LOCUS       NZ_CP130081             3321 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SEWLSH-25 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP130081
VERSION     NZ_CP130081.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361205
            Assembly: GCF_030505755.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Schwarzengrund
  ORGANISM  Salmonella enterica subsp. enterica serovar Schwarzengrund
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3321)
  AUTHORS   Sopovski,D., Commichaux,S., Zhao,S., Grim,C.J., Foley,S.L. and
            Khajanchi,B.K.
  TITLE     Complete genome sequences of 17 Salmonella enterica serovar
            Schwarzengrund strains carrying IncFIB-IncFIC (IncFII) fusion
            plasmid
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3321)
  AUTHORS   Sopovski,D., Commichaux,S., Zhao,S., Grim,C.J., Foley,S.L. and
            Khajanchi,B.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUN-2023) Office of Applied Research and Safety
            Assessment, CFSAN, U.S. Food and Drug Administration, 8301 Muirkirk
            Rd MOD1, Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Hybrid assembly using Unicyler v. not specified
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 455.0x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:12:39
            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)                     :: 4,982
            CDSs (total)                      :: 4,860
            Genes (coding)                    :: 4,685
            CDSs (with protein)               :: 4,685
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 93 of 175
            Pseudo Genes (incomplete)         :: 108 of 175
            Pseudo Genes (internal stop)      :: 32 of 175
            Pseudo Genes (multiple problems)  :: 51 of 175
            Pseudo Genes (short protein)      :: 1 of 175
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130081.1.
            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..3321
                     /organism="Salmonella enterica subsp. enterica serovar
                     Schwarzengrund"
                     /mol_type="genomic DNA"
                     /strain="SEWLSH-25"
                     /serovar="Schwarzengrund"
                     /isolation_source="stool"
                     /sub_species="enterica"
                     /db_xref="taxon:340190"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA"
                     /lat_lon="37.0902 N 95.7129 W"
                     /collection_date="2013"
                     /collected_by="Wisconsin State Laboratory of Hygiene"
     gene            220..837
                     /gene="tioA"
                     /locus_tag="QPJ64_RS24880"
                     /old_locus_tag="QPJ64_24880"
     CDS             220..837
                     /gene="tioA"
                     /locus_tag="QPJ64_RS24880"
                     /old_locus_tag="QPJ64_24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000241754.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein TioA"
                     /protein_id="WP_000241751.1"
                     /translation="MVKYHPVHVTKNRIKTDDVTDIYFVEPFWKEGENHIIESLTFFEE
                     LQKSFNLFNHKYGLNKYILRIPWEFVLIHLERISKLNSVGLFAVSVDFNNNHKFLSEYI
                     RSRRDYGMEVWFDFCGKHSYSSEIKNLGFFFQACVVPRDPNFISSVYHYHKFQKILVGD
                     INDVEQRAVYQNEVDYMYGMQWPSSYDGFFFRDHKKNEIWCI"
                     /name="tioA"
     gene            complement(<1440..>1573)
