LOCUS       NZ_CP051415             3319 bp    DNA     circular CON 18-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Senftenberg strain CVM
            20749 plasmid p20749-2, complete sequence.
ACCESSION   NZ_CP051415
VERSION     NZ_CP051415.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14504550
            Assembly: GCF_016454665.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Senftenberg
  ORGANISM  Salmonella enterica subsp. enterica serovar Senftenberg
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3319)
  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 3319)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-APR-2020) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, United States of America
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 711x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_016454665.1-RS_2024_05_18
            Annotation Date                   :: 05/18/2024 02:31:37
            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)                     :: 4,854
            CDSs (total)                      :: 4,734
            Genes (coding)                    :: 4,612
            CDSs (with protein)               :: 4,612
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 122
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 122
            Pseudo Genes (frameshifted)       :: 53 of 122
            Pseudo Genes (incomplete)         :: 84 of 122
            Pseudo Genes (internal stop)      :: 24 of 122
            Pseudo Genes (multiple problems)  :: 31 of 122
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051415.1.
            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..3319
                     /organism="Salmonella enterica subsp. enterica serovar
                     Senftenberg"
                     /mol_type="genomic DNA"
                     /strain="CVM 20749"
                     /serovar="Senftenberg"
                     /isolation_source="turkey"
                     /sub_species="enterica"
                     /db_xref="taxon:28150"
                     /plasmid="p20749-2"
                     /geo_loc_name="USA:NC"
                     /collection_date="2002"
                     /collected_by="NC State Veterinary Diagnostic Lab"
     gene            complement(join(2375..3319,1..96))
                     /gene="lsoA"
                     /locus_tag="HFQ48_RS24135"
                     /old_locus_tag="HFQ48_24140"
     CDS             complement(join(2375..3319,1..96))
                     /gene="lsoA"
                     /locus_tag="HFQ48_RS24135"
                     /old_locus_tag="HFQ48_24140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="WP_000068433.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            complement(361..474)
                     /locus_tag="HFQ48_RS24425"
     CDS             complement(361..474)
                     /locus_tag="HFQ48_RS24425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001459398.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAAIGN"
                     /name="hypothetical protein"
     gene            complement(961..1155)
                     /locus_tag="HFQ48_RS24140"
                     /old_locus_tag="HFQ48_24155"
     CDS             complement(961..1155)
                     /locus_tag="HFQ48_RS24140"
                     /old_locus_tag="HFQ48_24155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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="WP_001041620.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1440..1763
                     /gene="mobA"
                     /locus_tag="HFQ48_RS24145"
                     /old_locus_tag="HFQ48_24160"
     CDS             1440..1763
                     /gene="mobA"
                     /locus_tag="HFQ48_RS24145"
                     /old_locus_tag="HFQ48_24160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(1998..2378)
                     /gene="lsoB"
                     /locus_tag="HFQ48_RS24150"
                     /old_locus_tag="HFQ48_24165"
     CDS             complement(1998..2378)
                     /gene="lsoB"
                     /locus_tag="HFQ48_RS24150"
                     /old_locus_tag="HFQ48_24165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="WP_000710826.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     Typing          1191..1431
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.12e-123"
