LOCUS       NZ_CP039504             1237 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain
            7101.67 plasmid p7101_67-1, complete sequence.
ACCESSION   NZ_CP039504
VERSION     NZ_CP039504.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11445819
            Assembly: GCF_004923395.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Worthington
  ORGANISM  Salmonella enterica subsp. enterica serovar Worthington
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 1237)
  AUTHORS   Clement,M., Keller,P.M., Bernasconi,O.J., Frey,P.M., Bloemberg,G.V.,
            Sendi,P. and Endimiani,A.
  TITLE     First Clinical Case of In Vivo Acquisition of DHA-1 plasmid-mediated
            AmpC in a Salmonella enterica subsp. enterica Isolate
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1237)
  AUTHORS   Clement,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-APR-2019) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern, Bern 3001,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 1.7.1; Pilon v. 1.22
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 40.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_004923395.1-RS_2024_06_17
            Annotation Date                   :: 06/17/2024 01:19:27
            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)                     :: 4,764
            CDSs (total)                      :: 4,645
            Genes (coding)                    :: 4,508
            CDSs (with protein)               :: 4,508
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 55 of 137
            Pseudo Genes (incomplete)         :: 84 of 137
            Pseudo Genes (internal stop)      :: 34 of 137
            Pseudo Genes (multiple problems)  :: 31 of 137
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039504.1.
            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..1237
                     /organism="Salmonella enterica subsp. enterica serovar
                     Worthington"
                     /mol_type="genomic DNA"
                     /strain="7101.67"
                     /serovar="Worthington"
                     /isolation_source="Stools"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:1160769"
                     /plasmid="p7101_67-1"
                     /geo_loc_name="Switzerland: Bern"
                     /lat_lon="46.947578 N 7.423210 E"
                     /collection_date="2018-11"
                     /collected_by="Insel Spital, Bern, Switzerland"
     gene            1..510
                     /locus_tag="FAF08_RS23975"
                     /old_locus_tag="FAF08_24035"
     CDS             1..510
                     /locus_tag="FAF08_RS23975"
                     /old_locus_tag="FAF08_24035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243913.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_052923824.1"
                     /translation="MIVASEHQTKLRQKEIQEIDRKASKEHEEAKKNSNFTQTYPKGWQ
                     RIRELVRDKQGAAAIGLYSFFAEHIDPTCGAVVCDQQFLANQMGVSTRTIRRWLDYLEE
                     KGALVRIPVAGKVCAYALDPHEVWKGYNTSKDYSAFVTKTLVNKDGEIKRRIMAMFSGE
                     ESGQEQ"
                     /name="helix-turn-helix domain-containing protein"
ORIGIN
        1 atgatcgtag cttcagaaca tcaaacaaag ctaagacaga aagaaataca ggaaatcgac
       61 aggaaggcat ctaaagagca cgaggaggcg aagaagaata gcaacttcac ccagacatac
      121 ccaaagggct ggcaacgcat tagagagctt gtgagggaca aacaaggtgc tgccgctata
      181 ggtctttact catttttcgc tgaacacata gatcctacct gcggtgccgt ggtctgcgac
      241 cagcaatttt tagctaatca aatgggtgtt tctactcgga caattcgtcg ttggttagat
      301 tatttggagg agaagggtgc cttggtaaga ataccagttg ccggcaaggt ctgtgcttac
      361 gctttagatc ctcatgaagt ctggaaagga tataacacat caaaagacta ctcagccttt
      421 gttaccaaga cgttagtgaa caaagatgga gaaataaaac gccggataat ggctatgttt
      481 tcaggagagg agagcggtca agagcagtag cgaagcgact cttgacggct cggaacgacc
      541 cccaccctcg aaaaggggga tggttcgcca cagcgagcca tccccatgat aagcagccct
      601 ttaagcagta aatcccataa ataaataaaa cagcacatca cttttgtaat gtgccgcatt
      661 cctttgggac taaaaggact tagccaggaa tgtaatacag aaaattaatc gacaaggagg
      721 tcatcatgat cacttcaaca atcatcacaa tcattggctt aattggaagc ctcataacga
      781 tttaccgaga gatatatcct aaggataagc actaattagc cagtatacac tccgctagcg
      841 gagtaactgg ttcagggctt cgccccgaaa cccctaaaaa ccgtcatgca tggtgatggc
      901 tcactatgcg agccatcacc agataaaagg ttaaatgggc attttgatcg tcaaggtcaa
      961 gccgctaacg cggtcgccta tggcgaaccc tgaccctcaa aatgcccgac cggagggagg
     1021 gagctacctt gaactttggt gttgtctgtt ggttttcata gaagagaata ggggaaaata
     1081 gtaaattact gattcttata gaattgtttt tttctgatag gacacagctg gtgtccgcac
     1141 gtgaggacac agtggtgtcc gcatggctgg acataggacg ccgcaagtcc tatgatagga
     1201 caagaatgtc ctatcaaaaa gacaccgagg gataaag
//
