LOCUS       NZ_CP130117             2569 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain
            SECVM-10 plasmid unnamed1, complete sequence.
ACCESSION   NZ_CP130117
VERSION     NZ_CP130117.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361194
            Assembly: GCF_030505955.1
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  JOURNAL   Unpublished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                   :: 27.8x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:03:14
            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)                     :: 4,955
            CDSs (total)                      :: 4,833
            Genes (coding)                    :: 4,675
            CDSs (with protein)               :: 4,675
            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)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 77 of 158
            Pseudo Genes (incomplete)         :: 106 of 158
            Pseudo Genes (internal stop)      :: 30 of 158
            Pseudo Genes (multiple problems)  :: 49 of 158
            Pseudo Genes (short protein)      :: 1 of 158
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130117.1.
            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-10"
                     /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            complement(join(2341..2569,1..413))
                     /locus_tag="QPE05_RS24770"
                     /old_locus_tag="QPE05_24770"
     CDS             complement(join(2341..2569,1..413))
                     /locus_tag="QPE05_RS24770"
                     /old_locus_tag="QPE05_24770"
                     /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            1374..2339
                     /gene="mobV"
                     /locus_tag="QPE05_RS24775"
                     /old_locus_tag="QPE05_24775"
     CDS             1374..2339
                     /gene="mobV"
                     /locus_tag="QPE05_RS24775"
                     /old_locus_tag="QPE05_24775"
                     /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          1375..1949
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="98.0"
                     /evalue="1.01e-127"
ORIGIN
        1 gcgtggaaga ccgttagttt tttatcgccg tgagactgcc agaacacgcg ggaattgatg
       61 acataagcgt tagctgtacc caccttaatg acttcaaccc aattgtgttc tttgaggtat
      121 ttcacggcct tgtagagcgt tgttctgcct agtcctgtga tctttgacat ggtgtcatag
      181 ctgcaaacca aagcgttttg tctgttcatt ttttcggcca gtatgaacag caatttgcca
      241 gctgctgggt tggcttcgta cagctcacga acaagccgca aggctcgttt ttcaatctgc
      301 acgaagttgt aattcttctt cgctcgctta gctgcttcgt cttgttctgc aagctcttgt
      361 tgccttacac gggcttgcgc ctcggggctt atgtgtatgt tctgtttatt catagcatac
      421 gttccatttg ctgaatcaat tgttcaccta taggcacaca atacgttcac ttttaatgaa
      481 cgtcaagtgc caccaaagtg atatatgttc actctagggg tgaacatata tgttcgccct
      541 aggggtgaac ataaggaaac aggctcaaag ccaataacga caagggttta agactgtttt
      601 tagtagttgt cccctctcta tctcataggg ggcgttgccc cctgccgcac ttcgtttggc
      661 taacccccct gtcgcttcgc tcctgaaaat gcctgccctg cgggcagaag gcttttgtta
      721 cttgcagcgg cctacggcct cgctctaagg gggcgttgcc ccctagcgcg cttcgcttgc
      781 ctcccccacg ttcgccacgt ggcagggggg caggacgggc ggcctacggc ctacttacct
      841 gccccccatg cctaagcgtg tggtcgttcc agcagcgtca agggtacggc ttcgcccacg
      901 tactcacccg ttcggtgctc gccttcggct gcgctccgcg tgcggcttcc gtgcgtgccc
      961 ttgacaccgc ttccactcaa atggaaccga acggaaaggg ggtcaaggga accgtggaat
     1021 accgcagccc caacggggcg aggatatgcc gcgaaagtcc cttgatgccc ttggagtgac
     1081 ccacgctccc gtctggggtt tgggttgtgc aggccgaagg ccggaactgc ccacacccct
     1141 gacgacagag ggcgactcgt tccccccagc ggggggcgga ggggggagaa tgcaacgagt
     1201 gaaacgaggc gcagggcgat agcccgaaga gcaagccgca ggcgctgcaa cccgcttgcg
     1261 ggtcacgatt ttacgaagta aagtctagtg agtactcttt gactccaaag aggcccgccg
     1321 gaggcactgc gttttccgtc gggatggcac cagcacagac cgagggggaa cgcatggctt
     1381 ttgcgatcat gagagcgaaa aagctcaacg gcatgggggc tgtcgcggcc tcgttgcagc
     1441 actgctaccg agaccgagac acgcccaatg ccgaccagac gcgaacggca gaaaacgaac
     1501 acagagccgc cacatcaacc gatgaggcaa tggggcgctt gcgtgagttg ctgccagaga
     1561 agcggcgcaa agatgcggtg ctggcggttg agtacgtcat gacggcatcg cccgaatggt
     1621 ggacgaaagc caccagcgaa cagcaggcgg atttcttcga ccaggcacac aagtggctgg
     1681 ccgaaaaata cggcgctgac cgcatcatca cggccaccat tcaccgcgac gagaccagcc
     1741 cacacctaag cgcgtttgtg gtgccgttga ccgctgacgg acgtttgagc gccaaggatt
     1801 tcattggcaa cagggcgaaa atgacggctg accagaccag ctttgccaaa gctgtgcagc
     1861 acctagggct tgaaaggggc atcgagcgca gcagggcaac gcataccagc atcaagcagc
     1921 attacgccgc catcgaaaag ggcaccaaag gggaagtgac catcaccccc gaagccgtcc
     1981 agccaagggt gttgaagaag gggcttttca gtcgtcagga agaaacccca gaagctgtag
     2041 cagctcgttt aaccgatgca atcaacaaag gtcatgcggg aacggttgca aatgccgctg
     2101 taagcgccca gaacgctcgt agagcgcgag aaatgcaaaa gacaatggtt gaccagcaga
     2161 agaagctaaa aacgcttcag gagccgttta aggggctttc acgcgaacag gtagcggagg
     2221 tcatcaagat ggccacaacc atgcaacggg aaaacgaagc ggccaaggcc gcgaagttgc
     2281 aacgccaaaa ggaacagcga cagcagcgac gcagccaaga cagggggttt agcagataaa
     2341 tcacttgggc agcgtgatgt gagttggcgg ctcgacgggc tcgtcaccgt ctaagaaaca
     2401 cggctctggt gtcttgtgaa agtccaattc ctcttggtct ggcggcggta gctgctcgtt
     2461 tgtcacggtg acgtcatcgt cgtgactgag gaacgggaaa tggttcaatt tcaccttgtc
     2521 ccagtcctct acgggggtgt cttgttcgtc gcttgatgcc acgatagta
//
