LOCUS       NZ_CP117331             2699 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Muenster strain RM074
            plasmid pRM074_2, complete sequence.
ACCESSION   NZ_CP117331
VERSION     NZ_CP117331.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32950803
            Assembly: GCF_028893095.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Muenster
  ORGANISM  Salmonella enterica subsp. enterica serovar Muenster
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2699)
  AUTHORS   Lewis,G.L., Fenton,R.J., Moriyama,E.N., Loy,J.D. and Moxley,R.A.
  TITLE     Association of ISVsa3 with Multidrug Resistance in Salmonella
            enterica Isolates from Cattle (Bos taurus)
  JOURNAL   Microorganisms 11 (3), 631 (2023)
   PUBMED   36985205
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2699)
  AUTHORS   Moxley,R.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-FEB-2023) School of Biological Sciences, University of
            Nebraska-Lincoln, 403 Manter Hall, Lincoln, NE 68588-0118, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 04-OCT-2021
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 191X
            Sequencing Technology :: illumina MiSeq + Nanopore Gridion
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/25/2023 10:12:09
            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)                     :: 4,707
            CDSs (total)                      :: 4,585
            Genes (coding)                    :: 4,412
            CDSs (with protein)               :: 4,412
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 76 of 173
            Pseudo Genes (incomplete)         :: 94 of 173
            Pseudo Genes (internal stop)      :: 37 of 173
            Pseudo Genes (multiple problems)  :: 30 of 173
            Pseudo Genes (short protein)      :: 1 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP117331.1.
            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..2699
                     /organism="Salmonella enterica subsp. enterica serovar
                     Muenster"
                     /mol_type="genomic DNA"
                     /strain="RM074"
                     /serovar="Muenster"
                     /isolation_source="feces"
                     /host="Bos taurus"
                     /sub_species="enterica"
                     /db_xref="taxon:82689"
                     /plasmid="pRM074_2"
                     /geo_loc_name="USA: Nebraska"
                     /collection_date="2018-05-16"
                     /collected_by="Nebraska Veterinary Diagnostic Center"
     gene            <493..648
                     /locus_tag="PQP80_RS23525"
                     /old_locus_tag="PQP80_23525"
                     /pseudo=""
     CDS             <493..648
                     /locus_tag="PQP80_RS23525"
                     /old_locus_tag="PQP80_23525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_707212.3"
                     /GO_function="GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            742..1386
                     /locus_tag="PQP80_RS23530"
                     /old_locus_tag="PQP80_23530"
     CDS             742..1386
                     /locus_tag="PQP80_RS23530"
                     /old_locus_tag="PQP80_23530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrB19"
                     /protein_id="WP_012954666.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     gene            complement(1888..2124)
                     /locus_tag="PQP80_RS23535"
                     /old_locus_tag="PQP80_23535"
     CDS             complement(1888..2124)
                     /locus_tag="PQP80_RS23535"
                     /old_locus_tag="PQP80_23535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012772745.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     ARG             743..1383
