LOCUS       CP082689                4018 bp    DNA     circular BCT 09-SEP-2021
DEFINITION  Salmonella enterica subsp. enterica serovar Bredeney strain CVM
            N18S0406 plasmid pN18S0406-5, complete sequence.
ACCESSION   CP082689
VERSION     CP082689.1
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 4018)
  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  JOURNAL   Unpublished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 4018)
  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 4018)
  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..4018
                     /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="pN18S0406-5"
                     /geo_loc_name="USA:MD"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            207..530
                     /locus_tag="FH339_002240"
     CDS             207..530
                     /locus_tag="FH339_002240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="UAH60888.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            469..1233
                     /locus_tag="FH339_002245"
                     /pseudo=""
     CDS             469..1233
                     /locus_tag="FH339_002245"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1208..1693
                     /locus_tag="FH339_002250"
     CDS             1208..1693
                     /locus_tag="FH339_002250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012565228.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="UAH60886.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMISQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIQEQKSTQAMLSEKNNGVQLTTCGEERRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1697..1912
                     /locus_tag="FH339_002255"
     CDS             1697..1912
                     /locus_tag="FH339_002255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="UAH60887.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2041..2568
                     /locus_tag="FH339_002260"
     CDS             2041..2568
                     /locus_tag="FH339_002260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAH60884.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     gene            2823..3035
                     /locus_tag="FH339_002265"
     CDS             2823..3035
                     /locus_tag="FH339_002265"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAH60885.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     Typing          complement(3465..3985)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.564"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          521..2004
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.717"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tttcctgaat ccccactccg atttaccatg ttaagccagt atacactccg ctagcgctac
       61 gtgactggtt cagggctgcg ccccgaaacc cgctgaaaag tactgccgcg ccctgcgggc
      121 ttgcccaaca ccgctccgga caggaaaaaa tttcccgccc gaaccggtgt tatccggagg
      181 atggtttggc agaaaagcgc aacaaaatgc tcactatgtg ggtgacagaa gacgagcacc
      241 gccgacttct ggagcgctgt gagggtaaac aactcgcggc ctggatgcgc cagatatgcc
      301 tggacgaaaa gccctcgcgt gctggcaaac ttccatccat ctcgccggcg ctgcttcgtc
      361 agcttgccgg catgggtaac aacctcaacc agattgcccg gcaggttaac gccggtggcg
      421 gtactgggca cgatcgcgtg caggttgtcg ccgtgctgat ggccattgat gccggactcg
      481 agcggctgcg gcacgccgtg ctggaaaagg gggcagacga tgatcgttaa gtttcatccc
      541 agaggccgcg gcggtggcgg cggtccggtg gattatctgc tggggaaaga ccggcagcgc
      601 gacggcgcca gcgttctgca gggtaagccg gaggaagtgc gggagcttat tgacgcctcg
      661 ccttacgcca agaaatacac ctccggcgtg ctgtcttttg ccgaacagga tttgccgccc
      721 ggccagcgtg aaaagctgat ggcgagcttt gagcgggttc tgatgcccgg actcgataaa
      781 gaccagtaca gcgtactgtg ggttgagcac cgggacaaag ggcggctgga gctgaacttc
      841 ctgatcccga acacggagct gctgaccggc agacgtctcc agccgtatta cgaccgcgcc
