LOCUS       NZ_CP130276             4020 bp    DNA     linear   CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SEWLSH-13 plasmid unnamed1.
ACCESSION   NZ_CP130276
VERSION     NZ_CP130276.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361204
            Assembly: GCF_030506155.1
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 4020)
  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  JOURNAL   Unpublished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 4020)
  AUTHORS   Sopovski,D., Commichaux,S., Zhao,S., Grim,C.J., Foley,S.L. and
            Khajanchi,B.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUL-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. unspecified
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 42.9x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:11:52
            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)                     :: 4,986
            CDSs (total)                      :: 4,864
            Genes (coding)                    :: 4,681
            CDSs (with protein)               :: 4,681
            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)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 83 of 183
            Pseudo Genes (incomplete)         :: 126 of 183
            Pseudo Genes (internal stop)      :: 32 of 183
            Pseudo Genes (multiple problems)  :: 52 of 183
            Pseudo Genes (short protein)      :: 1 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130276.1.
            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..4020
                     /organism="Salmonella enterica subsp. enterica serovar
                     Schwarzengrund"
                     /mol_type="genomic DNA"
                     /strain="SEWLSH-13"
                     /serovar="Schwarzengrund"
                     /isolation_source="stool"
                     /sub_species="enterica"
                     /db_xref="taxon:340190"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA"
                     /lat_lon="37.0902 N 95.7129 W"
                     /collection_date="2016"
                     /collected_by="Wisconsin State Laboratory of Hygiene"
     gene            complement(191..568)
                     /locus_tag="QCC69_RS24895"
                     /old_locus_tag="QCC69_24895"
     CDS             complement(191..568)
                     /locus_tag="QCC69_RS24895"
                     /old_locus_tag="QCC69_24895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000068011.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="WP_000068011.1"
                     /translation="MAQLSSDSADKQVGQRIQMRRKELGITAQHLAELVDISHQQLSRY
                     ERGTNKINVAHLVNIAIKLNTPISWFFIDCFSTLDNESKNQQDFVPVKDADLKNRFDQI
                     WPRLTHEQRRVLIMLLDEYTK"
                     /name="helix-turn-helix transcriptional regulator"
     gene            803..1387
                     /locus_tag="QCC69_RS24900"
                     /old_locus_tag="QCC69_24900"
     CDS             803..1387
                     /locus_tag="QCC69_RS24900"
                     /old_locus_tag="QCC69_24900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001556320.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023254606.1"
                     /translation="MKKQKILIIESRSDQDIYDERYEGNTLRKVLELQGVAAKCTEVVN
                     EGMLVKALKIAQREHIKYVHISAHGSCDGFMLTDEDFITWRDFDRIAWPILRGKCICFS
                     SCSVGRGAEQLFDFHKSFCNAIVGPARDITWGEGLVAYSAFYHRAQSYEKSSFQDVRVM
                     NHIVGAGTFRLIESPYISSTYTIDGSLKYVC"
                     /name="hypothetical protein"
     gene            1410..2243
                     /locus_tag="QCC69_RS24905"
                     /old_locus_tag="QCC69_24905"
     CDS             1410..2243
                     /locus_tag="QCC69_RS24905"
