LOCUS       NZ_CP092914             4628 bp    DNA     linear   CON 24-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica strain SR33 plasmid unnamed2.
ACCESSION   NZ_CP092914
VERSION     NZ_CP092914.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26319900
            Assembly: GCF_022557215.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4628)
  AUTHORS   Huang,Y., Li,X., Zeng,S. and Fu,L.
  TITLE     First report of a Salmonella enterica serovar Rissen ST469 Clinical
            isolate carrying blaNDM-13
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4628)
  AUTHORS   Huang,Y., Li,X., Zeng,S. and Fu,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAR-2022) Department of Clinical Laboratory, Fifth
            Affiliated Hospital, Southern Medical University, No. 566, Congcheng
            Avenue, Conghua District, Guangzhou, Guangdong 510000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 110.0x
            Sequencing Technology             :: Oxford Nanopore PromethION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022557215.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 03:49:27
            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)                     :: 4,998
            CDSs (total)                      :: 4,881
            Genes (coding)                    :: 4,744
            CDSs (with protein)               :: 4,744
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 56 of 137
            Pseudo Genes (incomplete)         :: 102 of 137
            Pseudo Genes (internal stop)      :: 26 of 137
            Pseudo Genes (multiple problems)  :: 40 of 137
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092914.1.
            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/
FEATURES             Location/Qualifiers
     source          1..4628
                     /organism="Salmonella enterica subsp. enterica"
                     /mol_type="genomic DNA"
                     /strain="SR33"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /plasmid="unnamed2"
                     /geo_loc_name="China: Xiamen, Fujian"
                     /lat_lon="24.26 N 118.04 E"
                     /collection_date="2021-09-14"
                     /collected_by="a patient in a tertiary hospital"
     gene            complement(35..520)
                     /locus_tag="MLD58_RS24900"
     CDS             complement(35..520)
                     /locus_tag="MLD58_RS24900"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001086854.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSAAMSQRTKGMLRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<555..1259)
                     /locus_tag="MLD58_RS25070"
                     /pseudo=""
     CDS             complement(<555..1259)
                     /locus_tag="MLD58_RS25070"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1198..1492)
                     /locus_tag="MLD58_RS24910"
                     /pseudo=""
     CDS             complement(1198..1492)
                     /locus_tag="MLD58_RS24910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(2739..3218)
                     /locus_tag="MLD58_RS24915"
     CDS             complement(2739..3218)
                     /locus_tag="MLD58_RS24915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001050742.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023138585.1"
                     /translation="MNLLLPRDIVEAVLNDKKTKNARVAKCDGSEFFLELPSMNADFPA
                     GKIILKLGDSGFYNKRTKSLEGAYGLRHIWDKHRVEIGATSAEDIVIFLESILLAGAEV
                     LIDPKKGQNKAIVVESGTGMMILELKKPNGEDPYYSIITAYDRKSHPGTKLHTII"
                     /name="hypothetical protein"
     gene            3478..4245