      901 gaccgtccgc gcattgatgc ctggcagacc atagtgaacg gcagactggg gctgcacgac
      961 ccgaacgcgc cggaaaaccg gcgggcgctg gttacaccgt ccgcgctgcc ggaagcgaag
     1021 caggaagccg cccaggcgat tacgcgcggc ctactttccc ttgcctcatc cggggagctg
     1081 aaaacccgtc aggacgtcac tgaggcgctg gaaagtgcgg gttttgaggt ggtgcgcacc
     1141 acgaaaagca gcatcagcat tgccgaccct gacggggggc gaaacatccg actgaaggga
     1201 gccatctatg aacagtcttt taacgctggc gaaggactta gagcagaaat cgaaagcgca
     1261 gcagcagact accggcgaga tgctgaaagc cgcattcagc gagcacgaga agtctgtcag
     1321 agcggaactg agcgaaagcg agaagagaat cagcgccgcc atcctcgacc acgaccggaa
     1381 gctgtcctca gccatgagcc aacgcacgaa agggatgctg cgtatgatca gccagacgtg
     1441 gctgaccata gtcctggtct ccgcgctact gatcgcctcg agcgcgggca ttctgtggtg
     1501 gcaggggcaa cagatactcg acaactacac gaccatccag gaacagaaga gcacgcaggc
     1561 catgctttca gagaagaaca acggcgtcca gctcacgacc tgcggggagg agagacgccg
     1621 ctgcgtgagg gtgaacccgg aagcgggaag attcggagag gattcgagct ggatgatact
     1681 ggcggggaaa tagcacatga cggaactgga aaaacagttg ctgagcgcat tagagcagct
     1741 acagcaggac tactcgaaaa ggctggacga gtgggagaac gccttcgcgg aatggcggac
     1801 gatgtctggg cttatgcaac gggagaacgc ggcgctgagc gagcgcgtca cgggcttgag
     1861 caggcaggtg cagagtttga gcgatcagct gcgccgattg tcgcaaggct gaatggcatc
     1921 gaggcgcacc gggagcagga gcgcgcggcg cagcaccaga aagcgctgga gctggaacga
     1981 tcgcagcggc agaaaggttt tgagcttgga atgtagttaa tcaatgaaaa gggatgcgtt
     2041 atgaaatgtt tctgggcttg ctcagtctcg gtggttttgg ctatgtcatt tacagtcgct
     2101 gctgcggaga ataacgacaa cgttacatat acaaaaccgt cagccgggag ggacttatat
     2161 cttacctgta aaggttatca ggtgaagggg gcatctgtaa ttaacgtcga gaaaccttct
     2221 taccttgaag gtactggtga gcaggttgaa tttgcaatca ttactcctgt tggtgcgtct
     2281 gacggactca aggtcttttt tgattcatgg ggtttttctt catttggatt gattgaaagc
     2341 catgtgatgc atgagcactg gtctttagtt catgttgggg ggcgtgcttc agtcaaaggt
     2401 gaaaagattg attattcatt tgtagataac cagccacagg agggggggag ctataaaccc
     2461 aaaacaggtg tgttcctgta cggctgcatg aactcggata aaagaccatc ttgggtcgaa
     2521 aagatctaca caagaacagg tgtgtttcga gggggcatag aagactaaaa tactgcttac
     2581 agcatgaaaa tccattgaac agagtgtcag ttcatttccg tgcataacta tgcataccgt
     2641 aagaacttac ggggggcatt tatcggcgtt tttacgtggt aagaggtgct cttttgcggt
     2701 tcatggcgca gaacggtgct gaggctgtct gcggcggtgc gaacaaggga tgttatggta
     2761 aataagagtg tcttttggat attttaaatc tgttttttta ttaaatttaa tgggggcaga
     2821 aaatggggga ttttgagcgt acctttggag ctggtgctga ttttgatcgg ataattgatg
     2881 agaataacag cgaatatttt cgagaagatc gccgaaaaac taaaaattca aaaaaaaaat
     2941 tctcttcttt tcaagatgct ttggtttggg cgaaagctaa tcctggcaaa acgataataa
     3001 gatctccaga cggtgtgggg tttattgaaa aatgaaagag tggattcact gtaaaacaac
     3061 agtcattttt tggacaacac tgtctatata cgtactcata tgtttcacag tgtcgtatgt
     3121 tggagtctat gttacgtacg ttgcagggcc tattttgtta gttacaggca ttcttgcatg
     3181 gcttacgaaa cctagctgta atccaaagtg actgggctag acgaacttta tccccccata
     3241 aaacccgctt ttttaaacgg atcttcttga gatcattcat ggagaatcgt aatctcttag
     3301 cactgtaaac gaaaaaaccg cccagcaagg cggttttttc gaaggttctc agagcagcaa
     3361 ctctttgaac cgaggtaact ggcttggagg agcacagtca ccaaaacttg tcctttcagt
     3421 ttagccttaa ccggcgcata acttcaagac taactcctct aaatcagtta ccagtggctg
     3481 ctgccagtgg cgttttgtcg tgtctttccg ggttggactc aagtcgatag ttaccggata
     3541 aggcgcagcg gtcggactga acggggggtt cgtgcataca gtccagcttg gagcgaactg
     3601 cctacccgga actgagtgtc aggcgtggaa ttagataaac gcggccataa cagcggaatg
     3661 acaccggtaa accgaaaggc aggaacagga gagcgcacga gggagctacc agggggaaac
     3721 gcctgggatc tttatagtcc tgtcgggttt cgccaccact gatttgagcg tcagatttcg
     3781 tgatgcttgt caggggggcg gagcctatgg aaaaacggca acgccgcatc ctttttccgc
     3841 cctttctgat tgatttccgc ttagtctctt tatccagcca ttcgtaagct ggcaacgccc
     3901 gccgcagtct cacggcagga gcgcagcgac cgagtgagcg aggaggcgtc atttcaccgg
     3961 gatctgcatt tcgcacttac gccccacagc agcattttct ccctgccaca tgaagcac
//
