LOCUS       NZ_CP130277             2569 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SEWLSH-13 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP130277
VERSION     NZ_CP130277.1
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 2569)
  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  JOURNAL   Unpublished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 2569)
  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
            CP130277.1.
            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..2569
                     /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="unnamed2"
                     /geo_loc_name="USA"
                     /lat_lon="37.0902 N 95.7129 W"
                     /collection_date="2016"
                     /collected_by="Wisconsin State Laboratory of Hygiene"
     gene            join(2337..2569,1..409)
                     /locus_tag="QCC69_RS24925"
                     /old_locus_tag="QCC69_24925"
     CDS             join(2337..2569,1..409)
                     /locus_tag="QCC69_RS24925"
                     /old_locus_tag="QCC69_24925"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_052928735.1"
                     /translation="MNKQNIHISPEAQARVRQQELAEQDEAAKRAKKNYNFVQIEKRAL
                     RLVRELYEANPAAGKLLFILAEKMNRQNALVCSYDTMSKITGLGRTTLYKAVKYLKEHN
                     WVEVIKVGTANAYVINSRVFWQSHGDKKLTVFHATIVASSDEQDTPVEDWDKVKLNHFP
                     FLSHDDDVTVTNEQLPPPDQEELDFHKTPEPCFLDGDEPVEPPTHITLPK"
                     /name="replication/maintenance protein RepL"
     gene            complement(411..1376)
                     /gene="mobV"
                     /locus_tag="QCC69_RS24930"
                     /old_locus_tag="QCC69_24930"
     CDS             complement(411..1376)
                     /gene="mobV"
                     /locus_tag="QCC69_RS24930"
                     /old_locus_tag="QCC69_24930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010657476.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_052928736.1"
                     /translation="MAFAIMRAKKLNGMGAVAASLQHCYRDRDTPNADQTRTAENEHRA
                     ATSTDEAMGRLRELLPEKRRKDAVLAVEYVMTASPEWWTKATSEQQADFFDQAHKWLAE
                     KYGADRIITATIHRDETSPHLSAFVVPLTADGRLSAKDFIGNRAKMTADQTSFAKAVQH
                     LGLERGIERSRATHTSIKQHYAAIEKGTKGEVTITPEAVQPRVLKKGLFSRQEETPEAV
                     AARLTDAINKGHAGTVANAAVSAQNARRAREMQKTMVDQQKKLKTLQEPFKGLSREQVA
                     EVIKMATTMQRENEAAKAAKLQRQKEQRQQRRSQDRGFSR"
                     /name="mobV"
     Typing          complement(802..1376)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="98.0"
                     /evalue="1.01e-127"
ORIGIN
        1 ctatgacacc atgtcaaaga tcacaggact aggcagaaca acgctctaca aggccgtgaa
       61 atacctcaaa gaacacaatt gggttgaagt cattaaggtg ggtacagcta acgcttatgt
      121 catcaattcc cgcgtgttct ggcagtctca cggcgataaa aaactaacgg tcttccacgc
      181 tactatcgtg gcatcaagcg acgaacaaga cacccccgta gaggactggg acaaggtgaa
