ggcagcctca tccagatcca tctgttcgag
     1801 ccgctcgagg aggaggagtg tctgtgagcg gataaatttg gccatgttga gggcggcgga
     1861 ttcctgtctg gtcactggtg attttccccg tctggtgatg atttttgcgt gaaaagagca
     1921 tgccgtcatt ctggtgcata gtcatgcatg ccgttaaaat ttaacaggag cgtttctggc
     1981 gggttccggg gtggtttgtt gtggtttttg gtcatggttc cgtcagaaaa gcgctgagtg
     2041 cgtctgaggc ggtgcgggca acggatgtta tggtaaattc ttggggggct tgattataaa
     2101 aaccgcactt cctctaatgt cttgtgcttt ttagacaacc ctggaagctt ttagctttgg
     2161 tggtgcaatt tgctgggatt ttggcggaga accccaggta aagaaaaagg ccacattagc
     2221 ggcctttttc ggagaagatg ctcagtgcgg aatttcggag acttctttaa cgtcggtttt
     2281 attgatctgc tgtttgacac cattcgcgtc tgtatagcca agcaggcctg agtctgattc
     2341 tttaggtttg ccgtcgctga caatagtgcg cccgtcattg gtgtgtatgg catagcttgt
     2401 gcgcgtgcag ccggtgaggg ctgaaagcgc aactgccgct gcgaacacgg aaacaaaaat
     2461 ctttttcaaa gccagctcct tttatccata tcagttttgg tcactaacca t
//
