LOCUS       NZ_CP051375             3605 bp    DNA     circular CON 18-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Newport strain CVM 24374
            plasmid p20723-3, complete sequence.
ACCESSION   NZ_CP051375
VERSION     NZ_CP051375.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14504718
            Assembly: GCF_016454345.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Newport
  ORGANISM  Salmonella enterica subsp. enterica serovar Newport
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3605)
  AUTHORS   Zhao,S., Li,C., Hsu,C.H., Tyson,G.H., Strain,E., Tate,H., Tran,T.T.,
            Abbott,J. and McDermott,P.F.
  TITLE     Comparative Genomic Analysis of 450 Strains of Salmonellaenterica
            Isolated from Diseased Animals
  JOURNAL   Genes (Basel) 11 (9), 1025 (2020)
   PUBMED   32883017
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3605)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-APR-2020) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 226x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_016454345.1-RS_2024_05_18
            Annotation Date                   :: 05/18/2024 02:47:52
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,874
            CDSs (total)                      :: 4,748
            Genes (coding)                    :: 4,617
            CDSs (with protein)               :: 4,617
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 54 of 131
            Pseudo Genes (incomplete)         :: 92 of 131
            Pseudo Genes (internal stop)      :: 21 of 131
            Pseudo Genes (multiple problems)  :: 31 of 131
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051375.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3605
                     /organism="Salmonella enterica subsp. enterica serovar
                     Newport"
                     /mol_type="genomic DNA"
                     /strain="CVM 24374"
                     /serovar="Newport"
                     /isolation_source="bovine"
                     /sub_species="enterica"
                     /db_xref="taxon:108619"
                     /plasmid="p20723-3"
                     /geo_loc_name="USA:MO"
                     /collection_date="2002"
                     /collected_by="MO State Veterinary Diagnostic Lab"
     gene            571..2103
                     /locus_tag="HFS12_RS24160"
                     /old_locus_tag="HFS12_24240"
     CDS             571..2103
                     /locus_tag="HFS12_RS24160"
                     /old_locus_tag="HFS12_24240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017899153.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_000750321.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQYPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILSVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYETVLRNLLSAKILRAVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPIFELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYVFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPIINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKN
                     NNKNIDVDYLFGEHLDDFFYKKKRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     gene            complement(2292..2450)
                     /locus_tag="HFS12_RS24555"
                     /old_locus_tag="HFS12_24245"
     CDS             complement(2292..2450)
                     /locus_tag="HFS12_RS24555"
                     /old_locus_tag="HFS12_24245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            3009..3158
                     /locus_tag="HFS12_RS24165"
                     /old_locus_tag="HFS12_24250"
     CDS             3009..3158
                     /locus_tag="HFS12_RS24165"
                     /old_locus_tag="HFS12_24250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138881.1"
                     /translation="MPSEYDEQRDATDTQLPGEYDLFDLMAKVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          2801..3016
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.845"
                     /coverage="100.0"
                     /evalue="7.43e-58"
     Typing          complement(2152..2632)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.344"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 aattactact gaattacgtc ataacagttc tctgaaccat tcgtacatcc gacccccttc
       61 tcttcatgct tgatgctctt gccaacgctt tacggtcacg caataaattg cgtccccgtt
