LOCUS       NZ_CP080516             3228 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Minnesota strain SA18578
            plasmid pSA18578_3, complete sequence.
ACCESSION   NZ_CP080516
VERSION     NZ_CP080516.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20518183
            Assembly: GCF_019468645.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Minnesota
  ORGANISM  Salmonella enterica subsp. enterica serovar Minnesota
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3228)
  AUTHORS   Alzahrani,K.O., Alshdokhi,E.A., Mujallad,M.I., AL-Reshoodi,F.M.,
            Alasiri,A.S., Alswaji,A., Alzayer,M.A., Okdah,L., Alghoribi,M.F. and
            Alajel,S.M.
  TITLE     Complete genome sequence of colistin-susceptible Salmonella enterica
            serovar Minnesota strain harboring mcr-9 on an IncHI2 plasmid
            isolated from chicken meat in Riyadh, Saudi Arabia
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3228)
  AUTHORS   Alzahrani,K.O., Alshdokhi,E.A., Mujallad,M.I., AL-Reshoodi,F.M.,
            Alasiri,A.S., Alswaji,A., Alzayer,M.A., Okdah,L., Alghoribi,M.F. and
            Alajel,S.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-AUG-2021) Infectious Diseases Research, King Abdullah
            International Medical Research Center (KAIMRC), KAIMRC, P.O Box
            22490, Riyadh 11426, Saudi Arabia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: EToKi pipeline v. 1.0
            Assembly Name                     :: SA18578
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 40.0x
            Sequencing Technology             :: Illumina MiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:22:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,268
            CDSs (total)                      :: 5,151
            Genes (coding)                    :: 4,980
            CDSs (with protein)               :: 4,980
            Genes (RNA)                       :: 117
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 72 of 171
            Pseudo Genes (incomplete)         :: 123 of 171
            Pseudo Genes (internal stop)      :: 26 of 171
            Pseudo Genes (multiple problems)  :: 45 of 171
            Pseudo Genes (short protein)      :: 1 of 171
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080516.1.
            Bacteria and source DNA available from Sulaiman Alajel.
            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..3228
                     /organism="Salmonella enterica subsp. enterica serovar
                     Minnesota"
                     /mol_type="genomic DNA"
                     /strain="SA18578"
                     /serovar="Minnesota"
                     /isolation_source="food"
                     /sub_species="enterica"
                     /db_xref="taxon:70803"
                     /plasmid="pSA18578_3"
                     /geo_loc_name="Saudi Arabia"
                     /lat_lon="24.774265 N 46.738586 E"
                     /collection_date="2020-07"
                     /collected_by="Sulaiman Alajel"
                     /genotype="ST548"
     gene            complement(865..1509)
                     /locus_tag="K1T32_RS26090"
                     /old_locus_tag="K1T32_26090"
     CDS             complement(865..1509)
                     /locus_tag="K1T32_RS26090"
                     /old_locus_tag="K1T32_26090"
                     /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(1603..>1758)
                     /locus_tag="K1T32_RS26095"
                     /old_locus_tag="K1T32_26095"
                     /pseudo=""
     CDS             complement(1603..>1758)
                     /locus_tag="K1T32_RS26095"
                     /old_locus_tag="K1T32_26095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309907.2"
                     /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            2696..2845
                     /locus_tag="K1T32_RS26100"
                     /old_locus_tag="K1T32_26100"
     CDS             2696..2845
                     /locus_tag="K1T32_RS26100"
                     /old_locus_tag="K1T32_26100"
                     /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_162846302.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     ARG             complement(869..1509)
