LOCUS       CP101343                5196 bp    DNA     linear   BCT 15-AUG-2022
DEFINITION  Salmonella enterica strain s15D023 plasmid ps15D023_4.
ACCESSION   CP101343
VERSION     CP101343.1
DBLINK      BioProject: PRJNA850394
            BioSample: SAMN29636373
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5196)
  AUTHORS   Du,P., Liu,X., Liu,Y., Li,R., Lu,X., Cui,S., Wu,Y., Fanning,S. and
            Bai,L.
  TITLE     Dynamics of Antimicrobial Resistance and Genomic Epidemiology of
            Multidrug-Resistant Salmonella enterica Serovar Indiana ST17 from
            2006 to 2017 in China
  JOURNAL   mSystems, e0025322 (2022) In press
   PUBMED   35861536
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 5196)
  AUTHORS   Du,P., Liu,X., Liu,Y., Li,R., Lu,X., Cui,S., Wu,Y., Fanning,S. and
            Bai,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUL-2022) Institute of Infectious Diseases, Beijing
            Ditan Hospital, Capital Medical University, No.8 jingshundongjie,
            Beijing 100015, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 07/12/2022 17:12:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,880
            CDSs (total)                      :: 4,768
            Genes (coding)                    :: 4,619
            CDSs (with protein)               :: 4,619
            Genes (RNA)                       :: 112
            rRNAs                             :: 6, 6, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            partial rRNAs                     :: 1 (23S)
            tRNAs                             :: 81
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 61 of 149
            Pseudo Genes (incomplete)         :: 110 of 149
            Pseudo Genes (internal stop)      :: 31 of 149
            Pseudo Genes (multiple problems)  :: 44 of 149
            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..5196
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="s15D023"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="ps15D023_4"
                     /geo_loc_name="China:Henan"
                     /collection_date="2013"
                     /collected_by="State Key Laboratory of Infectious Disease
                     Prevention and Control"
     gene            257..1432
                     /gene="oqxA"
                     /locus_tag="NMV07_24330"
     ARG             258..1429
                     /name="oqxA"
                     /gene="oqxA"
                     /gene_name="multidrug efflux RND transporter periplasmic
                     adaptor subunit OqxA"
                     /tool="amrfinderplus"
                     /drug_class="PHENICOL/QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            1456..4608
                     /gene="oqxB"
                     /locus_tag="NMV07_24335"
     ARG             1457..4605
                     /name="oqxB"
                     /gene="oqxB"
                     /gene_name="multidrug efflux RND transporter permease
                     subunit OqxB"
                     /tool="amrfinderplus"
                     /drug_class="PHENICOL/QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(4678..5157)
                     /locus_tag="NMV07_24340"
     CDS             complement(4678..5157)
                     /locus_tag="NMV07_24340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900633.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rrf2 family transcriptional regulator"