                     /locus_tag="QPJ64_RS24885"
                     /old_locus_tag="QPJ64_24885"
                     /pseudo=""
     CDS             complement(<1440..>1573)
                     /locus_tag="QPJ64_RS24885"
                     /old_locus_tag="QPJ64_24885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_415949.3"
                     /note="frameshifted; internal stop; 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="transposase"
                     /name="transposase"
     gene            1609..1797
                     /locus_tag="QPJ64_RS24890"
                     /old_locus_tag="QPJ64_24890"
     CDS             1609..1797
                     /locus_tag="QPJ64_RS24890"
                     /old_locus_tag="QPJ64_24890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_459303.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_031603244.1"
                     /translation="MIQQDGAVFGQPEVKPIPETLQCTEKWRQVAPVQRFSEGAGVFIT
                     DILHCAFGNPQNQLFYR"
                     /name="hypothetical protein"
     gene            complement(1801..2520)
                     /gene="pagN"
                     /locus_tag="QPJ64_RS24895"
                     /old_locus_tag="QPJ64_24895"
     CDS             complement(1801..2520)
                     /gene="pagN"
                     /locus_tag="QPJ64_RS24895"
                     /old_locus_tag="QPJ64_24895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_459304.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="adhesin/invasin protein PagN"
                     /protein_id="WP_000787605.1"
                     /translation="MKNFFAVCIIPLVVAWSATASAKEGIYITGKAGTSVVNVYGINST
                     FSQDEIVNGHATLPDRTKGVFGGGVAIGYDFYDPFQLPVRLELDTTFRGETDAKGGQDI
                     IAFGQPVHINVKNQVRMTTYMVNGYYDFHNSTAFTPYISAGVGLAHVKLSNNTIPVGFG
                     INETLSASKNNFAWGAGIGAKYAVTDNIMIDASYKYINAGKVSISKNHYAGDEHTAYDA
                     DTKAASNDFMLGITYAF"
                     /name="pagN"
     gene            complement(2844..3251)
                     /locus_tag="QPJ64_RS24900"
                     /old_locus_tag="QPJ64_24900"
     CDS             complement(2844..3251)
                     /locus_tag="QPJ64_RS24900"
                     /old_locus_tag="QPJ64_24900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_459305.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Spy/CpxP family protein refolding chaperone"
                     /protein_id="WP_000788200.1"
                     /translation="MKNFVRTTLLAATLAGVSFGAFATAVPNPPLPAQDPIVQHLKLTN
                     DQITRIKKLHQQLETDVSQISMKGIKDGALIEVIKSGKWDDAAVKQQLAAFSNIEQQAR
                     YYRVKYYFDLSKVLTPEQRQQVQQDLAQALE"
                     /name="Spy/CpxP family protein refolding chaperone"
ORIGIN
        1 taactaattc ttcaattagt ggatctgcat cgagctttgt tcttgagcaa ataaaggaaa
       61 caaacgaact gccagtgtga aagtgtgatg tgtacttact gatttaatac attattatcc
      121 ttcttacgga acaacaacgg cagattgcgg ctgttgaaca aggattttaa tcagcagtag
      181 tgagattaag cggcacagaa taacatagcg gaatatcata tggttaaata tcaccccgtg
      241 catgtaacaa aaaaccgcat taaaacagat gatgttactg atatttattt cgttgaaccc
      301 ttctggaaag aaggcgaaaa ccacataatt gagtcattga cgttttttga agagttacaa
      361 aagtcattta atttattcaa ccataaatat gggttaaata aatatatact caggattccc
      421 tgggaatttg tgcttataca tttggaaagg atcagtaaat taaatagcgt cgggttattt
      481 gctgtttctg ttgactttaa taacaaccac aaatttctga gcgagtacat caggagtcgc
