LOCUS       NZ_CP101385             4677 bp    DNA     circular CON 31-JUL-2023
DEFINITION  Salmonella enterica strain SC2017030 plasmid pSC2017030-4k, complete
            sequence.
ACCESSION   NZ_CP101385
VERSION     NZ_CP101385.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29630349
            Assembly: GCF_024364965.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4677)
  AUTHORS   Peng,K., Li,R. and Yang,X.
  TITLE     The genomic epidemiology of mcr-positive Salmonella enterica in
            clinical patients from 2014 to 2017 in Sichuan, China and global
            epidemiological features
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4677)
  AUTHORS   Peng,K., Li,R. and Yang,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUL-2022) College of Veterinary Medicine, Yangzhou
            University, No. 48, Wenhui East Road, Hanjiang District, Yangzhou,
            Sichuan 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MinION; BGISEQ-50
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/31/2023 03:23:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,147
            CDSs (total)                      :: 5,024
            Genes (coding)                    :: 4,896
            CDSs (with protein)               :: 4,896
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 37 of 128
            Pseudo Genes (incomplete)         :: 99 of 128
            Pseudo Genes (internal stop)      :: 20 of 128
            Pseudo Genes (multiple problems)  :: 27 of 128
            Pseudo Genes (short protein)      :: 1 of 128
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP101385.1.
            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..4677
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="SC2017030"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="pSC2017030-4k"
                     /geo_loc_name="China: Chengdu"
                     /lat_lon="30.67 N 104.07 E"
                     /collection_date="2017-03-29"
                     /collected_by="Center for Disease Control and Prevention of
                     Sichuan Province"
     gene            complement(join(4655..4677,1..415))
                     /locus_tag="NMU36_RS25700"
                     /old_locus_tag="NMU36_25705"
     CDS             complement(join(4655..4677,1..415))
                     /locus_tag="NMU36_RS25700"
                     /old_locus_tag="NMU36_25705"
                     /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_052918195.1"
                     /translation="MPKRGKSIRSSSRNEETKPSKSTAKTTDRFISISFKHFHNVDDVG
                     QSINTWKDDGSLPDLIEKLVYLTANGITKVISDGVFTNYTRFPESAVNDFRCPDEISSD
                     EDWGVIKNIGGQKRRVAGFLRDNVFYIVFFDRDHRFWKSQK"
                     /name="hypothetical protein"
     gene            complement(420..1718)
                     /locus_tag="NMU36_RS25705"
                     /old_locus_tag="NMU36_25710"
     CDS             complement(420..1718)
                     /locus_tag="NMU36_RS25705"
                     /old_locus_tag="NMU36_25710"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_064987013.1"
                     /translation="MMVNFSLSNAFSFMEAQNMSMLAVSSSKDDINLANVVSVRDERIL
                     KSALIFGANASGKSNLMKTISLMKDIVLHSVQAIESGITKNVVPFLLDEAGPTKPSEME
                     MTFIADGIKYRYGLSLFQGKIKEEWLYYTPKTRETILFERDGQLIEINKAAFSESNLFI
                     KDGVIQKTREDVPFVSVVAGFNGEHSKRVVNWFSNVVFISGSNEGMFTGITMKLINESE
                     DFKAWLKKILPAFQINDIYLDEVAPEFPFGNIKTDDDNLKNLFSSIQNFAKNQKVFSLR
                     VVKKTANGEISVPIDFESEGTKKIVYLLGPIYNAMINNNLLLVDEFDSKFHTLLSKFLF
