LOCUS       CP123658                3830 bp    DNA     circular BCT 14-JUN-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Reading strain CVM
            N58646 plasmid pN58646-3, complete sequence.
ACCESSION   CP123658
VERSION     CP123658.1
DBLINK      BioProject: PRJNA292661
            BioSample: SAMN05416439
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 3830)
  AUTHORS   Ge,B.
  TITLE     Genomic Analysis of Azithromycin-Resistant Salmonella from Food
            Animals and Retail Meats, 2015-2021, United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3830)
  CONSRTM   NARMS: The National Antimicrobial Resistance Monitoring System
  TITLE     Direct Submission
  JOURNAL   Submitted (22-JUL-2018) Center for Veterinary Medicine, US Food and
            Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA
REFERENCE   3  (bases 1 to 3830)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-MAR-2023) CVM/OAS, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 24-SEP-2021
            Assembly Method                   :: HGAP v. 4
            Assembly Name                     :: Microbial assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 632x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/20/2023 10:10:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,686
            CDSs (total)                      :: 4,567
            Genes (coding)                    :: 4,457
            CDSs (with protein)               :: 4,457
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 52 of 110
            Pseudo Genes (incomplete)         :: 74 of 110
            Pseudo Genes (internal stop)      :: 17 of 110
            Pseudo Genes (multiple problems)  :: 30 of 110
            Pseudo Genes (short protein)      :: 1 of 110
            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..3830
                     /organism="Salmonella enterica subsp. enterica serovar
                     Reading"
                     /mol_type="genomic DNA"
                     /strain="CVM N58646"
                     /serovar="Reading"
                     /isolation_source="ground turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:165302"
                     /plasmid="pN58646-3"
                     /geo_loc_name="USA:MN"
                     /collection_date="2015"
                     /collected_by="FDA"
     gene            join(3655..3830,1..91)
                     /locus_tag="BCP20_23420"
     CDS             join(3655..3830,1..91)
                     /locus_tag="BCP20_23420"
                     /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="WGN09270.1"
                     /translation="MKRSQLTLIDGCFMFGFSPGELMNLCPDERLLFVRMISAMLRRSG
                     GDAGAVMFEAYRHIVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(139..327)
                     /locus_tag="BCP20_23425"
     CDS             complement(139..327)
                     /locus_tag="BCP20_23425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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="WGN09271.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(617..2521)
                     /locus_tag="BCP20_23430"
     CDS             complement(617..2521)
                     /locus_tag="BCP20_23430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003839290.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nitrate- and nitrite sensing domain-containing
                     protein"
                     /protein_id="WGN09272.1"
                     /translation="MSWAYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="nitrate- and nitrite sensing domain-containing
                     protein"
     Typing          3339..3511
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.805"
                     /coverage="100.0"
                     /evalue="4.41e-59"
     Typing          complement(2818..3414)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.211"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgtgtccgat accaatcaag ctcgtcgttc ctgcatgctc gacctgctcg aaagcgtcag
       61 gcatgactat gtacacggtg gatatacata gttgccctgg atacgctttt cgtctaagtg
      121 agcgttcttt tcgtctcttt attcgccgtc ctgtataccg aagcgtgcgc tcagcttctg
      181 ataaagcgct tctgcctgtt cgtgcattcg ctcacagtcg gctgcctcgt catcaagatc
      241 gagcacgtcg agtttttcga gcagcagcag cgactgcgcc cggataaatt ttgccatgtt
      301 cagtgcggct gattcctgtt ttgtcatacg gctttttccc ggttttatgg tgatcgcaga
