LOCUS       CP101346                1746 bp    DNA     linear   BCT 15-AUG-2022
DEFINITION  Salmonella enterica strain s15D023 plasmid ps15D023_7.
ACCESSION   CP101346
VERSION     CP101346.1
DBLINK      BioProject: PRJNA850394
            BioSample: SAMN29636373
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 1746)
  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 1746)
  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..1746
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="s15D023"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="ps15D023_7"
                     /geo_loc_name="China:Henan"
                     /collection_date="2013"
                     /collected_by="State Key Laboratory of Infectious Disease
                     Prevention and Control"
     gene            <1..717
                     /locus_tag="NMV07_24390"
     CDS             <1..717
                     /locus_tag="NMV07_24390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helicase RepA family protein"
                     /protein_id="UUX21728.1"
                     /translation="GKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHR
                     LHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAEGRRLMVLDTLRRF
                     HIEEENASGPMAQVIGRMEAIAADTGCSIVFLHHASKGAAMMGAGDQQQASRGSSVLVD
                     NIRWQSYLSSMTSAEAEEWGVDDDQRRFFVRFGVSKANYGAPFADRWFRRHDGGVLKPA
                     VLERQRKSKGVPRGEA"
                     /name="helicase RepA family protein"
     gene            704..1555
                     /locus_tag="NMV07_24395"
     CDS             704..1555
                     /locus_tag="NMV07_24395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000240539.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="UUX21729.1"
                     /translation="MVKPKNKHSLSHVRHDPAHCLAPGLFRALKRGERKRSKLDVTYDY
                     GDGKRIEFSGPEPLGADDLRILQGLVAMAGPNGLVLGPEPKTEGGRQLRLFLEPKWEAV
                     TADAMVVKGSYRALAKEIGAEVDSGGALKHIQDCIERLWKVSIIAQNGRKRQGFRLLSE
                     YASDEADGRLYVALNPLIAQAVMGGGQHVRISMDEVRALDSETARLLHQRLCGWIDPGK
                     TGKASIDTLCGYVWPSEASGSTMRKRRQRVREALPELVALGWTVTEFAAGKYDITRPKA
                     AG"
                     /name="replication protein"
     Typing          complement(2..723)
                     /name="IncQ1"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="82.0"
                     /evalue="0.0"
ORIGIN
        1 ggtaaatcca tgctggccct gcaactggcc gcacagattg caggcgggcc ggatctgctg
       61 gaggtgggcg aactgcccac cggcccggtg atctacctgc ccgccgaaga cccgcccacc
      121 gccattcatc accgcctgca cgcccttggg gcgcacctca gcgccgagga acggcaagcc
      181 gtggctgacg gcctgctgat ccagccgctg atcggcagcc tgcccaacat catggccccg
      241 gagtggttcg acggcctcaa gcgcgccgcc gagggccgcc gcctgatggt gctggacacg
      301 ctgcgccggt tccacatcga ggaagaaaac gccagcggcc ccatggccca ggtcatcggt
      361 cgcatggagg ccatcgccgc cgataccggg tgctctatcg tgttcctgca ccatgccagc
      421 aagggcgcgg ccatgatggg cgcaggcgac cagcagcagg ccagccgggg cagctcggta
      481 ctggtcgata acatccgctg gcagtcctac ctgtcgagca tgaccagcgc cgaggccgag
      541 gaatggggtg tggacgacga ccagcgccgg ttcttcgtcc gcttcggtgt gagcaaggcc
      601 aactatggcg caccgttcgc tgatcggtgg ttcaggcggc atgacggcgg ggtgctcaag
      661 cccgccgtgc tggagaggca gcgcaagagc aagggggtgc cccgtggtga agcctaagaa
      721 caagcacagc ctcagccacg tccggcacga cccggcgcac tgtctggccc ccggcctgtt
      781 ccgtgccctc aagcggggcg agcgcaagcg cagcaagctg gacgtgacgt atgactacgg
      841 cgacggcaag cggatcgagt tcagcggccc ggagccgctg ggcgctgatg atctgcgcat
      901 cctgcaaggg ctggtggcca tggctgggcc taatggccta gtgcttggcc cggaacccaa
      961 gaccgaaggc ggacggcagc tccggctgtt cctggaaccc aagtgggagg ccgtcaccgc
     1021 tgatgccatg gtggtcaaag gtagctatcg ggcgctggca aaggaaatcg gggcagaggt
     1081 cgatagtggt ggggcgctca agcacataca ggactgcatc gagcgccttt ggaaggtatc
     1141 catcatcgcc cagaatggcc gcaagcggca ggggtttcgg ctgctgtcgg agtacgccag
     1201 cgacgaggcg gacgggcgcc tgtacgtggc cctgaacccc ttgatcgcgc aggccgtcat
     1261 gggtggcggc cagcatgtgc gcatcagcat ggacgaggtg cgggcgctgg acagcgaaac
     1321 cgcccgcctg ctgcaccagc ggctgtgtgg ctggatcgac cccggcaaaa ccggcaaggc
     1381 ttccatagat accttgtgcg gctatgtctg gccgtcagag gccagtggtt cgaccatgcg
     1441 caagcgccgc cagcgggtgc gcgaggcgtt gccggagctg gtcgcgctgg gctggacggt
     1501 aaccgagttc gcggcgggca agtacgacat cacccggccc aaggcggcag gctgaccccc
     1561 cccactctat tgtaaacaag acatttttat cttttatatt caatggctta ttttcctgct
     1621 aattggtaat accatgaaaa ataccatgct cagaaaaggc ttaacaatat tttgaaaaat
     1681 tgcctactga gcgctgccgc acagctccat aggccgcttt cctggctttg cttccagatg
     1741 tatgct
//
