LOCUS       NZ_CP130111             2569 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SECVM-13 plasmid unnamed1, complete sequence.
ACCESSION   NZ_CP130111
VERSION     NZ_CP130111.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361196
            Assembly: GCF_030505915.1
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  JOURNAL   Unpublished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                   :: 32.1x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:08:20
            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)                     :: 4,903
            CDSs (total)                      :: 4,781
            Genes (coding)                    :: 4,608
            CDSs (with protein)               :: 4,608
            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)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 78 of 173
            Pseudo Genes (incomplete)         :: 120 of 173
            Pseudo Genes (internal stop)      :: 30 of 173
            Pseudo Genes (multiple problems)  :: 49 of 173
            Pseudo Genes (short protein)      :: 1 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130111.1.
            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="SECVM-13"
                     /serovar="Schwarzengrund"
                     /isolation_source="chicken breast"
                     /sub_species="enterica"
                     /db_xref="taxon:340190"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA"
                     /lat_lon="37.0902 N 95.7129 W"
                     /collection_date="2013"
                     /collected_by="FDA"
     gene            join(1763..2569,1..159)
                     /gene="mobV"
                     /locus_tag="QPE03_RS24510"
                     /old_locus_tag="QPE03_24510"
     CDS             join(1763..2569,1..159)
                     /gene="mobV"
                     /locus_tag="QPE03_RS24510"
                     /old_locus_tag="QPE03_24510"
                     /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(161..802)
                     /locus_tag="QPE03_RS24515"
                     /old_locus_tag="QPE03_24515"
     CDS             complement(161..802)
                     /locus_tag="QPE03_RS24515"
                     /old_locus_tag="QPE03_24515"
                     /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          1764..2338
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="98.0"
                     /evalue="3.51e-127"
ORIGIN
        1 gagccgttta aggggctttc acgcgaacag gtagcggagg tcatcaagat ggccacaacc
       61 atgcaacggg aaaacgaagc ggccaaggcc gcgaagttgc aacgccaaaa ggaacagcga
      121 cagcagcgac gcagccaaga cagggggttt agcagataaa tcacttgggc agcgtgatgt
      181 gagttggcgg ctcgacgggc tcgtcaccgt ctaagaaaca cggctctggt gtcttgtgaa
      241 agtccaattc ctcttggtct ggcggcggta gctgctcgtt tgtcacggtg acgtcatcgt
      301 cgtgactgag gaacgggaaa tggttcaatt tcaccttgtc ccagtcctct acgggggtgt
      361 cttgttcgtc gcttgatgcc acgatagtag cgtggaagac cgttagtttt ttatcgccgt
      421 gagactgcca gaacacgcgg gaattgatga cataagcgtt agctgtaccc accttaatga
      481 cttcaaccca attgtgttct ttgaggtatt tcacggcctt gtagagcgtt gttctgccta
      541 gtcctgtgat ctttgacatg gtgtcatagc tgcaaaccaa agcgttttgt ctgttcattt
      601 tttcggccag tatgaacagc aatttgccag ctgctgggtt ggcttcgtac agctcacgaa
      661 caagccgcaa ggctcgtttt tcaatctgca cgaagttgta attcttcttc gctcgcttag
      721 ctgcttcgtc ttgttctgca agctcttgtt gccttacacg ggcttgcgcc tcggggctta
      781 tgtgtatgtt ctgtttattc atagcatacg ttccatttgc tgaatcaatt gttcacctat
      841 aggcacacaa tacgttcact tttaatgaac gtcaagtgcc accaaagtga tatatgttca
      901 ctctaggggt gaacatatat gttcgcccta ggggtgaaca taaggaaaca ggctcaaagc
      961 caataacgac aagggtttaa gactgttttt agtagttgtc ccctctctat ctcatagggg
     1021 gcgttgcccc ctgccgcact tcgtttggct aacccccctg tcgcttcgct cctgaaaatg
     1081 cctgccctgc gggcagaagg cttttgttac ttgcagcggc ctacggcctc gctctaaggg
     1141 ggcgttgccc cctagcgcgc ttcgcttgcc tcccccacgt tcgccacgtg gcaggggggc
     1201 aggacgggcg gcctacggcc tacttacctg ccccccatgc ctaagcgtgt ggtcgttcca
     1261 gcagcgtcaa gggtacggct tcgcccacgt actcacccgt tcggtgctcg ccttcggctg
     1321 cgctccgcgt gcggcttccg tgcgtgccct tgacaccgct tccactcaaa tggaaccgaa
     1381 cggaaagggg gtcaagggaa ccgtggaata ccgcagcccc aacggggcga ggatatgccg
     1441 cgaaagtccc ttgatgccct tggagtgacc cacgctcccg tctggggttt gggttgtgca
     1501 ggccgaaggc cggaactgcc cacacccctg acgacagagg gcgactcgtt ccccccagcg
     1561 gggggcggag gggggagaat gcaacgagtg aaacgaggcg cagggcgata gcccgaagag
     1621 caagccgcag gcgctgcaac ccgcttgcgg gtcacgattt tacgaagtaa agtctagtga
     1681 gtactctttg actccaaaga ggcccgccgg aggcactgcg ttttccgtcg ggatggcacc
     1741 agcacagacc gagggggaac gcatggcttt tgcgatcatg agagcgaaaa agctcaacgg
     1801 catgggggct gtcgcggcct cgttgcagca ctgctaccga gaccgagaca cgcccaatgc
     1861 cgaccagacg cgaacggcag aaaacgaaca cagagccgcc acatcaaccg atgaggcaat
     1921 ggggcgcttg cgtgagttgc tgccagagaa gcggcgcaaa gatgcggtgc tggcggttga
     1981 gtacgtcatg acggcatcgc ccgaatggtg gacgaaagcc accagcgaac agcaggcgga
     2041 tttcttcgac caggcacaca agtggctggc cgaaaaatac ggcgctgacc gcatcatcac
     2101 ggccaccatt caccgcgacg agaccagccc acacctaagc gcgtttgtgg tgccgttgac
     2161 cgctgacgga cgtttgagcg ccaaggattt cattggcaac agggcgaaaa tgacggctga
     2221 ccagaccagc tttgccaaag ctgtgcagca cctagggctt gaaaggggca tcgagcgcag
     2281 cagggcaacg cataccagca tcaagcagca ttacgccgcc atcgaaaagg gcaccaaagg
     2341 ggaagtgacc atcacccccg aagccgtcca gccaagggtg ttgaagaagg ggcttttcag
     2401 tcgtcaggaa gaaaccccag aagctgtagc agctcgttta accgatgcaa tcaacaaagg
     2461 tcatgcggga acggttgcaa atgccgctgt aagcgcccag aacgctcgta gagcgcgaga
     2521 aatgcaaaag acaatggttg accagcagaa gaagctaaaa acgcttcag
//