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(2290..2463)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          18..440
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.035"
                     /coverage="85.0"
                     /evalue="2.34e-111"
     Typing          2436..2699
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.76"
                     /coverage="92.0"
                     /evalue="3.98e-99"
ORIGIN
        1 ctcgtgctcc cccgcattcc tgcctttcgg tttaccggtg tcattccgct gttatggccg
       61 cgtttatctc attccacgcc tgacactcag ttccgcgaag gcagttcgct cctggatgga
      121 ctgtatgcac gaaccccccg ttcagtccga ctgctgcgcc ttatccggta actatcatct
      181 tgagtccaac ccggaaagac acgacttatc gccactggca gcagccactg gtaactgatt
      241 tagaggagtt agtcttgaag ttatgcgcct gttaaggcta aactgaaaga acagatttgg
      301 ttactgcgct cctcgtaagc cagttaccac ggttcaaaga gttgctgctc tgagaacctt
      361 cgaaaaaccg ccttgcaggg cggttttttc gtttacagag caagagatta cgacgccaca
      421 gaaaggatct caagaagatc cttcaccgta atggaaatct atccaatccg agcacatagg
      481 atacacatcg ttataacgct ggatctgcgt gaattccagc agcagcaaga gaaagacttt
      541 ctacaaacca gcttacagca ggctaaattt aaccagaaaa aagccgctga attactgggt
      601 ctgacttatc atcagctacg tgccttgctg aagaaacacc agatctaata cgcatttgca
      661 ggtgtcatac tggcgggttt gacgcataac gtcataaggt ttaccatggc gtcattactg
      721 tataaaaaca caggcataga tatgactctg gcattagttg gcgaaaaaat tgacagaaat
      781 cgcttcaccg gtgagaaagt tgaaaatagt acatttttta actgcgattt ttcaggtgcc
      841 gacctgagcg gcactgaatt tatcggctgc cagttctatg atcgcgaaag tcagaaaggg
      901 tgcaatttta gtcgcgcaat gctgaaagat gccattttca aaagctgtga tttatcaatg
      961 gcagatttcc gcaacgtcag tgccttgggc attgaaattc gccactgccg cgcacaaggc
     1021 gcagatttcc gcggtgcaag ctttatgaat atgatcacca cgcgcacctg gttttgcagc
     1081 gcatatatca ctaatactaa tctaagctac gccaattttt cgaaagtcgt gttggaaaag
     1141 tgtgagctgt gggaaaaccg ctggatgggg actcaggtac tgggtgcgac gttcagtggt
     1201 tcagatctct ccggcggcga gttttcgact ttcgactggc gagcagcaaa cttcacacat
     1261 tgcgatctga ccaattcgga gttaggtgac ttagatattc ggggtgttga tttacaaggc
     1321 gttaagttag acagctacca ggcatcgttg ctcatggagc ggcttggcat cgctgtgatt
     1381 ggttagttca gcgtttacac cgggagatgc gtttgacgat ttacttttaa ccagtacgac
     1441 tcctggcaag cattgtgaaa cgttttctcc agtggacgaa tatcctgacc taccgcatca
     1501 acgacatgcc atctaatgct gcattctgga caggaatttg atgaatatct aaccaattca
     1561 ttttcgcgag aacaacgaat aaccactccc gaatcatgaa gccatgtctt aacgaaaata
     1621 tggctaactc atagcaaaaa aaaagccccc taagggcttt tttttgtacc tgacggtcag
     1681 accgattaaa cataacatcc cttgcccgca cccccgcagg cgccctcagc gcaatcctgc
     1741 tgcatcaggg ccgtttccag cacctttcct caccagtatc ccggaaaaac gcccctgatg
     1801 atttctgcgc gactgcatgg ctatgcacgc aggtgaatgg caggtgattt cgcagcgtca
     1861 gcaccactaa accgccaaaa gccaaaatca gcggcgcggc gcgcgcggac gtgaccaggc
     1921 aaaatcggac tgctgccgct catcctcacg taatgcacgc tggcggtcgg cgtaacgctg
     1981 caactcaatt tgcgcacgcg ctctgttcag gacgatgtgc cggttaggct gatttagctt
     2041 tttacctgac gctctttcag ctgcggcaac agcatcatca agaaattttt tctctgcagg
     2101 cgtcaagttt gtcagtctgg ccataacgtt ctccagtcag aataaatcag cacagtctgc
     2161 cagacacagt agaaacgatg aagcgccagc gacggtgaaa ggcagtcaga aacggtgaac
     2221 gggagcggat tttaatccgg tgccgtgagg cgttggacaa gccgcaggcg cgtcattagc
     2281 ttttagccgg tttcggggcg cagccctgaa ccagtcacgt agcgctagcg gagtgtatac
     2341 tggctgacta tgttggcacg gatgtggaaa tcagtgaagt gcttcatgta gcaggagaaa
     2401 aaaggcggca ccagcgcgtc agcaggatat gtagtacagg atatattccg cttcctcgct
     2461 cactgactcg ctgcgctcgg tcgttcggct gcggcgagcg gtgccggctt acaggcgggg
     2521 cggaaatttc ctgggagata ccaggaagga gcttaacagg gaagagataa ggccgcggcg
     2581 aagccgtttt tccataggct ccgcccccct gacaaacatc atgaaatctg acgctcaaat
     2641 cagtggtggc gaaacccgat gcggcttaaa gataccaggc gtttccccct ggtggctcc
//
