LOCUS       NZ_CP051418             4593 bp    DNA     circular CON 17-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Muenchen strain CVM
            20744 plasmid p20744-2, complete sequence.
ACCESSION   NZ_CP051418
VERSION     NZ_CP051418.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14504546
            Assembly: GCF_016454705.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Muenchen
  ORGANISM  Salmonella enterica subsp. enterica serovar Muenchen
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4593)
  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 4593)
  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                   :: 481x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_016454705.1-RS_2024_05_17
            Annotation Date                   :: 05/17/2024 03:00:10
            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)                     :: 4,758
            CDSs (total)                      :: 4,635
            Genes (coding)                    :: 4,518
            CDSs (with protein)               :: 4,518
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 52 of 117
            Pseudo Genes (incomplete)         :: 83 of 117
            Pseudo Genes (internal stop)      :: 19 of 117
            Pseudo Genes (multiple problems)  :: 32 of 117
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051418.1.
            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..4593
                     /organism="Salmonella enterica subsp. enterica serovar
                     Muenchen"
                     /mol_type="genomic DNA"
                     /strain="CVM 20744"
                     /serovar="Muenchen"
                     /isolation_source="swine"
                     /sub_species="enterica"
                     /db_xref="taxon:596"
                     /plasmid="p20744-2"
                     /geo_loc_name="USA:NC"
                     /collection_date="2002"
                     /collected_by="NC State Veterinary Diagnostic Lab"
     gene            complement(482..673)
                     /locus_tag="HFQ44_RS23645"
                     /old_locus_tag="HFQ44_23670"
     CDS             complement(482..673)
                     /locus_tag="HFQ44_RS23645"
                     /old_locus_tag="HFQ44_23670"
                     /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="WP_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            736..1059
                     /locus_tag="HFQ44_RS23650"
                     /old_locus_tag="HFQ44_23675"
     CDS             736..1059
                     /locus_tag="HFQ44_RS23650"
                     /old_locus_tag="HFQ44_23675"
                     /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="WP_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1268..>1702
                     /locus_tag="HFQ44_RS23920"
                     /old_locus_tag="HFQ44_23680"
                     /pseudo=""
     CDS             1268..>1702
                     /locus_tag="HFQ44_RS23920"
                     /old_locus_tag="HFQ44_23680"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     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            1737..2297
                     /locus_tag="HFQ44_RS23660"
                     /old_locus_tag="HFQ44_23685"
     CDS             1737..2297
                     /locus_tag="HFQ44_RS23660"
                     /old_locus_tag="HFQ44_23685"
                     /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="WP_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            2304..2537
