LOCUS       NZ_CP122303             4852 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Salmonella enterica strain 27A plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP122303
VERSION     NZ_CP122303.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34003877
            Assembly: GCF_029814235.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4852)
  AUTHORS   Xu,B.J.
  TITLE     Isolation, identification, antimicrobial resistance, genotyping and
            whole genome sequencing analysis of a Salmonella isolate from a food
            poisoning incident
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4852)
  AUTHORS   Xu,B.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-APR-2023) Department of Medical Laboratory Science,
            Fenyang College of Shanxi Medical University, 16 College Road,
            Fenyang, Shanxi 032200, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPnuke v. 1.5.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 267.0x
            Sequencing Technology             :: DNBSEQ
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029814235.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 04:33:07
            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)                     :: 4,641
            CDSs (total)                      :: 4,520
            Genes (coding)                    :: 4,340
            CDSs (with protein)               :: 4,340
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 180
            CDSs (without protein)            :: 180
            Pseudo Genes (ambiguous residues) :: 0 of 180
            Pseudo Genes (frameshifted)       :: 78 of 180
            Pseudo Genes (incomplete)         :: 116 of 180
            Pseudo Genes (internal stop)      :: 39 of 180
            Pseudo Genes (multiple problems)  :: 46 of 180
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122303.1.
            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..4852
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="27A"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed2"
                     /geo_loc_name="China: Fenyang, Shanxi"
                     /collection_date="2021-05-30"
     gene            complement(107..943)
                     /locus_tag="P8R57_RS23145"
     CDS             complement(107..943)
                     /locus_tag="P8R57_RS23145"
                     /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="WP_000480972.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IKDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(943..1746)
                     /gene="aph(3'')-Ib"
                     /locus_tag="P8R57_RS23150"
     ARG             complement(947..1746)
                     /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            complement(1758..>2006)
                     /locus_tag="P8R57_RS23155"
                     /pseudo=""
     CDS             complement(1758..>2006)
                     /locus_tag="P8R57_RS23155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000904896.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            <2006..2143
                     /gene="trfA"
                     /locus_tag="P8R57_RS23160"
                     /pseudo=""
     CDS             <2006..2143
                     /gene="trfA"
                     /locus_tag="P8R57_RS23160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011114072.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication initiator TrfA"
                     /name="trfA"
     gene            <2163..>2234
                     /locus_tag="P8R57_RS23165"
                     /pseudo=""
     CDS             <2163..>2234
                     /locus_tag="P8R57_RS23165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221012.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="TetR family transcriptional regulator"
                     /name="TetR family transcriptional regulator"
     gene            2308..2775
                     /locus_tag="P8R57_RS23170"
