LOCUS       CP082541                4633 bp    DNA     circular BCT 13-JAN-2022
DEFINITION  Salmonella enterica subsp. enterica serovar Hadar strain CVM
            N18S1943 plasmid pN18S1943-2, complete sequence.
ACCESSION   CP082541
VERSION     CP082541.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN12360289
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Hadar
  ORGANISM  Salmonella enterica subsp. enterica serovar Hadar
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4633)
  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 4633)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JUL-2019) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 4633)
  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                   :: 389x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 08/30/2021 17:15:03
            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)                     :: 4,756
            CDSs (total)                      :: 4,631
            Genes (coding)                    :: 4,527
            CDSs (with protein)               :: 4,527
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 49 of 104
            Pseudo Genes (incomplete)         :: 64 of 104
            Pseudo Genes (internal stop)      :: 18 of 104
            Pseudo Genes (multiple problems)  :: 25 of 104
            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..4633
                     /organism="Salmonella enterica subsp. enterica serovar
                     Hadar"
                     /mol_type="genomic DNA"
                     /strain="CVM N18S1943"
                     /serovar="Hadar"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:149385"
                     /plasmid="pN18S1943-2"
                     /geo_loc_name="USA:NM"
                     /collection_date="2018"
                     /collected_by="FDA"
     gene            join(4391..4633,1..597)
                     /locus_tag="FQE61_023065"
     CDS             join(4391..4633,1..597)
                     /locus_tag="FQE61_023065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UAI57104.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(1325..1558)
                     /locus_tag="FQE61_023070"
     CDS             complement(1325..1558)
                     /locus_tag="FQE61_023070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="UAI57105.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1565..2125)
                     /locus_tag="FQE61_023075"
     CDS             complement(1565..2125)
                     /locus_tag="FQE61_023075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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="UAI57106.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(2094..2813)
                     /locus_tag="FQE61_023080"
                     /pseudo=""
     CDS             complement(2094..2813)
                     /locus_tag="FQE61_023080"
                     /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            complement(2803..3126)
                     /locus_tag="FQE61_023085"
     CDS             complement(2803..3126)
                     /locus_tag="FQE61_023085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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="UAI57107.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3189..3380
                     /locus_tag="FQE61_023090"
     CDS             3189..3380
                     /locus_tag="FQE61_023090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="UAI57103.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3469..3553)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          3564..4119
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1228..2813)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcatattcac tgatggctgc atttattttt gatacagggc ttaattttag caaggagaat
       61 ataactaaag gggtgatttc aacaaggtgg cataatgacc tatattcatc atttgagaga
      121 atgaaagcaa ttaataaaat ttactaccca tccaacaaag agataaacac agaaggtcta
      181 tccaaagcca tcacatcatc tcttttcaat gatgacgcga actcgttcgc aaagagagat
      241 tttcgcttga tgtgggactt atcttctgaa aaatatcttt cctataaaga aataataata
      301 agaaaaggcg ataagcttga cgctgtatgc ttgagattta taaatgatga ctacaagttt
      361 ttagttaatt tcaacagaga tgaagaggtt ttcaaatact ttccatctat aatgcaacct
      421 tcactcaaaa catatagagc gttatcaaga ctagtaaact caatcaaaga tccttctaga
      481 tttaagttca cgacagagtc attagaaatg gagttactag aatacttaga gttaagaaat
      541 gaattattca atgacataga agaagtaatg ggtagctatg ctcagagggc accatagttc
      601 atgatagccc tcgatagtac ttacttatat ttttagagag gtttaagtgt aagtagaggg
      661 agtaacacct ggtttttcag catccactcc aatgaatgct gacaccgata cgcgataatt
      721 ctctttatcg tagcaaaatc atcctccaga ttgcggttga gaataggttc atggtgcgca
      781 atacgattgc gcagttttct cacgggactt gttagcagta atgcttcccc ccggggacaa
