LOCUS       CP101345                2640 bp    DNA     linear   BCT 15-AUG-2022
DEFINITION  Salmonella enterica strain s15D023 plasmid ps15D023_6.
ACCESSION   CP101345
VERSION     CP101345.1
DBLINK      BioProject: PRJNA850394
            BioSample: SAMN29636373
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2640)
  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 2640)
  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..2640
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="s15D023"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="ps15D023_6"
                     /geo_loc_name="China:Henan"
                     /collection_date="2013"
                     /collected_by="State Key Laboratory of Infectious Disease
                     Prevention and Control"
     gene            117..932
                     /gene="sul2"
                     /locus_tag="NMV07_24375"
     ARG             118..929
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            993..1796
                     /gene="aph(3'')-Ib"
                     /locus_tag="NMV07_24380"
     ARG             994..1793
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            1796..2632
                     /locus_tag="NMV07_24385"
     CDS             1796..2632
                     /locus_tag="NMV07_24385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="UUX21727.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     ARG             1797..2629
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 attctgctcc tgcagctaat ggatcaccgc aaacaggtta ctcgcctggg gattcccttt
       61 cgacccgagc atccgtatga gactcatgct cgattattat tattatagaa gcccccatga
      121 ataaatcgct catcattttc ggcatcgtca acataacctc ggacagtttc tccgatggag
      181 gccggtatct ggcgccagac gcagccattg cgcaggcgcg taagctgatg gccgaggggg
      241 cagatgtgat cgacctcggt ccggcatcca gcaatcccga cgccgcgcct gtttcgtccg
      301 acacagaaat cgcgcgtatc gcgccggtgc tggacgcgct caaggcagat ggcattcccg
      361 tctcgctcga cagttatcaa cccgcgacgc aagcctatgc cttgtcgcgt ggtgtggcct
      421 atctcaatga tattcgcggt tttccagacg ctgcgttcta tccgcaattg gcgaaatcat
      481 ctgccaaact cgtcgttatg cattcggtgc aagacgggca ggcagatcgg cgcgaggcac
      541 ccgctggcga catcatggat cacattgcgg cgttctttga cgcgcgcatc gcggcgctga
      601 cgggtgccgg tatcaaacgc aaccgccttg tccttgatcc cggcatgggg ttttttctgg
      661 gggctgctcc cgaaacctcg ctctcggtgc tggcgcggtt cgatgaattg cggctgcgct
      721 tcgatttgcc ggtgcttctg tctgtttcgc gcaaatcctt tctgcgcgcg ctcacaggcc
      781 gtggtccggg ggatgtcggg gccgcgacac tcgctgcaga gcttgccgcc gccgcaggtg
      841 gagctgactt catccgcaca cacgagccgc gtcccttgcg cgacgggctg gcggtattgg
      901 cggcgctaaa agaaaccgca agaattcgtt aactgcacat tcgggatatt tctctatatt
      961 cgcgcttcat cagaaaactg aaggaacctc cattgaatcg aactaatatt ttttttggtg
     1021 aatcgcattc tgactggttg cctgtcagag gcggagaatc tggtgatttt gtttttcgac
     1081 gtggtgacgg gcatgccttc gcgaaaatcg cacctgcttc ccgccgcggt gagctcgctg
     1141 gagagcgtga ccgcctcatt tggctcaaag gtcgaggtgt ggcttgcccc gaggtcatca
     1201 actggcagga ggaacaggag ggtgcatgct tggtgataac ggcaattccg ggagtaccgg
     1261 cggctgatct gtctggagcg gatttgctca aagcgtggcc gtcaatgggg cagcaacttg
     1321 gcgctgttca cagcctatcg gttgatcaat gtccgtttga gcgcaggctg tcgcgaatgt
     1381 tcggacgcgc cgttgatgtg gtgtcccgca atgccgtcaa tcccgacttc ttaccggacg
     1441 aggacaagag tacgccgcag ctcgatcttt tggctcgtgt cgaacgagag ctaccggtgc
     1501 ggctcgacca agagcgcacc gatatggttg tttgccatgg tgatccctgc atgccgaact
     1561 tcatggtgga ccctaaaact cttcaatgca cgggtctgat cgaccttggg cggctcggaa
     1621 cagcagatcg ctatgccgat ttggcactca tgattgctaa cgccgaagag aactgggcag
     1681 cgccagatga agcagagcgc gccttcgctg tcctattcaa tgtattgggg atcgaagccc
     1741 ccgaccgcga acgccttgcc ttctatctgc gattggaccc tctgacttgg ggttgatgtt
     1801 catgccgcct gtttttcctg ctcattggca cgtttcgcaa cctgttctca ttgcggacac
     1861 cttttccagc ctcgtttgga aagtttcatt gccagacggg actcctgcaa tcgtcaaggg
     1921 attgaaacct atagaagaca ttgctgatga actgcgcggg gccgactatc tggtatggcg
     1981 caatgggagg ggagcagtcc ggttgctcgg tcgtgagaac aatctgatgt tgctcgaata
     2041 tgccggggag cgaatgctct ctcacatcgt tgccgagcac ggcgactacc aggcgaccga
     2101 aattgcagcg gaactaatgg cgaagctgta tgccgcatct gaggaacccc tgccttctgc
     2161 ccttctcccg atccgggatc gctttgcagc tttgtttcag cgggcgcgcg atgatcaaaa
     2221 cgcaggttgt caaactgact acgtccacgc ggcgattata gccgatcaaa tgatgagcaa
     2281 tgcctcggaa ctgcgtgggc tacatggcga tctgcatcat gaaaacatca tgttctccag
     2341 tcgcggctgg ctggtgatag atcccgtcgg tctggtcggt gaagtgggct ttggcgccgc
     2401 caatatgttc tacgatccgg ctgacagaga cgacctttgt ctcgatccta gacgcattgc
     2461 acagatggcg gacgcattct ctcgtgcgct ggacgtcgat ccgcgtcgcc tgctcgacca
     2521 ggcgtacgct tatgggtgcc tttccgcagc ttggaacgcg gatggagaag aggagcaacg
     2581 cgatctagct atcgcggccg cgatcaagca ggtgcgacag acgtcatact agatatcaag
//