                     /protein_id="UUX21718.1"
                     /translation="MLDYRFPTALQMVLSVAMAEQMGERSTSAILAYGLEANPSFIRKL
                     MVPLTRDGIIVSTLGRNGSIHLGRPADKITLRDIYLSVIEDKKLWASRPDVPARCVVSA
                     NACWYFKSVADEAEQASLNVLARHTVASALEAVKNADTSGCDPVPEMIARFKKAH"
                     /name="Rrf2 family transcriptional regulator"
ORIGIN
        1 agttttattg ttacatttaa atccacgccg ggatcgcggt tttttatccc ccccctggac
       61 cgcacataaa gtgcaacaat tattcttgca cttagttaag cgccttccta caatcgccgc
      121 gatagtgtat tcgaaattgt tacagttttg tggcgatgat cgacacaaat ggccttaagc
      181 cagcccggac aaaggaagtg gcgcggcttc tcacgctgcg tcttgcccgg cggctacatt
      241 taccggaata aaaataatga gcctgcaaaa aacctgggga aacattcacc tgaccgcgct
      301 cggcgcgatg atgctctcct ttctgctcgt cggctgcgac gacagcgtcg cacagaatgc
      361 tgcgcctccc gccccgacgg tcagcgccgc taaggtgctg gtgaagtcga tcagtcagtg
      421 ggatagtttt aacggtcgca ttgaagcggt ggagagcgtt cagcttcgcc ctcgcgtctc
      481 gggatacatt gataaagtga attacactga cggccaggag gtgaaaaagg gccaggtgct
      541 gttcacgata gatgacagaa cctatcgcgc cgcgctggag caggcgcagg cggcgttggc
      601 aagagccaaa acgcaggcca gcctcgcgca aagcgaggcg aaccgcaccg ataaattagt
      661 ccataccaac ctcgtctccc gtgaagagtg ggagcagcgc cggtcagccg cggttcaggc
      721 gcaggccgac attcgcgccg cgcaggcggc ggtggatgcc gcgcagctta acctcgactt
      781 caccaaagtg accgccccta ttgacggccg cgccagccgg gcgctgatca ccagcggtaa
      841 cctggtcacc gcgggcgaca ccgccagcgt gctcaccacc ctggtctcgc aaaagacggt
      901 gtacgtctac tttgacgtcg acgagtcaac ctacctccac tatcaaaacc tcgcccgccg
      961 cgggcaaggc gcgtccagcg ataatcaggc gctcccggtg gagattggcc tggtgggcga
     1021 ggagggttac ccccaccagg gcaaagtgga ttttctcgat aatcagttaa cgccgagtac
     1081 cggcaccatc cgcatgcgtg cgctgctgga taactcgcag cgtctgttca cgccggggct
     1141 gtttgcccgc gtgcgtctgc cgggcagcgc agagttcaaa gccacgctga tcgacgacaa
     1201 agcggtactg accgatcagg atcgtaaata cgtctatatc gttgataaag atggtaaagc
     1261 acagcgccgc gacattaccc cagggcggct ggcagacggt ttacgcatcg ttcagaaggg
     1321 gttgaatcct ggggatagcg tcatcgtcga cggcttacaa aaagtgttta tgccgggtat
     1381 gccggttaac gccaaaaccg ttgccatgac ctccagcgcc acccttaact gatccctaat
     1441 cagagaatcc aagacatgga cttttcccgc ttttttatcg acaggccgat tttcgccgcg
     1501 gtgctgtcga ttttaatttt tatcaccggg ttaatcgcta tcccactgct gccggtgagc
     1561 gaatatccgg atgtcgtccc gccgagcgtc caggtgcgcg cggagtatcc cggcgccaac
     1621 ccgaaagtga ttgccgagac cgtggcgacg ccgctggagg aagcgatcaa cggcgttgaa
     1681 aacatgatgt acatgaaatc ggtcgccggc tccgacggcg tgctggtcac caccgtcacc
     1741 ttccgcccgg gtaccgaccc ggatcaggcg caggttcagg tgcagaaccg cgtcgcgcag
     1801 gccgaagcgc gtctgccgga ggatgtacgc cgtctgggga tcaccaccca gaagcagtct
     1861 ccgacgctga ccctggtggt gcatctgttc tcccccggcg ggaagtacga ctcgctgtat
     1921 atgcgcaact acgccacgct gaaagtgaag gatgagctgg cgcgcctgcc cggcgtcggc
     1981 cagatccaga tttttggctc cggtgaatat gcgatgcgcg tctggctgga tcccaataag
     2041 gtcgctgccc gcggtctgac ggcctcggat gtggtgacgg cgatgcagga gcaaaacgtc
     2101 caggtgtctg ccggacagct tggcgccgag ccgctgccgc aggagagcga tttcctgatc
     2161 tccattaacg cccagggccg tctgcatacc gaagaagagt ttggcaatat cattctgaaa
     2221 acggcgcagg atggctcgct ggtccgcctg cgcgacgtgg cgcgcatcga gatgggttcc
     2281 ggtagctatg cgctgcgctc ccagctcaac aataaggatg cggtcgggat cggtatcttc
     2341 cagtcacccg gcgctaacgc catcgatctg tcgaacgcgg tacgcgccaa aatggccgag
     2401 ctggccaccc gcttcccgga agatatgcaa tgggcggcgc cgtacgaccc gacggttttc