                     RIFHAQSEGFSQVIAAVQDVNLMNTDCFRRDQIWFVDKDVKSGSSHLYSLVEYKEKQRS
                     LKPSYGNDYLSGAFDAIPLFDNLNEFEKLMPEG"
                     /name="ATP-binding protein"
     gene            3476..3670
                     /locus_tag="NMU36_RS25710"
                     /old_locus_tag="NMU36_25715"
     CDS             3476..3670
                     /locus_tag="NMU36_RS25710"
                     /old_locus_tag="NMU36_25715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            4307..4420
                     /locus_tag="NMU36_RS25715"
                     /old_locus_tag="NMU36_25720"
     CDS             4307..4420
                     /locus_tag="NMU36_RS25715"
                     /old_locus_tag="NMU36_25720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072101919.1"
                     /translation="MHEPPVQSDRCAFSGNYQLESNPERHDKTPMAAATGN"
                     /name="replication initiation protein"
     Typing          complement(2962..3230)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.037"
                     /coverage="93.0"
                     /evalue="7.52e-94"
     Typing          complement(3342..3440)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(3744..3828)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
     Typing          3839..4376
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.993"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gatgatctct atcaaaaaac acgatataga acacattatc tctcagaaat ccggcgactc
       61 ttcttttctg cccgccaatg ttttttataa ccccccaatc ctcatcagag gatatctcat
      121 ctgggcatct aaaatcgttt acagctgact caggaaatcg agtgtagtta gtaaacacac
      181 cgtcagaaat cactttagtg attccattcg ccgttagata aaccaatttt tcaatgagat
      241 caggtaggct accatcatct ttccatgtat ttatggactg cccaacatca tcgacgttat
      301 gaaaatgctt aaaactaata gatataaatc tatcagtcgt tttcgctgtg ctctttgaag
      361 gttttgtttc ctcattcctc gaagagcttc gaatgctttt gcctctcttt ggcatataat
      421 catccctcag gcattagctt ttcaaattca ttaagattat caaataacgg gattgcatca
      481 aaagcacctg ataaataatc attcccatat gatggcttca atgatctttg tttctctttg
      541 tactcaacca aagaataaag atggctactc cctgacttta catccttgtc aacaaaccaa
      601 atttggtctc gtctaaagca atcagtattc attaaattaa catcctgaac tgcagcgatt
      661 acttggctaa acccttcact ttgcgcatga aatatcctaa ataaaaactt agataaaagg
      721 gtatggaact ttgaatcgaa ctcatcaacc aataataagt tattgttaat catggcgtta
      781 taaataggcc caaggagata gactatcttt ttggtcccct ctgattcaaa atcaatggga
      841 accgaaatct ccccattagc agtttttttc acgactctaa gagaaaatac tttttgattt
      901 tttgcaaaat tctgaatcga gctgaataaa ttttttaaat tatcatcatc tgtttttatg
      961 ttgccaaacg ggaattcagg cgcaacttca tcaagataaa tatcattaat ctgaaaggct
     1021 ggtaatattt tttttagcca agctttaaaa tcttcagatt catttataag cttcatggta
     1081 attccagtaa acattccttc gttagaacca gaaataaata ccacattact aaaccaattc
     1141 acaacacgct ttgagtgctc cccattaaat ccagcaacaa cagaaacaaa gggaacatct
     1201 tctcttgtct tctgaatgac cccatccttt ataaaaagat ttgactcgct aaatgctgct
     1261 ttatttattt caataagttg accatctcgc tcaaagagaa tagtctccct tgtttttggc
     1321 gtgtagtaca accactcttc ttttatcttc ccttgaaata aagataatcc gtatctgtat
     1381 ttaatcccat ccgcaataaa agtcatttcc atttcagatg gtttagtagg ccccgcctca
     1441 tcaagtaaaa aagggactac attcttcgta atgccacttt cgatagcttg cacagaatgc
     1501 aggacaatat ctttcattaa agatattgtc ttcatgagat tagattttcc gctagcgtta
     1561 gctccgaaaa tcaaagcaga cttcagtatc cgctcatccc ttactgacac tacattagcc
     1621 aagtttatat cgtctttcga tgacgacacc gccaacatgc tcatattttg agcttccatg
     1681 aaggaaaatg cgtttgaaag actaaagtta accatcataa gaacacccct aacaacaccc
     1741 ttaaactcaa aaattgcaca atattgacaa aattctagat taagaatagc ataaccccgt