      841 acgacagaga tatacaacaa aggcccgctg tatagagtac agcgggcctt tgttgtttta
      901 attcccgcaa ttaaaatact ccgtatttac cataacgtcg cattgcgcgt accgcttaaa
      961 cgcgttcagc gcgatcacgg cagcagacag gtaaaaacag caacaaacca cccgaaaaac
     1021 tgccgcgatc gcgcctggta aattttaacc tcatgcatag ttatgcgcga aactgaatga
     1081 cgatcagttt cgcacgttcc agccgtcgaa cggggcaaaa tggggaggtt tggatattgt
     1141 taatgctaat gtacgtacat taacattggc gccatccggg tagggcgtgc cacaaactgg
     1201 ctcgatttca gggggcaccc cggtcacatc cccattgacg ggccacgcca gatccgcgct
     1261 tcgggttcct gctcttcatg ccagcgccgg gcaagctcct gcgcctgacg ctcctgttca
     1321 tcccttatct gttgttcgtg ataaataacc gactcaagcg gtcgacttgt ccggctaata
     1381 gctgcacctg ctgactcaag ttcacgacac gctcgttcag tatcgcgttg ttctgttgcg
     1441 taaccgcgtg catcttctgc aattctgcga aggcgctctc ccactcgttc agccgccgca
     1501 tatagtcctg ttgcaaatgc tctaaggcgt tcagcaaatg cccttccagt tccgtcatac
     1561 tcgtttactc cctgaccagc ctcacggcgt tcttgtcgcc caccgtccag gtgttttccc
     1621 ctttcacccc gtccggcagc accagaaatt tcccgttctc gccattgacg aacgtcaccc
     1681 cccaggtttt tgcctcgagt ttcgccagcg tgttttcctg ctctctgatg gtcaagatat
     1741 ttttcgcaat cctgctttcc tgccactgaa tcagccccca gcaccccagg aaaatgccgc
     1801 ccgtgacgct gagcgcggtc agcgccggaa acagtacccg ccctttgatc acctgccaga
     1861 gcaggttttt ctgctgccgg gacagttcgg cctctgtggt gctgagctgc gtgctcacgg
     1921 tggtgctcag cgtatccagt tgctgtttca cggatgttgt atgttcgctg atagcgtctc
     1981 tgattttctg cctgtttaag ctcagtgcct tgtctacaga ctcttctagc ttcctgaact
     2041 cgctgttcag catgttctcg gtagaagcgg ctcgctcttt cagtttcttc tcgaagtctg
     2101 ttcccatttg taaaagattg ctcatacagc gcccccttta gcctgagatt ccgccccccc
     2161 tccgggtcgg caatactgat actgcttctg gttgtcctca ccacctcaaa acctgccgct
     2221 gtgagcgcct cagtgacatc ctgacgcgtt tttattgctc cggcacggta aagcgcctca
     2281 agaccccgtg taatcgcttc tgcggcctcc tgtttcgctt ttggcagatt attcggtgtg
     2341 acaagcgtcc gtctgttctc cggtgcgttc gggtcacgca gcccgtaatg atgattaacc
     2401 agcgtctgcc aggcatttat cctcggcctg tccgcacggt cgtagtacgg ctggaggcgc
     2461 ttaccgctct gtagttccat gttcggaatg acaaaattca gttcgagccg ccccttatcc
     2521 tggtgttcca cccagagaat gctgtactgg tctttttcga gaccgggcat aagaacacgc
     2581 tcaaagctcg tcatcactct ttcgcgttca cccggcggta actccttctc cgcgaacgac
     2641 agaacgcctg acgtgtattt cttcgaaaat ggcgtggcat caatgagttc ccggatttct
     2701 tccgggttac cccggagcac cgttgcgcct tcgcggttac gctcccgccc cagcaggtaa
     2761 tcgaccgggc cacttccacc gcctttcccc ctggcatgaa atttaactat catcccgtcc
     2821 cccctgttcc ctgacagcct gccgcaactg gcgcaattca ccctcgatgg ccatcagtgc
     2881 ggccaccaca tgaacccggt caatcgaaga ccagtggccg ctgttcacct tccgggctgt
     2941 ctggttcaga ttgttcccga tggcagccag atgccgcagc aatggcggcg atagtgtcgg
     3001 cagttttcct gtgcgcgcaa ccggctcccc cagacagacc cgccgcatcc attctgccag
     3061 tcgtttaccc tcgcagcgtt ccagtaaccg ggcgtgctcc tcatcgctaa cccgtatcgt
     3121 gagcatcttc tcgcgtttca tcggtatcat tccccctaaa aaatccccta ttaaggagcc
     3181 ttaagaccat gaccaaacag gaaaaaacag cccttaacat ggcccgcttt atcagaagcc
     3241 agacgctgac cctgctggaa aaactcaacg agctggacgc ggacgaacag gcagacatct
     3301 gcgaatcact tcacgaccac gccgacgaac tctaccgtag ttgcctcgca cgcttcggcg
     3361 atgacggtga aagcaactga aacatgcagc tcccggagac gttcacagct tgcctgtgag
     3421 cggatgccgg gagcagacaa gcccgtcagg gcgcgtcagc gggttttagc gggtgtcggg
     3481 gcgcagccct gacccagtca cgtagcgata gcggagtgta tactggctta actatgtggc
     3541 atcagtgcgg attataagaa aagtgcacca tatgcggtgt gaaataccgc acagatgcgt
     3601 aaggagaaaa tgccgcatca ggcgctcttc cgcttcctcg ctcactgact cgctacgctc
     3661 ggtcgttcgg ctgcggcgag cggtatcagc tcactcaaag acggtgatgc ggttatccac
     3721 agaatcaggg gataacgcca aaagaaacat gtgagcaaaa ggccaagaac aggaagaagg
     3781 ccgcgccgct ggcgtttttc cataggctcc gcccccctga cgagcatcac aaaaacagac
     3841 gctcaagtca gaggtggcga aacccgacag gactataaag ataccaggcg tttccccctg
     3901 gaagctccct cgtgcgctct cctgttccga ccctgccgct taccggatac ctgtccgcct
     3961 ttctcccttc gggaagcgtg gcgctttctc atagctcacg ctgttggtat ctcggcccgg
     4021 tgtaggtcgt tcgctccaag ctgggctgtg tgcacgaacc ccccgttcag cccgaccgct
     4081 gcgccttatc cggtaactat cgtcttgagt ccaacccgga aagacacgta aaaacgccac
     4141 tggcagcagc cattggtaac cgtttagagg agttagtctt gaagttatgc gccggttaag
     4201 gctaaactga aaggacagat ttggtggctg tgctcctcca agccagttac cttggttcaa
     4261 agagttgctg ctctgagaac cttcgaaaag ccgccttgct gggcggtttt ttcgtttacg
     4321 gacaagacta ccttcaggat cgttagatct caagacaatc atgcatagtg agcatacaca
     4381 ggagccgaac ttgcttacac tgttcatctt ttttgtttta ttaatagctg catgtttctt
     4441 ttgttttgct ccaccacgaa gaggatatga cagaaatgag atcattccat acaaaataaa
     4501 actatcaata aataaatatc gcctttacat atactcatcg ggaaaggtaa gacaatacct
     4561 tttattttta gttattttat cactgtacta ctccatagcg gaaccattta agtctgagtt
     4621 aataaaaaac ata
//