      241 attgaaccat ttcccgttcc tcagtcacga cgatgacgtc accgtgacaa acgagcagct
      301 accgccgcca gaccaagagg aattggactt tcacaagaca ccagagccgt gtttcttaga
      361 cggtgacgag cccgtcgagc cgccaactca catcacgctg cccaagtgat ttatctgcta
      421 aaccccctgt cttggctgcg tcgctgctgt cgctgttcct tttggcgttg caacttcgcg
      481 gccttggccg cttcgttttc ccgttgcatg gttgtggcca tcttgatgac ctccgctacc
      541 tgttcgcgtg aaagcccctt aaacggctcc tgaagcgttt ttagcttctt ctgctggtca
      601 accattgtct tttgcatttc tcgcgctcta cgagcgttct gggcgcttac agcggcattt
      661 gcaaccgttc ccgcatgacc tttgttgatt gcatcggtta aacgagctgc tacagcttct
      721 ggggtttctt cctgacgact gaaaagcccc ttcttcaaca cccttggctg gacggcttcg
      781 ggggtgatgg tcacttcccc tttggtgccc ttttcgatgg cggcgtaatg ctgcttgatg
      841 ctggtatgcg ttgccctgct gcgctcgatg cccctttcaa gccctaggtg ctgcacagct
      901 ttggcaaagc tggtctggtc agccgtcatt ttcgccctgt tgccaatgaa atccttggcg
      961 ctcaaacgtc cgtcagcggt caacggcacc acaaacgcgc ttaggtgtgg gctggtctcg
     1021 tcgcggtgaa tggtggccgt gatgatgcgg tcagcgccgt atttttcggc cagccacttg
     1081 tgtgcctggt cgaagaaatc cgcctgctgt tcgctggtgg ctttcgtcca ccattcgggc
     1141 gatgccgtca tgacgtactc aaccgccagc accgcatctt tgcgccgctt ctctggcagc
     1201 aactcacgca agcgccccat tgcctcatcg gttgatgtgg cggctctgtg ttcgttttct
     1261 gccgttcgcg tctggtcggc attgggcgtg tctcggtctc ggtagcagtg ctgcaacgag
     1321 gccgcgacag cccccatgcc gttgagcttt ttcgctctca tgatcgcaaa agccatgcgt
     1381 tccccctcgg tctgtgctgg tgccatcccg acggaaaacg cagtgcctcc ggcgggcctc
     1441 tttggagtca aagagtactc actagacttt acttcgtaaa atcgtgaccc gcaagcgggt
     1501 tgcagcgcct gcggcttgct cttcgggcta tcgccctgcg cctcgtttca ctcgttgcat
     1561 tctcccccct ccgccccccg ctggggggaa cgagtcgccc tctgtcgtca ggggtgtggg
     1621 cagttccggc cttcggcctg cacaacccaa accccagacg ggagcgtggg tcactccaag
     1681 ggcatcaagg gactttcgcg gcatatcctc gccccgttgg ggctgcggta ttccacggtt
     1741 cccttgaccc cctttccgtt cggttccatt tgagtggaag cggtgtcaag ggcacgcacg
     1801 gaagccgcac gcggagcgca gccgaaggcg agcaccgaac gggtgagtac gtgggcgaag
     1861 ccgtaccctt gacgctgctg gaacgaccac acgcttaggc atggggggca ggtaagtagg
     1921 ccgtaggccg cccgtcctgc ccccctgcca cgtggcgaac gtgggggagg caagcgaagc
     1981 gcgctagggg gcaacgcccc cttagagcga ggccgtaggc cgctgcaagt aacaaaagcc
     2041 ttctgcccgc agggcaggca ttttcaggag cgaagcgaca ggggggttag ccaaacgaag
     2101 tgcggcaggg ggcaacgccc cctatgagat agagagggga caactactaa aaacagtctt
     2161 aaacccttgt cgttattggc tttgagcctg tttccttatg ttcaccccta gggcgaacat
     2221 atatgttcac ccctagagtg aacatatatc actttggtgg cacttgacgt tcattaaaag
     2281 tgaacgtatt gtgtgcctat aggtgaacaa ttgattcagc aaatggaacg tatgctatga
     2341 ataaacagaa catacacata agccccgagg cgcaagcccg tgtaaggcaa caagagcttg
     2401 cagaacaaga cgaagcagct aagcgagcga agaagaatta caacttcgtg cagattgaaa
     2461 aacgagcctt gcggcttgtt cgtgagctgt acgaagccaa cccagcagct ggcaaattgc
     2521 tgttcatact ggccgaaaaa atgaacagac aaaacgcttt ggtttgcag
//
