LOCUS       NZ_CP039512             1240 bp    DNA     circular CON 14-OCT-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain
            7102.58 plasmid p7102_58-1, complete sequence.
ACCESSION   NZ_CP039512
VERSION     NZ_CP039512.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11445820
            Assembly: GCF_004923415.2
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 1240)
  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  JOURNAL   Unpublished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 1240)
  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 Date                   :: 10/14/2023 03:11:15
            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)                     :: 4,876
            CDSs (total)                      :: 4,757
            Genes (coding)                    :: 4,602
            CDSs (with protein)               :: 4,602
            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)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 63 of 155
            Pseudo Genes (incomplete)         :: 97 of 155
            Pseudo Genes (internal stop)      :: 36 of 155
            Pseudo Genes (multiple problems)  :: 37 of 155
            Pseudo Genes (short protein)      :: 1 of 155
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039512.1.
            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..1240
                     /organism="Salmonella enterica subsp. enterica serovar
                     Worthington"
                     /mol_type="genomic DNA"
                     /strain="7102.58"
                     /serovar="Worthington"
                     /isolation_source="Stools"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:1160769"
                     /plasmid="p7102_58-1"
                     /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="FAF09_RS24015"
                     /old_locus_tag="FAF09_24090"
     CDS             1..510
                     /locus_tag="FAF09_RS24015"
                     /old_locus_tag="FAF09_24090"
                     /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 agctggtgtc cgcatgtggc tggacatagg acgccgcaag tcctatgata
     1201 ggacaagaat gtcctatcaa aaagacaccg agggataaag
//