                     /old_locus_tag="QCC69_24905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529980.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="lysozyme inhibitor LprI family protein"
                     /protein_id="WP_001529980.1"
                     /translation="MVNIINKKSLFILSMMACSTSYAASFDCNTVASGVEKMICSDHKL
                     SRLDDYLSQNYKIAMGPDMPEEAKSKIRKSQIDWLNKRNACTDAQCIERMYSKQMDYLW
                     NECFDHLSGKIEYIKFSEAIDKIKRDLASQEYNKTHKTPEEVIRELSTKNTNKVQQLGF
                     NNKQLDSILFLDGFGSYFEYHTLRESLSLIYELPDLTSLEMINYKGYAGFKIKTTGRPS
                     SGFIFREENGEIYLNGLVSGDKVIEATTENDMRELARIFLSYTGYVIDNNNSKDL"
                     /name="lysozyme inhibitor LprI family protein"
     gene            2255..2614
                     /locus_tag="QCC69_RS24910"
                     /old_locus_tag="QCC69_24910"
     CDS             2255..2614
                     /locus_tag="QCC69_RS24910"
                     /old_locus_tag="QCC69_24910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016154996.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024132318.1"
                     /translation="MRRFSIIFIFVTGSSLANTFVFTKNNNVLSLSPGVEIAEFSINGS
                     HSNTSSLCSIGGMAESVRAGEGQRNRWIYSDSSSACVAVISELKDGTVNVMTRSCENHC
                     GVSAVGSLDGKYVLK"
                     /name="hypothetical protein"
     gene            2902..3423
                     /locus_tag="QCC69_RS24915"
                     /old_locus_tag="QCC69_24915"
     CDS             2902..3423
                     /locus_tag="QCC69_RS24915"
                     /old_locus_tag="QCC69_24915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000429952.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000429952.1"
                     /translation="MENNPEEIPFSWGRLILAFIIFIYLMTYSFLSIKYLFLSWSGDFS
                     FLGRILHFNNTFTVNEEIKLAIFTTFGAILGGATLGITSLHKYAAVNKKLDIDHLWGYL
                     MAPILSVIIGILIFCLLYSGLIILTGGSNPDTEKNSVKIGYLCMGAICSYNWDVFIKKL
                     QQLSKHVSEG"
                     /name="hypothetical protein"
     gene            complement(3477..>4020)
                     /locus_tag="QCC69_RS24920"
                     /old_locus_tag="QCC69_24920"
                     /pseudo=""
     CDS             complement(3477..>4020)
                     /locus_tag="QCC69_RS24920"
                     /old_locus_tag="QCC69_24920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000418442.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=2
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
ORIGIN
        1 aaaaataagg aaaccaaaat ttatatagac aaaattggga aaaaacgtgg cctatcaggt
       61 aacgaaaaat ttcttgaacg attttttgat aaaaataaaa ttcttaaact acttacagca
      121 atggatgacg aggtctgaat atcggacggt agtcatattt ttggaagaaa tgaggcttta
      181 cttttaagtc tcatttcgta tattcatcta agagcataat cagtacacgt ctttgctcat
      241 gggttaatcg aggccatatc tgatcaaaac gattttttaa atcggcatcc ttgactggca
      301 caaaatcttg ctggttctta gattcattgt ctaatgtcga aaagcagtca ataaaaaacc
      361 aactaattgg tgtattcaat ttaatagcga tgttaacaag atgtgccaca ttgatcttgt
      421 ttgtaccacg ttcatagcgt gagagttgct gatgagagat atcgacaagt tcggccaggt
      481 gctgagctgt tatccctagc tctttacgtc gcatctgaat gcgctgccct acctgtttat
      541 ctgcactatc tgaagatagc tgagccatat accaccactc cccataatgt ctatagatgg
      601 aagtttgtgg gctttttgct cttgtatgaa tatcatctat ggattataaa tgtgtttttg
      661 ctctcctatg gctgtttgat gaggtgctga actgagatgt gcgaagtcat atggctttta
      721 cagtaatcat gcttatcaag gatggttcat attgatacat cggttaaaag accatcattg
      781 aaggtctttg tgggcgaaag taatgaaaaa acaaaaaata cttattattg aatcacgcag
      841 cgatcaggat atttatgatg agagatacga gggaaataca ctaaggaagg ttttggagtt
      901 acaaggtgta gctgcaaaat gtactgaagt agttaatgaa ggaatgctag taaaagcatt
      961 aaaaatagcg caacgagaac acataaaata tgtacatata agtgctcacg gttcatgtga