      541 agagattatg gtatggaagt ttggtttgat ttttgtggta aacattctta ttccagtgaa
      601 attaaaaacc ttgggttctt ttttcaggct tgcgtagtgc ctcgtgatcc taattttatt
      661 agtagtgttt atcattatca taagttccaa aagattcttg tcggggatat aaatgatgta
      721 gaacagagag ctgtgtacca gaacgaagtt gattacatgt atggaatgca atggccatcg
      781 tcatatgacg gttttttctt tcgggatcat aaaaaaaatg aaatttggtg tatataacag
      841 aagaaatgaa attttgaatc aaaagtatct tatttatttt tttgtttaat tattgttttg
      901 ttttttatta cgattaaata taaagaacat cattgttcgt gcggtgggga ggctggaagt
      961 ttaggggatg accgtttatc aacaatttta ttacagccac catacgaatg gtttatatat
     1021 gcactagatg tattatttta gtttaatata tcgatggttg ctatttgcat tgatgatgtt
     1081 ccgttacatt aaggaatata catctgtatc tctttatacg cacgctcaca ttactaatca
     1141 ttattaatat gagtgtggtt cttgttttac gcatgcatgg ttgcatgtga cgttaaattt
     1201 aaatgagctg actgtatgaa ttctaaatac tttagagagg tgttttttgt ctcggtagtt
     1261 gttatattat tattttattt ggtgttattt gcagccagtg ctcatgctga aagcggcttc
     1321 agctctggag gcattgggtt atttatgacg ggaacaagag agatggtact gtagagataa
     1381 taaattctgc taaagattcc ccaattcttg tgcattgaca tcctccacgt cctgaagggc
     1441 gtgggttcct gctccaacgg gctgcctgac tgcacgctcc ttccacaggc aagcacggcg
     1501 tgtcccgctc taaaatgtta cgcgcgccgt ttacatcggc gttcgcagta tatcttcata
     1561 ccagacactt gtaagtatct cgcataatcg tgccattcac atttagagat catacaacag
     1621 gacggggctg tttttgggca gccggaagtt aagcccatac cagaaacgtt gcagtgtact
     1681 gaaaaatggc gccaggttgc acctgttcaa cgattttctg aaggcgcagg agtattcatt
     1741 actgatatcc tccattgcgc cttcgggaac ccacagaacc agctatttta ccgatagtgt
     1801 ttaaaaggcg taagtaatgc cgagcatgaa gtcattggag gcagcctttg tgtctgcatc
     1861 ataagcggta tgttcatcac cagcatagtg attttttgaa atgcttactt tgcctgcatt
     1921 aatgtattta taactggcgt caatcataat attatctgtt acagcatatt ttgcaccgat
     1981 acctgcgccc caggcaaagt tattttttga agcagacaga gtttcattaa taccaaaacc
     2041 aacaggaatg gtgttattac ttagcttcac atgagcgagg ccaacgcctg cgctgatata
     2101 gggtgtaaat gccgtactat tgtgaaaatc ataatagcca ttaaccatgt aagtggtcat
     2161 tcggacctga ttttttacat ttatgtgtac tggctgacca aatgcaataa tatcctgccc
     2221 gcctttagca tccgtctcac ctctgaaagt ggtatccagt tctaaacgta ctggaagctg
     2281 gaatggatca taaaagtcat aaccgatagc aaccccgccg ccaaaaacgc ctttggtacg
     2341 gtcaggtaac gttgcatgac cattgactat ctcatcctgg ctgaaggttg agttgattcc
     2401 atagacattg actacggatg tccccgcttt cccggtgata tagatccctt cttttgctga
     2461 tgcagtagcg gaccaggcta ccacaagggg aatgatgcag actgcgaaaa agtttttcat
     2521 ttcagaacct gccttaatat tgggctaaaa gacaagtttc acggtatagg gtgtgatata
     2581 acgattacat aaacgaagcc caaaaaacgg tctattgtaa cgctgggttt tctgtaagcg
     2641 ggtaaaaaat gagatgaaga ttttaaataa caatacgata atcgtcggta tggaaatcca
     2701 tctcctcgcc aaattgcccc acgtacggtt tcacttctac gttatgtaac gggtgtgtga
     2761 gatggagcga tgctgtaaga aaaagatgaa tttgtacctg acctggataa agcccgttat
     2821 ccagaaataa cgggcaaaaa tatttactca agtgcctggg cgagatcttg ttgtacctgt
     2881 tgacgctgtt ctggtgtcaa gactttgctt aaatcaaaat aatatttaac ccgataatag
     2941 cgagcctgtt gttctatgtt actgaaggct gcaagctgct gttttacggc ggcgtcatcc
     3001 catttaccgg atttaatcac ctctatcagc gcaccgtctt taattccctt catagaaatc
     3061 tgactgacgt cggtttccag ttgttggtga agttttttga tccgggtaat ctgatcgttt
     3121 gtcagcttca gatgctggac aataggatcc tgggcgggca ggggaggatt ggggacagcg
     3181 gtggcgaaag cgccaaaaga aacgcccgcc agagtcgctg ccagtaaagt tgtgcgtaca
     3241 aagtttttca tgaagatatc ctgataaggg agtgattaac cgtttttatt acccacgaat
     3301 ggcgagcaat tatcttagag c
//
