LOCUS       NZ_CP039505             2733 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain
            7101.67 plasmid p7101_67-2, complete sequence.
ACCESSION   NZ_CP039505
VERSION     NZ_CP039505.1
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 2733)
  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  JOURNAL   Unpublished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 2733)
  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
            CP039505.1.
            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..2733
                     /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_67-2"
                     /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..1017
                     /gene="mobV"
                     /locus_tag="FAF08_RS23980"
                     /old_locus_tag="FAF08_24040"
     CDS             1..1017
                     /gene="mobV"
                     /locus_tag="FAF08_RS23980"
                     /old_locus_tag="FAF08_24040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_136655212.1"
                     /translation="MRSPDWLDGRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWKEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMRDDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDSQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQQNQEKEKQQRVEREKQRQMRSRGMGGMER"
                     /name="mobV"
     gene            complement(1081..1407)
                     /locus_tag="FAF08_RS23985"
                     /old_locus_tag="FAF08_24045"
     CDS             complement(1081..1407)
                     /locus_tag="FAF08_RS23985"
                     /old_locus_tag="FAF08_24045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001070513.1"
                     /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_223571429.1"
                     /translation="MNQAALITIANELNHDQMRVLMALLAELDYENYIQVAQMDIAEAL
                     TMQKTNVSRAVKNLIDFGIILEGPKIGRSKTYRLNPQFGWKGTVSNHKKALKNGLSVIQ
                     GGRT"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1927..2532)
                     /locus_tag="FAF08_RS23990"
                     /old_locus_tag="FAF08_24050"
     CDS             complement(1927..2532)
                     /locus_tag="FAF08_RS23990"
                     /old_locus_tag="FAF08_24050"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_054623596.1"
                     /translation="MSFIKSLNKKNQTDQIEVTINVRLTQEEDHLLTLATQQSGYKRNE
                     LFYLLAKEYIFDDESLKEMAEESGAEFSEGLYQNCYVVNTNRVHHEEDDKFMISEGVAA
                     TFEDGYKEKMEQVKKGDLVFLYRSGEGIVAHGIASGDVLKKDHNGVPDKTYYQKLSGFV
                     RYEKPLTASEIQRILGRNVVFMHTLFSIRDGYKLLKKD"
                     /name="hypothetical protein"
     Typing          2..1014
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.337"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgcgatccc ccgactggct ggatggacgc cagaacgagg gggtaagcat ggcgaattac
       61 gcgataatgc gctgcaaaaa gctgacggga atgggcagtg tggccagcgc tttgcagcac
      121 tgctacaggg agcgtgagac gccgaatgct gacgctgaac ggacaccaga aaactactgc
      181 tctgtgtctc agtcggcaga tgaggcgatg ggaaagctgc gggagctgtt gccggaaaaa
      241 cgccgtaaag atgcggtact ggctgttgaa tacgttatga cggcaagccc tgagtggtgg
      301 aaagaagcga caccgcggca gcaggcggag tttttcgccc gctctgagca atggctggag
      361 aagaaatacg ggaaggatcg tgttgtggcg gcggtggttc accgggacga ggccaccccg
      421 cacttgtcag cgttcgtggt gccattgacg caggatggac ggctgtccgc gaaagagttt
      481 attggcgggc ggtcaaagat gcgtgacgat cagagcacct acgctgaatc agtaaaaaaa
      541 ctgggtcttg agcgcggcat cgagggaagc cgcgccacgc atcagacagt tcagcactac
      601 tacgaatcga taaaccgtgg cacccgtagc caggtatcga tctcgccgga ggcgctggag
      661 ccgcgtgtat tgcggaaggg cattttcacc aaagacgtgg aagatcaggc agccatagcc
      721 aaacgtctaa gccacgcagt gaacgatggc tttgcaggaa ccatcgctat ggcctctcag
      781 agcgcccaga atgcaaaaag agcgcgcgag ctacagaaga ctatggattc gcagcagaaa
      841 cgcctacaga gcgttacaga gccttttaag gggctttcca gagagcagat gacagaaatc
      901 ctgatgatgg ctcagcggtt taagcagcaa aaccaggaga aggagaaaca gcagcgtgtt
      961 gaacgtgaga aacagcgaca gatgcgatcg cgtggcatgg gcggtatgga gcgttagttt
     1021 tgatgcgatg caggataggg ctaacgccgc aaaatgacgc catttgcggc attccagaga
     1081 tcaggttctg ccgccctgta taacgctgag gccgtttttc agtgcttttt tgtggttgct
     1141 gacagtacct ttccagccga actggggatt taggcggtac gttttgctcc gcccaatctt
     1201 cggcccttcc agtatgatcc cgaaatcaat caggtttttt accgcacgac tgacatttgt
     1261 tttttgcata gtcagcgctt ccgcaatatc catctgcgca acttggatgt agttctcgta
     1321 atccagttct gcgagcaagg ccatcagcac acgcatctgg tcatggttta gctcattggc
     1381 aatggtaatt agcgcggctt ggttcatagt aaagtgcctc tggaatgatg acttttgttt
     1441 aggacgaatc actgctacaa aaccacctaa ttcctcccct gtagtttggt ctacctgcgt
     1501 gattctccgc atctaaaaat ctccattcag gaaaaaatag ttatctctca agataactaa
     1561 gttatctcta gagataacta ttgtcaaaaa ctttccgctt gtggcgcggc ttcccagcca
     1621 tccccttctg tatcttatta ctctccacaa tcacacatcg gcaaaatcag gcgtttttct
     1681 gcccgttcgg tgcgaacgaa tttctatgta cgggaagtgg aaattccgct tcctcgctca
     1741 ttcgctcact acgttcggtc atgagtctgc ggcgagcggt tcttgatttt ttaaaacgat
     1801 attcggagct ttatttcgtc aagggcgagc gtagcgagtt catttaccct tgacgatgca
     1861 ctgtaaaaaa cacttccgga aggtggttgg tgtcacaaag tgatgccaac cacctgtaga
     1921 ctgggtttaa tcttttttaa gcagtttata gccatctcta atgctaaata gcgtgtgcat
     1981 aaacacaacg tttctcccca gtattctctg gatctcagac gcggttagtg gtttttcgta
     2041 cctaacaaag cctgatagct tctggtagta ggtcttgtct ggcacgccat tatgatcttt
     2101 ctttaaaaca tcaccactgg cgataccatg tgcaacaatt ccttcgccgg agcgataaag
     2161 aaagactaaa tctccttttt taacctgctc cattttttcc ttataaccat cttcaaatgt
     2221 tgccgctacg ccctctgaaa tcatgaactt atcatcttct tcatgatgaa ctctgttagt
     2281 gttaaccaca taacaatttt ggtataagcc ttctgaaaac tcagcgccag actcctcagc
     2341 catttccttt aagctttcat catcaaagat gtattccttt gctaggaggt agaatagctc
     2401 gttcctttta taaccagatt gctgggttgc taatgtcagt aaatggtcct cttcttgggt
     2461 taacctaacg ttaatcgtca cttctatttg gtctgtttga ttttttttgt ttagcgattt
     2521 tatgaatgac atcttacttt cctcaccaga gttaatgtac taatcaatga tagtgaatca
     2581 ctacattgaa acagaagcat tgatcacatc tttgatttaa gcaatgactt tatgtcatat
     2641 atttttatta agttgaattt aacgaacgat tttgcgtagc aaagtctagt gagtacacta
     2701 tcatcctgat agtggcccgc cggaggcatc gca
//
