LOCUS       CP119513                3071 bp    DNA     circular BCT 16-MAR-2023
DEFINITION  Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain
            FSIS31901558 plasmid pFSIS31901558-3, complete sequence.
ACCESSION   CP119513
VERSION     CP119513.1
DBLINK      BioProject: PRJNA242847
            BioSample: SAMN10924178
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
  ORGANISM  Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3071)
  AUTHORS   Ge,B.
  TITLE     Genomic Analysis of Azithromycin-Resistant Salmonella from Food
            Animals and Retail Meats, 2015-2021, United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3071)
  CONSRTM   GenomeTrakr network: Whole genome sequencing for foodborne pathogen
            traceback
  TITLE     Direct Submission
  JOURNAL   Submitted (15-FEB-2019) Center for Food Safety and Applied
            Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy,
            College Park, MD, USA
REFERENCE   3  (bases 1 to 3071)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-MAR-2023) CVM/OAS, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 24-SEP-2021
            Assembly Method                   :: HGAP v. 4
            Assembly Name                     :: Microbial assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 387x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 03/09/2023 09:55:21
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.4
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,221
            CDSs (total)                      :: 5,095
            Genes (coding)                    :: 4,975
            CDSs (with protein)               :: 4,975
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 120
            CDSs (without protein)            :: 120
            Pseudo Genes (ambiguous residues) :: 0 of 120
            Pseudo Genes (frameshifted)       :: 35 of 120
            Pseudo Genes (incomplete)         :: 96 of 120
            Pseudo Genes (internal stop)      :: 16 of 120
            Pseudo Genes (multiple problems)  :: 26 of 120
            Pseudo Genes (short protein)      :: 1 of 120
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..3071
                     /organism="Salmonella enterica subsp. enterica serovar
                     4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="FSIS31901558"
                     /serovar="4,[5],12:i:-"
                     /isolation_source="Product-Raw-Ground, Comminuted or
                     Otherwise Nonintact-Pork"
                     /sub_species="enterica"
                     /db_xref="taxon:440524"
                     /plasmid="pFSIS31901558-3"
                     /geo_loc_name="USA:NY"
                     /collection_date="2019"
                     /collected_by="USDA-FSIS"
     gene            complement(786..1430)
                     /locus_tag="EXV24_26095"
     CDS             complement(786..1430)
                     /locus_tag="EXV24_26095"
                     /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="WEO07978.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     gene            complement(1524..1679)
                     /locus_tag="EXV24_26100"
                     /pseudo=""
     CDS             complement(1524..1679)
                     /locus_tag="EXV24_26100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309907.2"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology.
                     GO_function: GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            2617..2766
                     /locus_tag="EXV24_26105"
     CDS             2617..2766
                     /locus_tag="EXV24_26105"
                     /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="WEO07977.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     ARG             complement(790..1430)
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          2409..2582