     2461 gtccgcgact ccatccgcgc ggtggtgcag acgctgctgg aggcggtagt gctggtggtg
     2521 ctggtagtga tcctgttcct gcagacctgg cgcgcgtcga ttatcccgtt gatcgctgtg
     2581 ccggtatcgg tggtgggtac cttcagcatt ctctatctgc tgggcttctc gctgaatacc
     2641 ctgagcctgt tcgggctggt actggctatc ggtatcgtgg tggacgacgc catcgtggtg
     2701 gtggagaacg tcgagcgtaa tatcgaagag gggcttgcgc cgcttgccgc ggcgcatcag
     2761 gcgatgcgtg aggtctccgg gccgattatc gccattgcgc tggtgctgtg tgcggtgttc
     2821 gtgccgatgg cgtttctctc cggggtcacc ggccagttct acaaacagtt cgcggtgacc
     2881 atcgccatct cgacggtgat ctcggccatc aactcgctga cgctctcccc ggcgctggcg
     2941 gccctgctgt taaagccgca cggcgcgaag aaagacctcc ctacccggct gatcgatcgc
     3001 ctgtttggct ggattttccg tccgtttaac cgctttttcc tgcgcagctc gaacggctat
     3061 cagggactgg taggcaaaac gcttggacgc cgtggcgcag tgtttgcggt gtacctgctg
     3121 ctgctctgcg ccgctggggt gatgtttaaa gtcgtccccg gcgggtttat tcccacccag
     3181 gataagctgt atctcattgg cggcgtgaag atgccggaag ggtcgtcgct ggcgcgcacc
     3241 gacgcggtga tccgcaaaat gagcgagatc gggatgaata ccgaaggggt cgactatgcg
     3301 gtcgctttcc cggggcttaa cgcgctgcag ttcaccaaca cgccgaatac cgggacggtc
     3361 ttttttggcc tgaaaccgtt cgaccagcgc aaacacacgg cggcggaaat taacgcggag
     3421 atcaacgcca aaatcgcgca aatccagcag ggctttggct tttccatcct gccgccgccg
     3481 attttaggtc tgggtcaggg ttccggctac tccctgtaca tccaggatcg cggagggctg
     3541 ggctatggcg cgctgcaaag cgcggtgaat gcgatgtccg gggcgattat gcagacgccg
     3601 gggatgcact tcccgatctc gacttaccag gctaacgtgc cgcagctgga cgtgcaggtc
     3661 gatcgcgata aggcgaaagc gcagggggta tcgctaaccg atctgttcgg tacgctgcag
     3721 acctatctcg gctcgtctta tgtcaatgac tttaaccagt tcgggcgtac ctggcgcgtg
     3781 atggcccagg ctgacggacc ataccgcgag agcgtggaag atatcgccaa tctgcgcacc
     3841 cgcaataatc agggcgaaat ggtaccgatc ggcagtatgg tgaatatcag taccacctac
     3901 gggccggatc cggtgatccg ctacaacggt tatccggcgg cggacctgat tggcgatgcc
     3961 gatccgcggg tcctctcttc ttcgcaggcg atgacgcatc tggaagagct gtcgaagcag
     4021 atcctgccga atgggatgaa tattgagtgg acggatctca gcttccagca ggccacccag
     4081 ggcaacacgg cgctgatcgt cttcccggtg gcggtgctgc tggcattcct cgtactggcc
     4141 gcgctgtatg aaagctggac cctgccgctg gcggtgatcc ttatcgtacc gatgacgatg
     4201 ctctccgcgc tgtttggcgt ctggctgacc gggggcgata acaacgtctt cgtgcaggtg
     4261 ggtctggtgg tcctgatggg cctggcctgt aaaaacgcca ttctgatcgt cgagtttgcc
     4321 cgcgagctgg agatccaggg gaaaggcatc atggaagcgg cgctggaggc atgccgcctg
     4381 cgtctgcgcc cgatcgtgat gacctccatc gcctttatcg ccgggaccat tccgctgatc
     4441 ctcggccacg gcgcgggggc ggaagtccgc ggcgtcaccg ggatcacggt gttctccggg
     4501 atgctgggcg tgacgctctt cggtctgttc ctgacgccgg tgttttacgt gacgctacgg
     4561 aaactggtga cccgcaggaa gccggtccag gaggatctgc ccgcctagcc tgcagcagat
     4621 aacaaaaaaa ccgccttcac aatttgaagg cggttttttt tcgtcaccag aaaatgatta
     4681 atgcgctttt ttaaagcggg cgatcatttc cggcaccggg tcgcagccgc tggtatcggc
     4741 gtttttgacc gcctccagcg cgctggccac ggtatggcga gcgaggacgt ttaacgaagc
     4801 ctgctctgct tcatcggcaa ccgatttgaa gtaccagcag gcgttggcgc tgaccacgca
     4861 gcgggccggg acgtcaggac gcgacgccca cagtttttta tcttcgataa ccgaaagata
     4921 gatatcacgc agggtgatct tgtccgccgg acggccaaga tgaattgagc cgttgcgacc
     4981 aagcgtggag acgataatgc cgtcacgagt tagcggaacc attagtttac ggataaagct
     5041 cgggttcgct tccaggccgt aggccagaat cgcactcgtc gaacgttcac ccatctgctc
     5101 cgccattgct acgctgagaa ccatctgcaa agctgtcggg aagcggtaat ctaacatggc
     5161 agtgtcctgg gttgcggtga atcttgttct ttttgg
//