     1801 actaaaacaa caaaagggtc caatagacag cacattatga gtagataagt taacgaccag
     1861 cttaaaaaga ggtgtatatg aagttttttc tataccaaat ggtcccattt gcctcagtga
     1921 ttagctcagc agtgctggct tttcactcgg tatctgggtg gggatggttc ctttttgtcg
     1981 cgtttatgct cagtggcgct gacactgtaa aaaaatacgt agggagtgaa acatgaatga
     2041 ggagaagcaa aaattgttga agtaagtggg ttagcctgta ccaccagaac taacccgtaa
     2101 caaaccatac gcaaatgcgg cgcttgagta ccacctcaag tgctttgata aagccagcca
     2161 caagatctgt tggttgctac agtacaattt tgatagcaaa aatcaacatt catgtggcga
     2221 aaataggaaa tgcaacatgc agacggacga gcctcaggca tacatttttc gcccttacat
     2281 aacggtaaag ggcaaacgga taacccgtcc taacggggga atgtttaaga tcccaattaa
     2341 tcgggaaaag aaaaaacaat aaccaccgaa gcatgcaagc ttcggtccct aacttagttt
     2401 atgtaaggaa agcaacatgg ccttttatgt agatagcaca gcgaaatttt taacaaaaac
     2461 aaccgagcct gaagggagtg tatggcggta ttactataag ccgggaaata cttgtccggc
     2521 ttccggcatt taccgctgca cgaactgtgg tgatgaagtg acgtgcaata aagatgatcc
     2581 tttgccaccg caaaatcata ggcagcataa tgtcccaggt gacatccgat gggaattggt
     2641 agtgatgaca aagacgaagt aacttactag gccgtctacg gacggctttt ttatacctgc
     2701 caatcagctg gatttaccat aacatccgat tgcgcgcacc gctaaaacgc gctgaacgcg
     2761 attctgccgc aaacaccgca aaaagagatg ttttccccgg ggtaaaccgg aaaaatgcgt
     2821 caggctcgct ttcagctcac tgcatagcta tgcatgaaag tgaatgacga tcggtttggg
     2881 cgcatacagt gcccatgaga cacattttcg gacattttca gttcgtgaat ccctgactca
     2941 ttgctacata tctgaacaga cacccctggc agcgccccca ggggcgtcct gtaaaaaaac
     3001 acaccgcgca gctagcagca cccctaatat aagatgatgt tttttatgaa aatagtcagt
     3061 accaccccta aaaagcggtg tcggcgcggt gttgtagctg cgccaacacc gcttttttaa
     3121 atatcacaaa gagagcaaga agaactaatt tgtcataact ctctatttat aaagaaaaat
     3181 cagcaaaaaa ttgtttttgc gtggggtgtg ggcatttcgg gcatgagaac agactcgcgt
     3241 ttttccggag tatcagcgga attattgatt aagaaacact cgacgcagag cgaaatttta
     3301 tgcaacagcg gctgcactgc acagggatta tttatcagtt gatatgctgt gccatgatac
     3361 gtcctaaaga aacaggacag gatgtgcaat tgtaataccg tcgcccgcaa cgtcttacaa
     3421 ttaccacctg ctcagggtcc ccccgacacc cggaactgac ggagaacaac ggaaggtgaa
     3481 caaacaacaa caaactgcgc tgaatatggc gcgatttatc aaaagccaga gcctgacact
     3541 gcttgaaaaa ctggatgctc tggatgccga cgaacaggcg gccatgtgcg aacgactgca
     3601 cgaactcgca gaagaactcc agaacagcat ccagattcgc tttgaggccg aaagtgaaac
     3661 aggaacataa cgaagctgac ggaggcggtc acggctttcc cgtgggcgtt ttcgtcagca
     3721 gacaagcccg tcagggcgcg tcagggggtt tcggggcgaa gccctgaacc agtcacgtag
     3781 cgatagcgga gtgtatactg gcttaaccat gcggcatcag tgcggattgt atgaaaagta
     3841 cgccatgccg ggtgtgaaat gccgcacaga tgcgtaagga gaaaatgcat gtccaggcgc
     3901 ttttccgctt cctcgctcac tgactcgcta cgctcggtcg ttcgactgcg gcgagcggta
     3961 ctgactcaca caaaaacggt aacacagtta tccacagaat caggggataa ggccggaaag
     4021 aacatgtgag caaaagacca ggaacaggag gaaggccgcg ccgctggcgt ttttccatag
     4081 gctccgcccc cctgacgagc atcacaaaaa ccgacgctca agtcagaggt ggcgaaaccc
     4141 gacaggactt aaagatacca ggcgtttccc cctggtgact ccctcgtgcg ctctcctgtt
     4201 cctgccattc ggtttaccgg tgtcactccg ctgttatggc cgcgtttgtc tcattccacg
     4261 cctgacactc agttccgggt aggcagttcg ctccaagctg gactgtatgc acgaaccccc
     4321 cgttcagtcc gaccgctgcg ccttttccgg taactatcaa cttgagtcca acccggaaag
     4381 acacgacaaa acgccaatgg cagcagccac tggtaactga tttagaggag ttagtcttga
     4441 agttatgcgc ctgttaaggc taaactgaaa gaacagattt ggttactgcg ctcctcataa
     4501 gccagttacc ttggttcaca gagcgccaac tcttagaacc gtcgaaaaac cgcccgccaa
     4561 ggcggttttt tcgtttacag agcaagagat tacgacgaga gcatcacaat ctcaagaaga
     4621 tcttttctta acatacaata caactgtatc tcatctattt ttgactcttc cagaagc
//