     1021 tggttttatg ttaacagacg aggattttat tacatggagg gattttgatc gtatagcgtg
     1081 gcctatatta agaggtaagt gtatttgctt ttcaagctgt tcagtcggaa ggggcgctga
     1141 acaattattt gattttcata agtctttttg taacgcaatc gttggacccg caagagatat
     1201 tacttggggt gagggacttg ttgcatattc tgcattctat caccgagcac aatcgtatga
     1261 gaaatcatcc ttccaggatg ttcgggttat gaatcatatc gttggcgcgg gaacgttcag
     1321 gctcatagaa tcaccatata tatcatctac ctatacaatt gatggttctc taaaatatgt
     1381 ttgctaggct tttaaaataa ggacttctca tggtaaatat cataaacaaa aaatctttat
     1441 ttattctttc aatgatggct tgcagtacaa gttatgctgc ttcttttgat tgtaatacag
     1501 tagcttcagg tgttgaaaaa atgatttgct cagatcataa gttaagtcgt ttggacgact
     1561 atctatccca gaactataaa atagctatgg ggcctgatat gcctgaagaa gcaaaatcta
     1621 aaattagaaa atcgcaaata gattggctta ataagagaaa tgcttgtact gatgctcaat
     1681 gcattgaacg aatgtattct aagcagatgg attatctttg gaacgaatgc tttgatcatc
     1741 ttagtggcaa aattgaatat attaaatttt ccgaagcaat agataagata aagagagatc
     1801 tagcttctca agaatataat aaaactcata agacacctga ggaagttatc agggaattat
     1861 caactaagaa cactaacaaa gtccaacaat taggatttaa taataaacag ttagattcaa
     1921 ttttattttt agatgggttt ggtagttact ttgaatatca tacattaaga gagagtctgt
     1981 cattgattta tgaacttcca gatttaacat cattagagat gatcaattat aaaggttatg
     2041 ctggatttaa aataaaaaca acagggagac cttcttctgg gtttattttt agagaagaaa
     2101 atggtgagat ttatttaaat ggtctcgtat ctggcgataa agttattgag gctactactg
     2161 aaaatgacat gcgagagtta gctcgtattt ttttgagcta tacaggttat gttattgaca
     2221 ataataactc caaagattta tgacaggtat tataatgaga aggttttcta ttatttttat
     2281 ttttgttaca ggttcctctt tggctaatac tttcgttttt acgaaaaata ataatgttct
     2341 gtcattatct ccgggagttg agattgccga gtttagtatt aatggatctc atagtaatac
     2401 ttctagttta tgtagtatag gaggtatggc tgaatctgtt agggctggag aaggacagag
     2461 aaatcgctgg atctacagtg attcttcgag tgcatgtgtg gcggtgatca gtgaattgaa
     2521 agatggcaca gttaatgtta tgactcgtag ctgtgaaaac cattgcggtg tctctgctgt
     2581 tggttcattg gatgggaaat atgttctaaa atagttaaac gaataagagc cataatttac
     2641 tgtggctctt atccgaagtg ccttgctgaa tgattttata aatcatcggt aagttaattt
     2701 taagggctgc taaccacttg gtaaatctat acggtgtgat tgtggcataa tacattgatg
     2761 cattatataa taaacggtgg tatagtaaac ataaacgtag ttgtataata atgtttgcct
     2821 tttctggctc gtgatcaacc agtctttcaa tatgagtaaa aatcacattt ttaatctaaa
     2881 aaaaatagta agagataaat aatggaaaat aatcctgaag agataccttt tagttgggga
     2941 aggctgattt tagctttcat catttttatt tatttgatga cctactcttt tctttcgata
     3001 aaatatttat tcctatcgtg gtcaggcgat ttttcttttt taggaaggat attgcatttt
     3061 aataatacct ttactgtgaa tgaggaaata aaacttgcga tttttactac atttggtgct
     3121 attttaggtg gtgcaacatt aggtattact tcattgcaca aatatgctgc tgtaaataaa
     3181 aagttagata tagatcattt atggggctat ttgatggctc caattctttc tgtaattata
     3241 gggatattga tattttgcct cctttatagt gggttgataa ttcttacagg tggttctaat
     3301 cctgatacag aaaagaatag tgtaaagatt ggttatttat gtatgggagc aatttgttct
     3361 tataactggg atgtgtttat taaaaagctc caacagttat ctaaacatgt atctgaagga
     3421 taatgctaga ttaaaagaat aaagagaggc aagcctctct ttattctttg ctttaattaa
     3481 actccgtttt tttgatgttt ctcatcattg acagctttaa catctaaata atgtggtatg
     3541 agctgtttcc accatgatga tagagtgttt gctctacggc taatcgtttg accagacaaa
     3601 gtcggacagc gttcagtcag aaaatccttt gcagtattag gatctatctc ggctatatta
     3661 gttaaatcaa aatgatttat ccatgcccat acacactcac tggcttcaaa ggcattagca
     3721 gtaatcctat attttgtatt attatctgaa agagcaattc tttgcccctg aggggttagc
     3781 tcaccattat attcaacaaa tccaagtata tgagcagatt gtctatagta agcaactagt
     3841 cttggttcca cattcaatga cacagcattt actggttcat tattccattt taaatcaata
     3901 agcttgaata ccttctctat atcatttcct tgtggaactt tgatagatga gatatatgta
     3961 agtgctcttt ttttaaggcg agataaatat atctctgcat ctatcttgta tatttttatg
//