                     /locus_tag="MLD58_RS24920"
     CDS             3478..4245
                     /locus_tag="MLD58_RS24920"
                     /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_196042596.1"
                     /translation="MQPRELLMLSMYILVQAPVLTGLSKNQTESLTTNNKRGRRTAFYR
                     IKKHLQHDFYRIDSIKNEIHSPIKGFYMKDMKAVVVFTGKDLNIMRTEGGSGYWHARTD
                     RLNDADYLIAVRNRRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHT
                     PKAWKMLTDGQRYPVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKT
                     EKLSLNEAIERAKKDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(4444..>4628)
                     /locus_tag="MLD58_RS24925"
     CDS             complement(4444..>4628)
                     /locus_tag="MLD58_RS24925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_241420310.1"
                     /translation="LEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENAALSERVTGLSR
                     QVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          complement(1594..1780)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.737"
                     /coverage="87.0"
                     /evalue="1.26e-45"
     Typing          1760..2239
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.938"
                     /coverage="93.0"
                     /evalue="3.51e-174"
     Typing          complement(4..1208)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.542"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgctcagcaa ctgtttttcc agctccgtca tgtgctattt ccccgccagt atcatccagc
       61 tcgaatcctc tccgaaccgt cccgcttccg ggttcaccct cacgcagcgg cgtctctgct
      121 ctccgcaggt cgagagctgc acaccgctgt tcctctcgga cagcatggcc tgcgtgcgct
      181 tctgctcccg gatggtcgtg taattgtcga gtatctgctg cccctgccac cacagaatac
      241 ttgcgcccga tgctgtcagc agtgtagaca ccaagacgat ggtcagccac gtctggctga
      301 ccatccgcag catacctttc gtgcgctggc tcatggcagc ggacagcttc ctgtcgtggt
      361 cgaggatggc ggcgctgatt ctcttctcgc tttcgctcag ttccgctctg acagacttct
      421 cgtgctcgct gaatgcggct ttcagcatct cgccggtact ctgctgctgc gctttcgatt
      481 tctgctctaa gtccttcgcc agcgttaaaa gactgttcat agatggctcc cttcagtcgg
      541 atgtttcgcc ccccgtccgg gtcggcaatg ctgatgctgc tttttgtggt gcgtaccacc
      601 tcaaaacctg cgctttccag cgcctcagtg acgtcctggc gggttttcag ctccccggac
      661 gaggctaagg ccagtaaacc ccgtgtaatt gcctgagcgg cttcctgctt cgtttccggc
      721 agcgcggacg gcgtgaccag cacccgccgg ttttcaggcg cgttcgggtc atgcagcccc
      781 agcctgccgt tcacgatggt ctgccaggca tcaatgcgcg gacggtcggc gcggtcgtaa
      841 tacggctgga gacgcttgcc ggtcagcagc tccgtgttcg ggatcaggaa gttcagctcc
      901 agccgcccct tatcctggtg ctcaacccac agcacgctgt actggtcttt atcgagtccg
      961 ggcatcagaa cccgttcaaa gctcgccatc agcttttcgc gctgcccggg cggtaaatcc
     1021 ttttcggcaa aggacaagac gccggatgtg tacttttttg cgtagggcga ggcgtcgata
     1081 agctccctga cttcttccgg cttcccctgc agaacggtgg cgccgtcgcg ctgtcggtct
     1141 ttccccagca gataatccac cggaccggcg ccaccgccgc gccctcgcgg gtgaaactta
     1201 acgatcatcg tctgcaccct tttccagcac ggcatgccgc agccgctcga gtccggcatc
     1261 tatggccatc agcgcggcga cgacctgcac gcggtcgtgc ccgctgccac caccggcgtt
     1321 aacctgccgg gcaatctggt tgaggttgtt ccccatgccg gcaagctgac gaagcagcgc
     1381 cggcgggttt ctcgtccagg cacgtctggc gcatccaggc tgcaagctgt ttaccgtcgc
     1441 agcgctccag cagacggcgg tgctcatctt cggtcaccca catcgtgagc attttgctgc
     1501 gtttgtctgc caatccggcc tcctgataac gccgagacgg gcgggaaatc ttttcccggt
     1561 cggcgcggtg ttggacaagc cgcaggcgcg tcagtggttt tagcgggttt cggggcgcag
     1621 ccctgaacca gtcacgtagc gctagcggag tatatactgg cttagtatgg taaatcgaag
     1681 tggaaattca gggaagtgct tcatgtggca ggtaaaaaat tcagctgtgg ggcgtaagtg