     Typing          complement(403..932)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.972"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          1441..1760
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.76e-62"
ORIGIN
        1 tacattagag gaatagtttg tgacgccatt ctgcgtcaga gcagactcaa tcttgtcaat
       61 attgatattt agtgctttaa acgggttctg tgccattggg tcaatccgtt gttttttttg
      121 aatatgtaca gatcttgttt ttttgtcaac ggaatagctg ttcgttgact tgatagaccg
      181 attgattcat catctcataa ataaagaaaa accaccgcta ccaacggtgg ttttctcaag
      241 gttcgctgag ctaccaactc tttgaaccaa ggtaactggc ttggaggagc gcagtcacca
      301 aaatctgttc tttcagttta gccttaacag gtgcataact tcaagacaaa ctcctctaaa
      361 tcagttacca atggctgctg ccagtggcga taagtcgtgt cttaccgggt tggactcaag
      421 acgatagtta ccggataagg cgcagcggtc gggctgaacg gggggttcgt gcacacagcc
      481 cagcttggag cgaacgacct acaccgaact gagataccaa cagcgtgagc tatgagaaag
      541 cgccacgctt cccgaaggga gaaaggcgga caggtatccg gtaagcggca gggtcggaac
      601 aggagagcgc acgagggagc ttccaggggg aaacgcctgg tatctttata gtcctgtcgg
      661 gtttcgccac ctctggcttg agcgtcgatt tttgtgatgc tcgtcagggg ggcggagcct
      721 atggaaaaac gcctgcggcg ttggcttctt ccggtgcttt gctttttgct cacatgttct
      781 ttccggcttt atcccctgat tctgtggata accgtattac cgcttttgag tgagctgaca
      841 ccgctcgccg cagtcgaacg accgagcgta gcgagtcagt gagcgaggaa gcggaagagc
      901 gccttatgtg acattttctc cttacgctct gttgtgccgt tcggcatcct gtcctgagag
      961 ttatctctct gtgctatttt ctacttcaaa gcgtgtctgg atgctgttct ggagttcttc
     1021 tgcgagttcg tgcagcttct cacacatggc agcctgttcg tcagcatcga gtgcgtccag
     1081 cttttcgagc agcgtcaggc tctggctttt tatgaatcct gccatgttga gtacggcttg
     1141 ctgctgcttg ttcatctttt cgttttctcc gttctgtctg tcatctgcgt tgtgtgatta
     1201 tatcgcgtac cacttttcga ctgttttacc gccggtattc tgccgtctga cgctttgacg
     1261 ggtatttctg cctgacaata ctgtcactgc caaaaaactg ccgtgccttt gtcggtaatt
     1321 cgagcttgct gacaggacag gatgtgcaat tgttataccg cgcatacatg cacgctatta
     1381 caattaccct ggtcagggct tcgccccgac accccatgtc agatacggag ccatgtttta
     1441 tgacaaaacg aagtggaagt aatacgcgca ggcgggctat cagtcgccct gttcgtctga
     1501 cggcagaaga agaccaggaa atcagaaaaa gggctgctga atgcggcaag accgtttctg
     1561 gttttttacg ggcggcagct ctcggtaaga aagttaactc actgactgat gaccgggtgc
     1621 tgaaagaagt tatgcgactg ggggcgttgc agaaaaaact ctttatcgac ggcaagcgtg
     1681 tcggggacag agagtatgcg gaggtgctga tcgctattac ggagtatcac cgtgccctgt
     1741 tatccaggct tatggcagat tagcttcccg gagagaaact gtcgaaaaca gacggtatga
     1801 acgccgtaag cccccaaacc gatcgccatt cactttcatg catagctatg cagtgagctg
     1861 aaagcgatcc tgacgcattt ttccggttta ccccggggaa aacatctctt tttgcggtgt
     1921 ctgcgtcaga atcgcgttca gcgcgttttg gcggtgcgcg taatgagacg ttatggtaaa
     1981 tgtcttctgg cttgatatta tattggaatg ccttttttca aagcaaatga tgtggctttg
     2041 gatagaaggt ttacgttgat cttatcaaag ttttttttaa agaacgaagc cgagagctca
     2101 gataaatcat tatattcatc agttttcgta actttgttta atgtgtaact tgaaaacttc
     2161 tcgccattaa atgacgtata gacgtaacga tctttttttc caccgttagg aattattaaa
     2221 tcaaaaaaaa catcaccctt gcttttcttt ttctttaagt cggattcgat ttttgagaaa
     2281 aattcgctcg ggctataaat atcagtagca tagacaataa ataaagtttt atctttattt
     2341 tttattgctt ctatttgata ttttttatct tttttcataa tttcaaccta gctacgccac
     2401 catctattaa ttggcaaacg gtatcgatga ttgcgattga ttctaatttg ttaattgtct
     2461 tcgtgtcagc tattcctggt ttcatatgaa acaaaccatg cctgttctca tgccagtaag
     2521 tgtagcattc acacaaaact tccgctattt caccatttat agtttcttgg tgtatttctc
     2581 tgattatata tttgggtttg ttttcagtga agtattcgcc aaggttcttt gatgatgatg
     2641 gattgcaaac atcattaagt atttgatata taaagccttc tatggctctt aatgcagaga
     2701 agcagtatgt tgagtaatct tccatttcga catctatttt tttcattatt agcgagcatg
     2761 atagctgttt tttgatatct tcatggattt tatcgatgct ttttggtagt ttgctatgca
     2821 actcggactc aatagtttct ttttttatgt caacattaaa ttctttattt ttttgttcga
     2881 caatctcttt catgtttagt attgagcaca tgaaatcgtt aatcaaactc gcgatttgaa
     2941 ggtattttcc ttggaattga atagagccgc gcttgtaaat ttttgccctg accctgtcac
     3001 cattgctggt ggtcataata tattggtgtt tacaattagg atcgttatta ttatcttctg
     3061 ttattgttat cccctcttca gaaagaaatt caaatagatt tgccctgtca tcatcactga
     3121 attttggaat ggtgtattca aagttctttg tgtctgaata caaacagttt tcttttataa
     3181 tcaaggcgat ttcatcaaag taagtgttat tttgcccaga cgctcttccg atagtggtat
     3241 ttccgcctga tggcattagt tttattaaga agtctattcc tttatatgtg ccagatatgt
     3301 gagtttctct ttcgttttt
//