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(1939..2430)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 acagaattac atcgctcctt cagttcatac atcactttta caacactttt acaacactcc
       61 ttcggcctgt acatcacttt tacaacactt ttgcatcact tttacatcat ttatacatca
      121 cttttacatc attccttcag ctcatacgtc actttcatcc tctgtgccat ttgtacatca
      181 cccccttcct gaacgtgctg acagcgggtt ttccggctgc gccggcaacg cttcacggcc
      241 acgcaataaa ttgcgtcccc gttcaccgtt ttcggatggg aagaacgccg gaaacaggac
      301 ttcccctggc tgaatggtgt gaatttccgc gctatgcact tgcgcgcata ctcatgcatg
      361 ccgtaaaaac agagcctgcg cgtttctggc gggttttcgg gtggtttgtt gcctgtttta
      421 ccggtttccc gtcagaaacg ccctcagagc ctctcaggcg gtgcacgcaa gggatgttat
      481 gtttaatcgg tctgaccgtc aggtacaaaa aaaagccctt agggggcttt ttttttgcta
      541 tgagttagcc atattttcgt taagacatgg cttcatgatt cgggagtggt tattcgttgt
      601 tctcgcgaaa atgaattggt tagatattca tcaaattcct gtccagaatg cagcattaga
      661 tggcatgtcg ttgatgcggt aggtcaggat attcgtccac tggagaaaac gtttcacaat
      721 gcttgccagg agtcgtactg gttaaaagta aatcgtcaaa cgcatctccc ggtgtaaacg
      781 ctgaactaac caatcacagc gatgccaagc cgctccatga gcaacgatgc ctggtagctg
      841 tctaacttaa cgccttgtaa atcaacaccc cgaatatcta agtcacctaa ctccgaattg
      901 gtcagatcgc aatgtgtgaa gtttgctgct cgccagtcga aagtcgaaaa ctcgccgccg
      961 gagagatctg aaccactgaa cgtcgcaccc agtacctgag tccccatcca gcggttttcc
     1021 cacagctcac acttttccaa cacgactttc gaaaaattgg cgtagcttag attagtatta
     1081 gtgatatatg cgctgcaaaa ccaggtgcgc gtggtgatca tattcataaa gcttgcaccg
     1141 cggaaatctg cgccttgtgc gcggcagtgg cgaatttcaa tgcccaaggc actgacgttg
     1201 cggaaatctg ccattgataa atcacagctt ttgaaaatgg catctttcag cattgcgcga
     1261 ctaaaattgc accctttctg actttcgcga tcatagaact ggcagccgat aaattcagtg
     1321 ccgctcaggt cggcacctga aaaatcgcag ttaaaaaatg tactattttc aactttctca
     1381 ccggtgaagc gatttctgtc aattttttcg ccaactaatg ccagagtcat atctatgcct
     1441 gtgtttttat acagtaatga cgccatggta aaccttatga cgttatgcgt caaacccgcc
     1501 agtatgacac ctgcaaatgc gtattagatc tggtgtttct tcagcaaggc acgtagctga
     1561 tgataagtca gacccagtaa ttcagcggct tttttctggt taaatttagc ctgctgtaag
     1621 ctggtttgta gaaagtcttt ctcttgctgc tgctggaatt cacgcagatc cagcgttata
     1681 acgatgtgta tcctatgtgc tcggattgga tagatttcca ttacggtgaa ggatcttctt
     1741 gagatccttt ctgtggcgtc gtaatctctt gctctgtaaa cgaaaaaacc gccctgcaag
     1801 gcggtttttc gaaggttctc agagcagcaa ctctttgaac cgtggtaact ggcttacgag
     1861 gagcgcagta accaaatctg ttctttcagt ttagccttaa caggcgcata acttcaagac
     1921 taactcctct aaatcagtta ccagtggctg ctgccagtgg cgataagtcg tgtctttccg
     1981 ggttggactc aagatgatag ttaccggata aggcgcagca gtcggactga acggggggtt
     2041 cgtgcataca gtccatccag gagcgaactg ccttcgcgga actgagtgtc aggcgtggaa
     2101 tgagataaac gcggccataa cagcggaatg acaccggtaa accgaaaggc aggaatgcgg
     2161 gggagcacga gggagccacc agggggaaac gcctggtatc tttaagccgc atcgggtttc
     2221 gccaccactg atttgagcgt cagatttcat gatgtttgtc aggggggcgg agcctatgga
     2281 aaaacggctt cgccgcggcc ttatctcttc cctgttaagc tccttcctgg tatctcccag
     2341 gaaatttccg ccccgcctgt aagccggcac cgctcgccgc agccgaacga ccgagcgcag
     2401 cgagtcagtg agcgaggaag cggaatatat cctgtactac atatcctgct gacgcgctgg
     2461 tgccgccttt tttctcctgc tacatgaagc acttcactga tttccacatc cgtgccaaca
     2521 tagtcagcca gtatacactc cgctagcgct acgtgactgg ttcagggctg cgccccgaaa
     2581 cccgctaaca acctctctgc tactggatat caccccatgc catctgaata tgatgaacaa
     2641 cggggttcga ctgatacgca gcttcccggc gaatatgacc tttttgattt aatggcgaag
     2701 gttactgaag agatcctgca tgcccctgtg gattctgggc cgcctgtcgg ccgggaagcg
     2761 ttatagcttt ttcgcttgcc cgcgtacgtg gtaatacgcc ggtattacct tttatttctt
     2821 tattttcatg taattacagt gggtttttaa tacctgggta ttactcgtga aaacgaaaca
     2881 ttactttttt ttcttttaat tcatgcagtt gcgatgaaaa tcgcggctgc gttaggtgta
     2941 tgaccatttt gaggttgaaa aataatcaac catggcgggt gatttacgca ggttaagggg
     3001 agatcgtgac aaaaaaaagc gttcctcact gtatcgttca tgcaggcatg aacgggttat
     3061 tcttcctgac t
//