     CDS             2308..2775
                     /locus_tag="P8R57_RS23170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008166363.1"
                     /GO_function="GO:0008080 - N-acetyltransferase activity
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNAT family N-acetyltransferase"
                     /protein_id="WP_223155915.1"
                     /translation="MIKAQIRRLGAADVQDFREIRLSALKKAPEMFGSVYEHEEKKPME
                     AFAERLRDAVAFGAYIDGEIIGLSVFKQEDGPKDAHKAHLSGVFVEPEQRGRGVAGMLL
                     RAVIDYGREHVEQIMLTVAEGNEAAINLYQRSARCPAPLQSPRRSAGRQSK"
                     /name="GNAT family N-acetyltransferase"
     gene            complement(2706..3905)
                     /gene="tet(A)"
                     /locus_tag="P8R57_RS23175"
     ARG             complement(2710..3905)
                     /name="tet(A)"
                     /gene="tet(A)"
                     /gene_name="tetracycline efflux MFS transporter Tet(A)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            4011..4637
                     /gene="tetR(A)"
                     /locus_tag="P8R57_RS23180"
     CDS             4011..4637
                     /gene="tetR(A)"
                     /locus_tag="P8R57_RS23180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000164043.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="tetracycline resistance transcriptional repressor
                     TetR(A)"
                     /protein_id="WP_031606906.1"
                     /translation="MTKLQPNTVIRAALDLLNEVGVDGLTTRKLAERLGVQQPALYWHF
                     RNKRALLDALAEAMLAENHTHSVPRADDDWRSFLIGNARSFRQALLAYRDGARIHAGTR
                     PGAPQMETADAQLRFLCEAGFSAGDAVNALMTISYFTVGAVLEEQAGGTVEQAPLSPLL
                     RAAIDAFDEAGPDAAFEQGLAVIVDGLAKRRLVVRNVEGPRKGDD"
                     /name="tetR(A)"
     ARG             complement(111..943)
                     /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 ggggtcgttt gcgggaaggg gcggaatcct acgctaaggc tttggccagc gatattctcc
       61 ggtgagattg atgtgttccc aggggatagg agaagtcgct tgatatctag tatgacgtct
      121 gtcgcacctg cttgatcgcg gccgcgatag ctagatcgcg ttgctcctct tctccatccg
      181 cgttccaagc tgcggaaagg cacccataag cgtacgcctg gtcgagcagg cgacgcggat
      241 cgacgtccag cgcacgagag aatgcgtccg ccatctgtgc aatgcgtcta ggatcgagac
      301 aaaggtcgtc tctgtcagcc ggatcgtaga acatattggc ggcgccaaag cccacttcac
      361 cgaccagacc gacgggatct atcaccagcc agccgcgact ggagaacatg atgttttcat
      421 gatgcagatc gccatgtagc ccacgcagtt ccgaggcatt gctcatcatt tgatcggcta
      481 taatcgccgc gtggacgtag tcagtttgac aacctgcgtt ttgatcatcg cgcgcccgct
      541 gaaacaaagc tgcaaagcga tcccggatcg ggagaagggc agaaggcagg ggttcctcag
      601 atgcggcata cagcttcgcc attagttccg ctgcaatttc ggtcgcctgg tagtcgccgt
      661 gctcggcaac gatgtgagag agcattcgct ccccggcata ttcgagcaac atcagattgt
      721 tctcacgacc gagcaaccgg actgctcccc tcccattgcg ccataccaga tagtcggccc
      781 cgcgcagttc atcagcaatg tcttttatag gtttcaatcc cttgacgatt gcaggagtcc
      841 cgtctggcaa tgaaactttc caaacgaggc tggaaaaggt gtccgcaatg agaacaggtt
      901 gcgaaacgtg ccaatgagca ggaaaaacag gcggcatgaa catcaacccc aagtcagagg
      961 gtccaatcgc agatagaagg caaggcgttc gcggtcgggg gcttcgatcc ccaatacatt
     1021 gaataggaca gcgaaggcgc gctctgcttc atctggcgct gcccagttct cttcggcgtt
     1081 agcaatcatg agtgccaaat cggcatagcg atctgctgtt ccgagccgcc caaggtcgat
     1141 cagacccgtg cattgaagag ttttagggtc caccatgaag ttcggcatgc agggatcacc
     1201 atggcaaaca accatatcgg tgcgctcttg gtcgagccgc accggtagct ctcgttcgac
     1261 acgagccaaa agatcgagct gcggcgtact cttgtcctcg tccggtaaga agtcgggatt
     1321 gacggcattg cgggacacca catcaacggc gcgtccgaac attcgcgaca gcctgcgctc
     1381 aaacggacat tgatcaaccg ataggctgtg aacagcgcca agttgctgcc ccattgacgg
     1441 ccacgctttg agcaaatccg ctccagacag atcagccgcc ggtactcccg gaattgccgt
     1501 tatcaccaag catgcaccct cctgttcctc ctgccagttg atgacctcgg ggcaagccac
     1561 acctcgacct ttgagccaaa tgaggcggtc acgctctcca gcgagctcac cgcggcggga
     1621 agcaggtgcg attttcgcga aggcatgccc gtcaccacgt cgaaaaacaa aatcaccaga