                     /locus_tag="HFQ44_RS23665"
                     /old_locus_tag="HFQ44_23690"
     CDS             2304..2537
                     /locus_tag="HFQ44_RS23665"
                     /old_locus_tag="HFQ44_23690"
                     /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="WP_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3225..4064)
                     /locus_tag="HFQ44_RS23670"
                     /old_locus_tag="HFQ44_23695"
     CDS             complement(3225..4064)
                     /locus_tag="HFQ44_RS23670"
                     /old_locus_tag="HFQ44_23695"
                     /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="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(4256..4405)
                     /locus_tag="HFQ44_RS24005"
     CDS             complement(4256..4405)
                     /locus_tag="HFQ44_RS24005"
                     /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_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     Typing          310..394
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(2..299)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.667"
                     /coverage="100.0"
                     /evalue="1.9199999999999999e-112"
     Typing          4064..4515
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1050..2635
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttcgccacct ctgacttgag catctgtttt tgtgatgctc gtcagggggg cggagcctat
       61 ggaaaaacgc cagcggcgcg gccttcttcc tgttcctggc cttttgctca catgtttctt
      121 ttggcgttat cccctgattc tgtggataac cgcatcaccg tctttgagtg agctgatacc
      181 gctcgccgca gccgaacgac cgagcgtagc gagtcagtga gcgaggaagc ggaagagcgc
      241 ctgatgcggc attttctcct tacgcatctg tgcggtattt cacaccgcat atggtgcact
      301 tttcttataa tccgcactga tgccacatag ttaagccagt atacactccg ctatcgctac
      361 gtgactgggt cagggctgcg ccccgacacc cgctaaaacc cgctgacgcg ccctgacggg
      421 cttgtctgct cccggcatcc gctcacaggc aagctgtgaa cgtctccggg agctgcatgt
      481 ttcagttgct ttcaccgtca tcgccgaagc gtgcgaggca actacggtag agttcgtcgg
      541 cgtggtcgtg aagtgattcg cagatgtctg cctgttcgtc cgcgtccagc tcgttgagtt
      601 tttccagcag ggtcagcgtc tggcttctga taaagcgggc catgttaagg gctgtttttt
      661 cctgtttggt catggtctta aggctcctta ataggggatt ttttaggggg aatgataccg
      721 atgaaacgcg agaagatgct cacgatacgg gttagcgatg aggagcacgc ccggttactg
      781 gaacgctgcg agggtaaacg actggcagaa tggatgcggc gggtctgtct gggggagccg
      841 gttgcgcgca caggaaaact gccgacacta tcgccgccat tgctgcggca tctggctgcc
      901 atcgggaaca atctgaacca gacagcccgg aaggtgaaca gcggccactg gtcttcgatt
      961 gaccgggttc atgtggtggc cgctttgatg gccatcgagg gtgaattgcg ccagttgcgg
     1021 caggctgtca gggaacaggg gggacgggat gatagttaaa tttcatgcca gggggaaagg
     1081 cggtggaagt ggcccggtcg attacctgct ggggcgggag cgtaaccgcg aaggcgcaac
     1141 ggtgctccgg ggtaacccgg aagaaatccg ggaactcatt gatgccacgc cattttcgaa
     1201 gaaatacacg tcaggcgttc tgtcgttcgc ggagaaggag ttaccgccgg gtgaacgcga
     1261 aagagtgatg acgagctttg agcgtgttct tatgcccggt ctcgaaaaag accagtacag
     1321 cattctctgg gtggaacacc aggataaggg gcggctcgaa ctgaattttg tcattccgaa
     1381 catggaacta cagagcggta agcgcctcca gccgtactac gaccgtgcgg acaggccgag
     1441 gataaatgcc tggcagacgc tggttaatca tcattacggg ctgcgtgacc cgaacgcacc
     1501 ggagaacaga cggacgcttg tcacaccgaa taatctgcca aaagcgaaac aggaggccgc
     1561 agaagcgatt acacggggtc ttgaggcgct ttaccgtgcc ggagcaataa aaacgcgtca
     1621 ggatgtcact gaggcgctca cagcggcagg ttttgaggtg gtgaggacaa ccagaagcag
     1681 tatcagtatt gccgacccgg agggggggcg gaatctcagg ctaaaggggg cgctgtatga
