LOCUS       NZ_CP130095             2569 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SEMDH-29 plasmid unnamed2, complete sequence.
ACCESSION   NZ_CP130095
VERSION     NZ_CP130095.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361201
            Assembly: GCF_030505815.1
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  JOURNAL   Unpublished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 (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. unspecified
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 38.3x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:04:17
            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)                     :: 4,973
            CDSs (total)                      :: 4,851
            Genes (coding)                    :: 4,682
            CDSs (with protein)               :: 4,682
            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)              :: 169
            CDSs (without protein)            :: 169
            Pseudo Genes (ambiguous residues) :: 0 of 169
            Pseudo Genes (frameshifted)       :: 79 of 169
            Pseudo Genes (incomplete)         :: 114 of 169
            Pseudo Genes (internal stop)      :: 32 of 169
            Pseudo Genes (multiple problems)  :: 50 of 169
            Pseudo Genes (short protein)      :: 1 of 169
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130095.1.
            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="SEMDH-29"
                     /serovar="Schwarzengrund"
                     /isolation_source="urine"
                     /sub_species="enterica"
                     /db_xref="taxon:340190"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA"
                     /lat_lon="37.0902 N 95.7129 W"
                     /collection_date="2017"
                     /collected_by="Minnesota Department of Health"
     gene            join(1965..2569,1..361)
                     /gene="mobV"
                     /locus_tag="QPJ60_RS24860"
                     /old_locus_tag="QPJ60_24860"
     CDS             join(1965..2569,1..361)
                     /gene="mobV"
                     /locus_tag="QPJ60_RS24860"
                     /old_locus_tag="QPJ60_24860"
                     /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"
     gene            complement(363..1004)
                     /locus_tag="QPJ60_RS24865"
                     /old_locus_tag="QPJ60_24865"
     CDS             complement(363..1004)
                     /locus_tag="QPJ60_RS24865"
                     /old_locus_tag="QPJ60_24865"
                     /inference="COORDINATES: protein motif:HMM:NF017542.2"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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"
     Typing          1966..2540
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="98.0"
                     /evalue="3.1599999999999996e-126"
ORIGIN
        1 ccagccaagg gtgttgaaga aggggctttt cagtcgtcag gaagaaaccc cagaagctgt
       61 agcagctcgt ttaaccgatg caatcaacaa aggtcatgcg ggaacggttg caaatgccgc
      121 tgtaagcgcc cagaacgctc gtagagcgcg agaaatgcaa aagacaatgg ttgaccagca
      181 gaagaagcta aaaacgcttc aggagccgtt taaggggctt tcacgcgaac aggtagcgga
      241 ggtcatcaag atggccacaa ccatgcaacg ggaaaacgaa gcggccaagg ccgcgaagtt
      301 gcaacgccaa aaggaacagc gacagcagcg acgcagccaa gacagggggt ttagcagata
      361 aatcacttgg gcagcgtgat gtgagttggc ggctcgacgg gctcgtcacc gtctaagaaa
      421 cacggctctg gtgtcttgtg aaagtccaat tcctcttggt ctggcggcgg tagctgctcg
      481 tttgtcacgg tgacgtcatc gtcgtgactg aggaacggga aatggttcaa tttcaccttg
      541 tcccagtcct ctacgggggt gtcttgttcg tcgcttgatg ccacgatagt agcgtggaag
      601 accgttagtt ttttatcgcc gtgagactgc cagaacacgc gggaattgat gacataagcg
      661 ttagctgtac ccaccttaat gacttcaacc caattgtgtt ctttgaggta tttcacggcc
      721 ttgtagagcg ttgttctgcc tagtcctgtg atctttgaca tggtgtcata gctgcaaacc
      781 aaagcgtttt gtctgttcat tttttcggcc agtatgaaca gcaatttgcc agctgctggg
      841 ttggcttcgt acagctcacg aacaagccgc aaggctcgtt tttcaatctg cacgaagttg
      901 taattcttct tcgctcgctt agctgcttcg tcttgttctg caagctcttg ttgccttaca
      961 cgggcttgcg cctcggggct tatgtgtatg ttctgtttat tcatagcata cgttccattt
     1021 gctgaatcaa ttgttcacct ataggcacac aatacgttca cttttaatga acgtcaagtg
     1081 ccaccaaagt gatatatgtt cactctaggg gtgaacatat atgttcgccc taggggtgaa
     1141 cataaggaaa caggctcaaa gccaataacg acaagggttt aagactgttt ttagtagttg
     1201 tcccctctct atctcatagg gggcgttgcc ccctgccgca cttcgtttgg ctaacccccc
     1261 tgtcgcttcg ctcctgaaaa tgcctgccct gcgggcagaa ggcttttgtt acttgcagcg
     1321 gcctacggcc tcgctctaag ggggcgttgc cccctagcgc gcttcgcttg cctcccccac
     1381 gttcgccacg tggcaggggg gcaggacggg cggcctacgg cctacttacc tgccccccat
     1441 gcctaagcgt gtggtcgttc cagcagcgtc aagggtacgg cttcgcccac gtactcaccc
     1501 gttcggtgct cgccttcggc tgcgctccgc gtgcggcttc cgtgcgtgcc cttgacaccg
     1561 cttccactca aatggaaccg aacggaaagg gggtcaaggg aaccgtggaa taccgcagcc
     1621 ccaacggggc gaggatatgc cgcgaaagtc ccttgatgcc cttggagtga cccacgctcc
     1681 cgtctggggt ttgggttgtg caggccgaag gccggaactg cccacacccc tgacgacaga
     1741 gggcgactcg ttccccccag cggggggcgg aggggggaga atgcaacgag tgaaacgagg
     1801 cgcagggcga tagcccgaag agcaagccgc aggcgctgca acccgcttgc gggtcacgat
     1861 tttacgaagt aaagtctagt gagtactctt tgactccaaa gaggcccgcc ggaggcactg
     1921 cgttttccgt cgggatggca ccagcacaga ccgaggggga acgcatggct tttgcgatca
     1981 tgagagcgaa aaagctcaac ggcatggggg ctgtcgcggc ctcgttgcag cactgctacc
     2041 gagaccgaga cacgcccaat gccgaccaga cgcgaacggc agaaaacgaa cacagagccg
     2101 ccacatcaac cgatgaggca atggggcgct tgcgtgagtt gctgccagag aagcggcgca
     2161 aagatgcggt gctggcggtt gagtacgtca tgacggcatc gcccgaatgg tggacgaaag
     2221 ccaccagcga acagcaggcg gatttcttcg accaggcaca caagtggctg gccgaaaaat
     2281 acggcgctga ccgcatcatc acggccacca ttcaccgcga cgagaccagc ccacacctaa
     2341 gcgcgtttgt ggtgccgttg accgctgacg gacgtttgag cgccaaggat ttcattggca
     2401 acagggcgaa aatgacggct gaccagacca gctttgccaa agctgtgcag cacctagggc
     2461 ttgaaagggg catcgagcgc agcagggcaa cgcataccag catcaagcag cattacgccg
     2521 ccatcgaaaa gggcaccaaa ggggaagtga ccatcacccc cgaagccgt
//