     1681 ttctccgcct ctgacaggca accagtcaga atgcgattca ccaaaaaaaa tattagttcg
     1741 attcaatgga ggttccttca gttttctgat gaagcgcgga ggtggctcaa cttgcgaaaa
     1801 gaaacgagtt gcgacgtaag tccgagaaca tgctttccat ggtctctgag ctcgcctttg
     1861 ggaccgacat atcggtagag agtgacgcgc tcgatgccga gttccttgca gagatcggaa
     1921 actgaagtat cgcgctgggc catggcggct tgcgcgagac gcacctgagc tttggtgagc
     1981 gcgaattttc gtccgccctt gcgaccgcct catgtgcgga tcggattcca cccgcgtgaa
     2041 gaagtggcgc gagcaggtcg gcgaagcctg cgaagagttg cgaggcagcg gcctggtgga
     2101 acacgcctgg gtcaatgatg acctggtgca ttgcaaacgc tagggccttg tggggtcagt
     2161 tccggctggg ggttcagcag ccagcgcttt actggcattt caggaacaag cgggcactgc
     2221 tcgacgcact tgcttcgctc agtatcgctc gggacgtacg gcgcgctcta cgaactgccg
     2281 ataaacagag gattaaaatt gacaattgtg attaaggctc agattcgacg gcttggagcg
     2341 gccgacgtgc aggatttccg cgagatccga ttgtcggccc tgaagaaagc tccagagatg
     2401 ttcgggtccg tttacgagca cgaggagaaa aagcccatgg aggcgttcgc tgaacggttg
     2461 cgagatgccg tggcattcgg cgcctacatc gacggcgaga tcattgggct gtcggtcttc
     2521 aaacaggagg acggccccaa ggacgctcac aaggcgcatc tgtccggcgt tttcgtggag
     2581 cccgaacagc gaggccgagg ggtcgccggt atgctgctgc gggcggtgat agactatggt
     2641 cgcgagcatg tggagcagat catgctgacg gttgcggaag ggaacgaagc cgctataaac
     2701 ctctatcagc gatcggctcg ttgccctgcg ccgctccaaa gcccgcgacg cagcgccggc
     2761 aggcagagca agtagagggc agcgcctgca atccatgccc acccgttcca cgttgttata
     2821 gaagccgcat agatcgccgt gaagaggagg ggtccgacga tcgaggtcag gctggtgagc
     2881 gccgccagtg agccttgcag ctgcccctga cgttcctcat ccacctgcct ggacaacatt
     2941 gcttgcagcg ccggcattcc gatgccaccc gaagcaagca ggaccatgat cgggaacgcc
     3001 atccatcccc gtgtcgcgaa ggcaagcagg atgtagcctg tgccgtcggc aatcattccg
     3061 agcatgagtg cccgcctttc gccgagccgg gcggctacag ggccggtgat cattgcctgg
     3121 gcgagtgaat gcagaatgcc aaatgcggca agcgaaatgc cgatcgtggt cgcgtcccag
     3181 tgaaagcgat cctcgccgaa aatgacccaa agcgcggccg gcacctgtcc gacaagttgc
     3241 atgatgaaga agaccgccat cagggcggcg acgacggtca tgccccgggc ccaccggaac
     3301 gaagcgagcg ggttgagagc ctcccggcgt aacggccggc gttcgccttt gtgcgactcc
     3361 ggcaaaagga aacagcccgt caggaaattg aggccgttca aggctgccgc ggcgaagaac
     3421 ggagcgtggg gggagaaacc gcccatcagc ccaccgagca caggtcccgc gaccatcccg
     3481 aacccgaaac aggcgctcat gaagccgaag tgccgcgcgc gctcatcgcc atcagtgata
     3541 tcggcaatat aagcgccggc taccgcccca gtcgccccgg tgatgccggc cacgatccgc
     3601 ccgatataga gaacccaaag gaaaggcgcc gtcgccatga tggcgtagtc gacagcagcg
     3661 ccggccagcg agacgagcaa gaccggccgc cgcccgaaac gatccgacag cgcgcccagc
     3721 acaggtgcgc aggcaaattg catcaacgca tacagcgcca gcagaatgcc atagtgggcg
     3781 gtgacgtcgt tcgagtgaac cagatcgcgc aggaggcccg gcagcaccgg cataatcagg
     3841 ccgatgccga cagcgtcgag cgcgacagtg ctcagaatta cgatcagggg tctgttgggt
     3901 ttcacgtctg gcctccggac cagcctccgc tggtccgatt gaacgcgcgg attctttatc
     3961 actgataagt tggtggacat attatgttta tcagtgataa agtgtcaagc atgacaaagt
     4021 tgcagccgaa tacagtgatc cgtgccgccc tggacctgtt gaacgaggtc ggcgtagacg
     4081 gtctgacgac acgcaaactg gcggaacggt tgggggttca gcagccggcg ctttactggc
     4141 acttcaggaa caagcgggcg ctgctcgacg cactggccga agccatgctg gcggagaatc
     4201 atacgcattc ggtgccgaga gccgacgacg actggcgctc atttctgatc gggaatgccc
     4261 gcagcttcag gcaggcgctg ctcgcctacc gcgatggcgc gcgcatccat gccggcacgc
     4321 gaccgggcgc accgcagatg gaaacggccg acgcgcagct tcgcttcctc tgcgaggcgg
     4381 gtttttcggc cggggacgcc gtcaatgcgc tgatgacaat cagctacttc actgttgggg
     4441 ccgtgcttga ggagcaggcc ggcggcaccg ttgaacaggc tccgctctcg ccgctgttgc
     4501 gggccgcgat agacgccttc gacgaagccg gtccggacgc agcgttcgag cagggactcg
     4561 cggtgattgt cgatggattg gcgaaaagga ggctcgttgt caggaacgtt gaaggaccga
     4621 gaaagggtga cgattgatca ggaccgctgc cggagcgcaa cccactcact acagcagagc
     4681 catgtagaca acatcccctc cccctttcca ccgcgtcaga cgcccgtagc agcccgctac
     4741 gggctttttc atgccctgcc ctagcgtcca agcctcacgg ccgcgctcgg cctctctggc
     4801 ggccttctgg cgctcctgct gcggcgtccg ctcgtgggcc gtggcgcggg tc
//