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          2488..2661
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(2018..2509)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 aacactttta caacactcct tcggcctgta catcactttt acaacacttt tgcatcactt
       61 ttacatcatt tatacatcac ttttacatca ttccttcagc tcatacgtca ctttcatcct
      121 ctgtgccatt tgtacatcac ccccttcctg aacgtgctga cagcgggttt tccggctgcg
      181 ccggcaacgc ttcacggcca cgcaataaat tgcgtccccg ttcaccgttt tcggatggga
      241 agaacgccgg aaacaggact tcccctggct gaatggtgtg aatttccgcg ctatgcactt
      301 gcgcgcatac tcatgcatgc cgtaaaaaca gagcctgcgc gtttctggcg ggttttcggg
      361 tggtttgttg cctgttttac cggtttcccg tcagaaacgc cctcagagcc tctcaggcgg
      421 tgcacgcaag ggatgttatg tttaatcggt ctgaccgtca ggtacaaaaa aaagccccct
      481 aagggctttt tttttgctat gagttagcca tattttcgtg cgaatttttc atcggaatcg
      541 catagataaa taataaactc aataaacgcg atgatcgcgg ggtatttgta ttgaggatgt
      601 cagtaaacgg gatgacatgg ctgaagttga gattataaat aagacatggc ttcatgattc
      661 gggagtggtt attcgttgtt ctcgcgaaaa tgaattggtt agatattcat caaattcctg
      721 tccagaatgc agcattagat ggcatgtcgt tgatgcggta ggtcaggata ttcgtccact
      781 ggagaaaacg tttcacaatg cttgccagga gtcgtactgg ttaaaagtaa atcgtcaaac
      841 gcatctcccg gtgtaaacgc tgaactaacc aatcacagcg atgccaagcc gctccatgag
      901 caacgatgcc tggtagctgt ctaacttaac gccttgtaaa tcaacacccc gaatatctaa
      961 gtcacctaac tccgaattgg tcagatcgca atgtgtgaag tttgctgctc gccagtcgaa
     1021 agtcgaaaac tcgccgccgg agagatctga accactgaac gtcgcaccca gtacctgagt
     1081 ccccatccag cggttttccc acagctcaca cttttccaac acgactttcg aaaaattggc
     1141 gtagcttaga ttagtattag tgatatatgc gctgcaaaac caggtgcgcg tggtgatcat
     1201 attcataaag cttgcaccgc ggaaatctgc gccttgtgcg cggcagtggc gaatttcaat
     1261 gcccaaggca ctgacgttgc ggaaatctgc cattgataaa tcacagcttt tgaaaatggc
     1321 atctttcagc attgcgcgac taaaattgca ccctttctga ctttcgcgat catagaactg
     1381 gcagccgata aattcagtgc cgctcaggtc ggcacctgaa aaatcgcagt taaaaaatgt
     1441 actattttca actttctcac cggtgaagcg atttctgtca attttttcgc caactaatgc
     1501 cagagtcata tctatgcctg tgtttttata cagtaatgac gccatggtaa accttatgac
     1561 gttatgcgtc aaacccgcca gtatgacacc tgcaaatgcg tattagatct ggtgtttctt
     1621 cagcaaggca cgtagctgat gataagtcag acccagtaat tcagcggctt ttttctggtt
     1681 aaatttagcc tgctgtaagc tggtttgtag aaagtctttc tcttgctgct gctggaattc
     1741 acgcagatcc agcgttataa cgatgtgtat cctatgtgct cggattggat agatttccat
     1801 tacggtgaag gatcttcttg agatcctttc tgtggcgtcg taatctcttg ctctgtaaac
     1861 gaaaaaaccg ccctgcaagg cggtttttcg aaggttctca gagcagcaac tctttgaacc
     1921 gtggtaactg gcttacgagg agcgcagtaa ccaaatctgt tctttcagtt tagccttaac
     1981 aggcgcataa cttcaagact aactcctcta aatcagttac cagtggctgc tgccagtggc
     2041 gataagtcgt gtctttccgg gttggactca agatgatagt taccggataa ggcgcagcag
     2101 tcggactgaa cggggggttc gtgcatacag tccatccagg agcgaactgc cttcgcggaa
     2161 ctgagtgtca ggcgtggaat gagataaacg cggccataac agcggaatga caccggtaaa
     2221 ccgaaaggca ggaatgcggg ggagcacgag ggagccacca gggggaaacg cctggtatct
     2281 ttaagccgca tcgggtttcg ccaccactga tttgagcgtc agatttcatg atgtttgtca
     2341 ggggggcgga gcctatggaa aaacggcttc gccgcggcct tatctcttcc ctgttaagct
     2401 ccttcctggt atctcccagg aaatttccgc cccgcctgta agccggcacc gctcgccgca
     2461 gccgaacgac cgagcgcagc gagtcagtga gcgaggaagc ggaatatatc ctgtactaca
     2521 tatcctgctg acgcgctggt gccgcctttt ttctcctgct acatgaagca cttcactgat
     2581 ttccacatcc gtgccaacat agtcagccag tatacactcc gctagcgcta cgtgactggt
     2641 tcagggctgc gccccgaaac ccgctaacaa cctctctgct actggatatc accccatgcc
     2701 atctgaatat gatgaacaac ggggttcgac tgatacgcag cttcccggcg aatatgacct
     2761 ttttgattta atggcgaagg ttactgaaga gatcctgcat gcccctgtgg attctgggcc
     2821 gcctgtcggc cgggaagcgt tatagctttt tcgcttgccc gcgtacgtgg taatacgccg
     2881 gtattacctt ttatttcttt attttcatgt aattacagtg ggtttttaat acctgggtat
     2941 tactcgtgaa aacgaaacat tacttttttt tcttttaatt catgcagttg cgatgaaaat
     3001 cgcggctgcg ttaggtgtat gaccattttg aggttgaaaa ataatcaacc atggcgggtg
     3061 atttacgcag gttaagggga gatcgtgaca aaaaaaagcg ttcctcactg tatcgttcat
     3121 gcctgcatga acgggttatt cttcctgact acagaattac atcgctcctt cagttcatac
     3181 atcactttta caacactttt acaacactcc ttcggcctgt acatcact
//