      361 ctgaaatctt acttcattca cttgagtgca tagccatgca ggtacgcaga aatcatcagg
      421 ggcgtttttt ctcgatatgg gcacagaaag gtgtatgttt caggtcggag tcctcagaaa
      481 cgctctcaga gcctctcagg cggtgcacgc aacgggagtt atggtaaatc ctagttattt
      541 gcaggcataa aaaagccgcc ttttaggcgg ttttttctga ttgtaagtta tcaagaccgg
      601 atgctgaacg gcagtatcag acaataaagc gatcgaccag cgtggacatc gcttcagact
      661 ggccgtccag catctggctg gcgctcgccg cctgagagac cagcgctgcg ttttgctgag
      721 tgacctgctc cagctgattc agtgcctgat gcacctgcga cacgccaagc gactgctcat
      781 tcgccgcacg ggcaatatcg ctcacgtact gtttcatccg cccggtattt tccgccgctg
      841 ctttcagcgc ggtgccggac gcggtgactc gtgctacccc ttcgccaatc ttatccatat
      901 tctggttaat cagctcacgg atctgactgg cctctcgtgc acagcgctgg gaaaggttac
      961 gcacctccgt cgccactacc gcaaagcctt tgccaagctc accggcacgt gccgcttcaa
     1021 cggcggcgtt aagcgccagc aagttggtct ggaaagaaat ctcatcaatt gacgcaacaa
     1081 tctgggaaat ctgctcgctg gaagaacgaa tttccgccat gctctgactg gcctcgttag
     1141 agacgcgatt agcttccagt acgtcccgct ccatcgaatg tatcagacgc tccgcctcgc
     1201 tggcgttatc ggcggtctgg gtgatcgcag tagaaatctg ctccatgctg gcggccgttt
     1261 ccacaatcga tgccgcctgt tcatccgtac gctgggccag atcctgatta ccggcagcga
     1321 tatcactact ggcgctacgc aacaccaccg caccggactt aatttcttgc acgatatgct
     1381 gaatattctc aatcgcttgg ttataggcac ggttcagggc tgagagctcg tcgctgccgg
     1441 ggacgtcaag acgacgtgtc aggtcgccgt ccatctctgc gatggttttc agcgtaccgt
     1501 tcagttgctg ctggatactg cgtgccacca tcaccgcaaa ggcgatagca atcagtaggg
     1561 caaccaggct gattaccagg aaggactgcc agtcgacacg ggcattgtgg gcaagcagcg
     1621 cagcatgttc ctgcaaggca tccaccgcgc gattttccac cttttgcagc gtttcaatac
     1681 gctgggtctg aaggttaaac cagtcagtcg ggttgactcc aaatccgcct tcggcggctt
     1741 tattaaaagc cgtctcccgc agttcaagag cacgagttgc ttcagcggac tgaagagatt
     1801 tgtccagctc agccgcctgc acaggtgtgc taaagctgcg agctgccgtc agccaggcat
     1861 cctgctggcc taccacatcg ctaaacatgc tgaactggcc gtcgtcaaag cgatccatcg
     1921 agaagatatt ggacagcagc gcacgttcta caccagcctg ctccttcaaa ttcaagagac
     1981 tataataagc cgccagttcg ttcaccatcg agcctgaggt gcttaaatgc cccatcccgc
     2041 cgacaaactt cagcacgtca gagatggttt gggtatagaa ctgactcgct tttggtgaat
     2101 cgatagttaa ttcgctgatg gcggtacggg ttgagtcgag aaactgaata ctttcattaa
     2161 acgttttcag gggggcggca atatttccct ggagtaaatc cttattcgta tcggtcagca
     2221 accgcttaaa tgttgccagc accttgtcgg ttaactgccg ctgggcagct aagtcatcgc
     2281 gaaacttttg gccgcgcgcg ccgataaatc cagcgctcat tccacgttcg ctctggagtt
     2341 gatgcaccac atcacccgcg ctgcgggcga gcgtggtgag ctgtccaatg gtgttcatct
     2401 gctgttcggt attgatacgg ctgacaatac ccgaaccggc gaaccagacc aaggcaagca
     2461 gtagcgggaa taatgcaata aacaacttca tttgcattga aatacgataa gcccatgaca
     2521 tatcgatact ttccttactt tcttgaggga tcgcaggagt atcggtagat acatgcataa
     2581 actttatagt ttattgttgg gggaacgggc accacattcg gcagtggcgc tggtagcaat
     2641 ccataaagga tcttcttgag atcctttgac gatcgtcgta atctcttgct ctgtaaacga
     2701 aaaaaccacc cttgcaggtg gtttttcgaa ggttagataa tcctggcaga ttctctaacc
     2761 gtggtaacag tcttgtgcga gacatgtcac caaatttgtc cttctagtgt agcctcagtc
     2821 aggccactac ttcaagaact ctcgatacat ctctcgcaca tcctgtttac cagtggccgc
     2881 tgccagtggc gatttttcgt gtctttccgg gttggactca agacgatagt taccggaaaa
     2941 ggcgcagcag tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc
     3001 cttcccggaa ctgagtgtca ggcgtggaat gagataaacg cggccataac agcggaatga
     3061 caccggtaaa ccgaaaggca ggaacaggag agcgcacgag ggagctacca gggggaaacg
     3121 cctgggatct ttatagtcct gtcgggtttc gccgccactg atttgagcgt cagatttcgt
     3181 gatgcttgtc aggggggcgg agcctatgga aaaacggctt cgccgcggcc ttaccgtttc
     3241 cctgttaagt ttcttcctgg catctcccag gaaatttccg ccccattcgt aatcccgcac
     3301 cgctcgccgc agccgaacga ccgagcgcag cgagtcagtg agcgaggaag cggaatatct
     3361 cctgtctcat atattccgct tacgctctgc tgctgcattt tcctcctgcc acatgaagca
     3421 cttcactgat tcccgcaccc gtgcctacat aataagccag tatacactcc gctagcgtta
     3481 cgtgactggt tcagggctgc gccccgacac ccgctaaaag cactgacgcg cctgcggctt
     3541 gcccaacccc gcgccgtccg ggaaagaatt tcccgatcga cccgacgttt ctgtttacct
     3601 gtgatgttaa cgtttggatc tttttcccgg gtttacctat tttaatgaag cgtaatgaag
     3661 cgttcacagc tgacgttaat agatgggtgc ttcatgtttg gtttttcacc aggagaactt
     3721 atgaaccttt gccccgatga acgtctgctc tttgtgcgga tgatttccgc tatgcttcgc
     3781 cgttcgggcg gtgatgcggg tgctgttatg tttgaggcgt atcgccatat
//