     1741 cgaaatgctg gagacgatga aatgacgcct cctcgctcac tcggtcgcta cgctcctgcc
     1801 gtgagactgc ggcgggcgtt acctgctcaa gaatgacgag ataaatagcg ctcaaatcaa
     1861 gaaggaaggg gaaaaggatc cggcgttgcc gtttttccat aggctccgcc cccctgacaa
     1921 gcatcacgaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac tataaagata
     1981 ccaggcgttt ccccctggtg gctccctcgt gcgctctcct gttcctgcct ttcggtttac
     2041 cggtgtcatt ccgctgttat ggccgcgttt atctcattcc acgcctgaca ctcagttccg
     2101 ggtaggcagt tcgctccaag ctggactgta tgcacgaacc ccccgttcag tccgaccgct
     2161 gcgccttatc cggtaactat cgtcttgagt ccaacccgaa aagacacgac ttaacgccac
     2221 tggcagcggc cactggtaag caggatgtgc gagagatgta tcgagagttc ttgaagtgga
     2281 ggccttagtg aggctacact ggaaggacag tatttggtga catgtctcgc acaagactgt
     2341 taccacggtt cagaaacttg ccggtttact gaaccttcga aaaaccacct tgccgggtgg
     2401 ttttttcgtt tacagggaga gagattacga cgagagtaaa acgatcacaa ggagatctga
     2461 ccgtttacca gtgatttggc ttcgttttgg tttccactga acaccaaaat agcacttttt
     2521 gcaaaaagat gagcagtgat agagttgtat tctgtatgtg tagaagggct tggtatgtaa
     2581 cctgaactct ggattggtta catatttgta ggctacttgt cggaaaccag atttcgacaa
     2641 tgcgttgtta aggtcaaaga cctgtcccga accgaaatgc taagggaatg ccacgaacaa
     2701 cactattacg aagaagtcgg ctatttagcc ggcttttttc atattatggt atgaagtttt
     2761 gtacctggat ggctcttcct atcataagca gtaatgatgc tgtagtacgg gtcttcgccg
     2821 tttggttttt tcaattctag tatcatcatc cccgttcctg actctacaac aatcgctttg
     2881 ttttggcctt ttttaggatc tatgagcact tctgccccag ctaataatat gctctccaaa
     2941 aagatgacaa tatcctcagc ggaagtagct cctatctcga cacgatgctt gtcccatata
     3001 tgcctaaggc cataggctcc ctcgagactt tttgtccttt tgttgtaaaa accggaatct
     3061 cctagcttga ggatgatttt ccctgcggga aagtctgcat tcatgcttgg cagttctaga
     3121 aaaaattcac ttccatcaca cttagccact cgtgcatttt ttgttttctt atcattaaga
     3181 acagcttcaa ctatatcgcg tggaagtaac aagttcacaa actacacctc tatagccttc
     3241 actattatgt ttaggcgtta aatccctttt tgaagggctg attctaacac tgacgtaatg
     3301 agcaatttcc agtaaatctt gatagaaaaa accagttgta tttaccataa cattccttgc
     3361 ccgcaccgct ccggacgggt tcagcgtgaa agcggcgtta gcccggtaaa atcggcagta
     3421 aactccccgc taaaccgcgc attctgcgcc tgataaattt cacgtggctg catagccatg
     3481 cagccacgtg aattgctcat gctttcaatg tatatcctcg tccaagcccc tgttttaacc
     3541 ggtttatcaa aaaaccaaac agaaagcctt accactaaca ataaaagagg taggaggact
     3601 gcattttatc gcataaaaaa acatttacaa cacgattttt atcgtataga ttccataaaa
     3661 aatgaaattc actcacctat taagggtttc tatatgaaag atatgaaagc tgttgtggtt
     3721 tttaccggga aggatttgaa cataatgaga actgaggggg ggtcaggcta ctggcatgcc
     3781 agaacagaca ggctcaacga tgccgattac ctcatagcag taagaaacag aagggaaacg
     3841 tgggcagtaa aagacctgga acacggcaca gcattcctga tcgccaaaat taccgggtgt
     3901 tttaaaagcc ctgattacga cgacaggaac gtcataacct ttgatgaata cgcagaaatt
     3961 cacacgccaa aagcatggaa aatgctaacc gatggtcagc gctatccggt tgcttacctg
     4021 agcgcacagg aagctttttt acgtattggg gtaacaccgg aacaactgga atggaagaaa
     4081 ttccatcctt catccccatc ggttcctaat acagtgattc ctggtctggc tgaagagaaa
     4141 acagaaaaac tctcccttaa cgaggcaatt gaaagagcca aaaaggatat tagcaacgca
     4201 acagggattg atagctcagc cataacaata agcatcaaga tctgatgaag cgtgaacaac
     4261 aagatagcag cctcatgttc tagaactgaa cctgtacgcc agaaacagca agcccatgct
     4321 tttccggcgc acagattcaa agtgacggac cgttgtacgt tcgctgtcgc tgagatcgtt
     4381 ccagctccag cgctttctga tgctgcgccg cccgttcctg ctcacgatgt gcctctatca
     4441 cgttcagcct tgtgacaacc ggcgcagctg ctcgctcaaa ctctgcacct gcctgctcaa
     4501 gcccgtgacg cgctcgctca gcgccgcgtt ctcccgttgc ataagaccag acatcgtccg
     4561 ccattccgcg aaggcgttct cccactcgtc cagccttttc gagtagtcct gctgtagctg
     4621 ctctaatg
//