      121 caccgttttc ggatgagaag aacgtcgaaa acaggacttc cactggctgc acggcgtgaa
      181 attctgcgct atgcacttgc gcgcatactc atgcatgccg taaaaacaga gcctgcgcgt
      241 ttctggctgg ttttcgggtg gtttgttgcc ttgttttacc ggtttcccgt cagaaacgcc
      301 ctgagagcct ctcaggcggt gcacgcaacg gatgttatgg taaatggagt agctgatagt
      361 tcgataaaaa aatgtcacaa tactatcttt atgatttaaa aggattaaat aattataaag
      421 acgatatttc tttgtgctca atttaaagta agtaattaac catctgattt ttaattattt
      481 tttatagtca ctttttttta aaagactgcg ccctattaca cgtagtgtaa tattataaat
      541 agcgtagtgt gacagaaata aggtgaggat atgaaaaaaa gtgttgttag acaggtgctt
      601 gaaatgagcg ggccatgcat ctcttcggat cttgcagaga gaattcagtg gcaatatccc
      661 tcaatgtccc ctgaagcgat acgtaaaatg atctcgcgaa gcacggacat aggtaagctg
      721 ccatttttga aattcagcca taacaggaga ttcatttatc taaaagatga ttttggcagt
      781 ttcaaatttt ggcgagctct cgaaaagtgc atgtacgaag caaactcaac ttactcacac
      841 gcgatacttt ccgtaataaa taatggcggt tatttgaagg tgaaagattt tgggattgtg
      901 tctggatctc ctataaaaca agctaaacat ttaagttatg aaacagttct aagaaatcta
      961 ctttcggcaa aaatacttag agccgtgtat attgatggag ttggtgattg cgtactgata
     1021 aataacaaca tagccaacga tgttaatatt agaacaatgg caaattgcga atcctttttt
     1081 gacaaaccaa tatttgagct tgttaaagct tggttgagga atttaggcct agtcgctttt
     1141 aatcagataa aaacaaaata tgatggggag ggaaatccag ttgtaggctc ttttgaatgg
     1201 gatatgaccg ctccaagtta cgtttcccct ctcgctgaat atgtcggcgg aaaactgatg
     1261 cctggtttcg ttgcctgtga tttttctctc ggctttaatc gtgatgaaat tactaccgct
     1321 gcagcagaaa cattcataag aaaagtccag atgaccaagt cttctcgagc gagtcagagg
     1381 ataatgtttg ttattttcgc aaggcgtttc ggcaaaatag ccttcaataa gttgagaagt
     1441 gagggggttc tggctgtaac tatagcaaat gcgtttggta ataaagttga tgaaagctta
     1501 accaggttgt cgagggtggt tcagggttct ttgtccattg aaaagcatcc agatgagttg
     1561 cttcagatgg ttaaagatct ggagtctgtt tctggagaga atggcaattt gagagggtat
     1621 gtttttgagc tttttgtatc ctcgcaaatt tctaattttt atggccttgg taatatttac
     1681 attaatagag agtataagat aaatggtaag catgcagaag ctgatgttgt attggagagt
     1741 agtgacgata tttatataat agagtgcaaa aatgttaagg tcttaccttc aactgaactt
     1801 acgcgttgga tgaaagaaag ggttccaatt ataaactctt actataaaat aaataattta
     1861 gaaaaaaaga atatccacca ttatttgtgg gttacaggga atgtgtacaa caaagattta
     1921 aaaaggttag actcttttaa gaataataat aagaatatcg atgttgatta tttgtttggt
     1981 gagcatttgg atgatttctt ttacaagaaa aagcgggtgt tcaacttata tagaaaagtc
     2041 atttcacctg attataaaaa aggcgtaatg cctgattttg agttagagga cgattttttc
     2101 tagctactgc gtttcttgac gatggcgctt tgaaaggcgt atcttccatc tctgaaacga
     2161 aaaaaccacc cggcaaggtg gtttttcgaa ggttcaggaa accggcaagt ttctgaaccg
     2221 tggtaactgg cttaaacgga gcgcagtgac caaatctgtc cttccagtgt agccgtagtc
     2281 aggtcaacac ttcaagaact ctgtgtatgc ttgtacacgc ctctccgctc cgtaaaccag
     2341 ataccaatgg ctgctgccag tggcgttttg tcgtgtcttt ccgggttgga ctcaagtcga
     2401 tagttaccgg aacaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc
     2461 ttggagcgaa ctgccttccc ggaactgagt gtcaggcgtg gaatgagata aacgcggcca
     2521 taacagcgga gtgacaccgg taaaccgaaa ggcaggaaca ggagagcgca cgagggagct
     2581 accaggggga aacgcctggg atctttatag tcctgtcggg tttcgccacc actgatttga
     2641 gtgtcagatt tcgtgatgct tgtcaggggg gcggagccta tggaaaaacg gcagcgccgc
     2701 gtccttttcc tgccctgttt gtcatgccac atgcttttgc tcttatccgt gtgcagctaa
     2761 cgcccgccgc agccgaacgg caggagcggt agcgaccgag tgagcgagga ggcgtcatat
     2821 cacagtaacc cccattttct cccgtacgcc ctgtagctgc attttcccct gtcacatgaa
     2881 gcactttcct gaaccccgac cccgccgtaa catattcagc tagtttagac tccgctagcg
     2941 ctacgtgact ggttcagggc tgcgctccga aacccgctaa caacccctta gctactggat
     3001 atcaccccat gccatctgaa tatgatgaac aacgggatgc gactgatacg cagcttcccg
     3061 gcgaatatga cctttttgat ttaatggcga aggttactga agagaacctg cacgccccgg
     3121 tggattttgg gccgcctgtc ggccgggaag cgttatagct ttttcgctta cccgcgtacg
     3181 tgtaatacgc cggtattaca tcttatttct ttattttcat gtgattacag gtggttgtaa
     3241 tacgttgcgt attacataaa taaacgggaa cttcagtttt taccttttaa ttcatgcaat
     3301 tgcgatgaaa atcgcggttg cgtatggtgt atggccattt aagggataaa gaatcatctc
     3361 cttaccgggc tgagctttgc ctattctgag gagatctgtg aaaaaaagcg tccataacta
     3421 gctcgttcat acttgtatga acagcttatt cctcctgact actaataaac tacagcgtca
     3481 ctactgattt actactgatt tactacaaac cggagggggg ggactacaga aacactactg
     3541 atttactact gatttactac aaatcggagg aggatgacta cttatctact actgatttac
     3601 tactg
//