     1741 gcaatctttt acaaatggga acggacttcg agaagaaact gaaagagcga gccgcttcta
     1801 ccgagaacat gctgaacagc gagttcagga agctagaaga gtctgtagac aaggcactga
     1861 gcttaaacag gcagaaaatc agagacgcta tcagcgaaca tacaacatcc gtgaaacagc
     1921 aactggatac gctgagcacc accgtgagca cgcagctcag caccacagag gccgaactgt
     1981 cccggcagca gaaaaacctg ctctggcagg tgatcaaagg gcgggtactg tttccggcgc
     2041 tgaccgcgct cagcgtcacg ggcggcattt tcctggggtg ctgggggctg attcagtggc
     2101 aggaaagcag gattgcgaaa aatatcttga ccatcagaga gcaggaaaac acgctggcga
     2161 aactcgaggc aaaaacctgg ggggtgacgt tcgtcaatgg cgagaacggg aaatttctgg
     2221 tgctgccgga cggggtgaaa ggggaaaaca cctggacggt gggcgacaag aacgccgtga
     2281 ggctggtcag ggagtaaacg agtatgacgg aactggaagg gcatttgctg aacgccttag
     2341 agcatttgca acaggactat atgcggcggc tgaacgagtg ggagagcgcc ttcgcagaat
     2401 tgcagaagat gcacgcggtt acgcaacaga acaacgcgat actgaacgag cgtgtcgtga
     2461 acttgagtca gcaggtgcag ctattagccg gacaagtcga ccgcttgagt cggttattta
     2521 tcacgaacaa cagataaggg atgaacagga gcgtcaggcg caggagcttg cccggcgctg
     2581 gcatgaagag caggaacccg aagcgcggat ctggcgtggc ccgtcaatgg ggatgtgacc
     2641 ggggtacccc ctgaaatcga gccagtttgt ggcacgccct acccggatgg cgccaatgtt
     2701 aatgtacgta cattagcatt aacaatatcc aaacctcccc atttttcccc gttcgacggc
     2761 tggaacgtgc gaaactgatc gtcattcagt ttcgcgcata actatgcatg aggttaaaat
     2821 ttaccaggcg cgatcgcggc agtttttcgg gtggtttgtt gctgttttta cctgtctgct
     2881 gccgtgatcg cgctgaacgc gtttaagcgg tacgcgcaat gcgacgttat ggtaaatacg
     2941 gagtatttta attgcgggcc tttgttgtat atctctgtcg tttgtccccg gggggaagca
     3001 ttactgctaa caagtcccgt gagaaaactg cgcaatcgta ttgcgcacca tgaacctatt
     3061 ctcaaccgca atctggagga tgattttgct acgataaaga gaattatcgc gtatcggtgt
     3121 cagcattcat tggagtggat gctgaaaaac caggtgttac tccctctact tacacttaaa
     3181 cctctctaaa aatataagta agtactatcg agggctatca tgaactatgg tgccctctga
     3241 gcatagctac ccattacttc ttctatgtca ttgaataatt catttcttaa ctctaagtat
     3301 tctagtaact ccatttctaa tgactctgtc gtgaacttaa atctagaagg atctttgatt
     3361 gagtttacta gtcttgataa cgctctatat gttttgagtg aaggttgcat tatagatgga
     3421 aagtatttga aaacctcttc atctctgttg aaattaacta aaaacttgta gtcatcattt
     3481 ataaatctca agcatacagc gtcaagctta tcgccttttc ttattattat ttctttatag
     3541 gaaagatatt tttcagaaga taagtcccac atcaagcgaa aatctctctt tgcgaacgag
     3601 ttcgcgtcat cattgaaaag agatgatgtg atggctttgg atagaccttc tgtgtttatc
     3661 tctttgttgg atgggtagta aattttatta attgctttca ttctctcaaa tgatgaatat
     3721 aggtcattat gccaccttgt tgaaatcact cctttagtta tattctcctt gctaaaatta
     3781 agccctgtat caaaaataaa tgcagccatc agtgaatatg atatgttttt tattaactca
     3841 gacttaaatg gttccgctat ggagtagtac agtgataaaa taactaaaaa taaaaggtat
     3901 tgtcttacct ttcccgatga gtatatgtaa aggcgatatt tatttattga tagttttatt
     3961 ttgtatggaa tgatctcatt tctgtcatat cctcttcgtg gtggagcaaa acaaaagaaa
     4021 catgcagcta ttaataaaac aaaaaagatg aacagtgtaa gcaagttcgg ctcctgtgta
     4081 tgctcactat gcatgattgt cttgagatct aacgatcctg aaggtagtct tgtccgtaaa
     4141 cgaaaaaacc gcccagcaag gcggcttttc gaaggttctc agagcagcaa ctctttgaac
     4201 caaggtaact ggcttggagg agcacagcca ccaaatctgt cctttcagtt tagccttaac
     4261 cggcgcataa cttcaagact aactcctcta aacggttacc aatggctgct gccagtggcg
     4321 tttttacgtg tctttccggg ttggactcaa gacgatagtt accggataag gcgcagcggt
     4381 cgggctgaac ggggggttcg tgcacacagc ccagcttgga gcgaacgacc tacaccgggc
     4441 cgagatacca acagcgtgag ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg
     4501 acaggtatcc ggtaagcggc agggtcggaa caggagagcg cacgagggag cttccagggg
     4561 gaaacgcctg gtatctttat agtcctgtcg ggt
//
