LOCUS       NZ_CP130114             2569 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Schwarzengrund strain SE
            CVM-11 plasmid unnamed1, complete sequence.
ACCESSION   NZ_CP130114
VERSION     NZ_CP130114.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35361195
            Assembly: GCF_030505935.1
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  JOURNAL   Unpublished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                   :: 35.6x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 12:16:19
            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)                     :: 4,954
            CDSs (total)                      :: 4,832
            Genes (coding)                    :: 4,674
            CDSs (with protein)               :: 4,674
            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)       :: 78 of 158
            Pseudo Genes (incomplete)         :: 105 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
            CP130114.1.
            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="SE CVM-11"
                     /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(1840..2569,1..236))
                     /gene="mobV"
                     /locus_tag="QPE04_RS24765"
                     /old_locus_tag="QPE04_24765"
     CDS             complement(join(1840..2569,1..236))
                     /gene="mobV"
                     /locus_tag="QPE04_RS24765"
                     /old_locus_tag="QPE04_24765"
                     /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            1197..1838
                     /locus_tag="QPE04_RS24770"
                     /old_locus_tag="QPE04_24770"
     CDS             1197..1838
                     /locus_tag="QPE04_RS24770"
                     /old_locus_tag="QPE04_24770"
                     /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          complement(4..236)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.026"
                     /coverage="98.0"
                     /evalue="6.2799999999999995e-40"
     Typing          complement(2231..2568)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.575"
                     /coverage="98.0"
                     /evalue="9.200000000000001e-71"
ORIGIN
        1 gatgccgtca tgacgtactc aaccgccagc accgcatctt tgcgccgctt ctctggcagc
       61 aactcacgca agcgccccat tgcctcatcg gttgatgtgg cggctctgtg ttcgttttct
      121 gccgttcgcg tctggtcggc attgggcgtg tctcggtctc ggtagcagtg ctgcaacgag
      181 gccgcgacag cccccatgcc gttgagcttt ttcgctctca tgatcgcaaa agccatgcgt
      241 tccccctcgg tctgtgctgg tgccatcccg acggaaaacg cagtgcctcc ggcgggcctc
      301 tttggagtca aagagtactc actagacttt acttcgtaaa atcgtgaccc gcaagcgggt
      361 tgcagcgcct gcggcttgct cttcgggcta tcgccctgcg cctcgtttca ctcgttgcat
      421 tctcccccct ccgccccccg ctggggggaa cgagtcgccc tctgtcgtca ggggtgtggg
      481 cagttccggc cttcggcctg cacaacccaa accccagacg ggagcgtggg tcactccaag
      541 ggcatcaagg gactttcgcg gcatatcctc gccccgttgg ggctgcggta ttccacggtt
      601 cccttgaccc cctttccgtt cggttccatt tgagtggaag cggtgtcaag ggcacgcacg
      661 gaagccgcac gcggagcgca gccgaaggcg agcaccgaac gggtgagtac gtgggcgaag
      721 ccgtaccctt gacgctgctg gaacgaccac acgcttaggc atggggggca ggtaagtagg
      781 ccgtaggccg cccgtcctgc ccccctgcca cgtggcgaac gtgggggagg caagcgaagc
      841 gcgctagggg gcaacgcccc cttagagcga ggccgtaggc cgctgcaagt aacaaaagcc
      901 ttctgcccgc agggcaggca ttttcaggag cgaagcgaca ggggggttag ccaaacgaag
      961 tgcggcaggg ggcaacgccc cctatgagat agagagggga caactactaa aaacagtctt
     1021 aaacccttgt cgttattggc tttgagcctg tttccttatg ttcaccccta gggcgaacat
     1081 atatgttcac ccctagagtg aacatatatc actttggtgg cacttgacgt tcattaaaag
     1141 tgaacgtatt gtgtgcctat aggtgaacaa ttgattcagc aaatggaacg tatgctatga
     1201 ataaacagaa catacacata agccccgagg cgcaagcccg tgtaaggcaa caagagcttg
     1261 cagaacaaga cgaagcagct aagcgagcga agaagaatta caacttcgtg cagattgaaa
     1321 aacgagcctt gcggcttgtt cgtgagctgt acgaagccaa cccagcagct ggcaaattgc
     1381 tgttcatact ggccgaaaaa atgaacagac aaaacgcttt ggtttgcagc tatgacacca
     1441 tgtcaaagat cacaggacta ggcagaacaa cgctctacaa ggccgtgaaa tacctcaaag
     1501 aacacaattg ggttgaagtc attaaggtgg gtacagctaa cgcttatgtc atcaattccc
     1561 gcgtgttctg gcagtctcac ggcgataaaa aactaacggt cttccacgct actatcgtgg
     1621 catcaagcga cgaacaagac acccccgtag aggactggga caaggtgaaa ttgaaccatt
     1681 tcccgttcct cagtcacgac gatgacgtca ccgtgacaaa cgagcagcta ccgccgccag
     1741 accaagagga attggacttt cacaagacac cagagccgtg tttcttagac ggtgacgagc
     1801 ccgtcgagcc gccaactcac atcacgctgc ccaagtgatt tatctgctaa accccctgtc
     1861 ttggctgcgt cgctgctgtc gctgttcctt ttggcgttgc aacttcgcgg ccttggccgc
     1921 ttcgttttcc cgttgcatgg ttgtggccat cttgatgacc tccgctacct gttcgcgtga
     1981 aagcccctta aacggctcct gaagcgtttt tagcttcttc tgctggtcaa ccattgtctt
     2041 ttgcatttct cgcgctctac gagcgttctg ggcgcttaca gcggcatttg caaccgttcc
     2101 cgcatgacct ttgttgattg catcggttaa acgagctgct acagcttctg gggtttcttc
     2161 ctgacgactg aaaagcccct tcttcaacac ccttggctgg acggcttcgg gggtgatggt
     2221 cacttcccct ttggtgccct tttcgatggc ggcgtaatgc tgcttgatgc tggtatgcgt
     2281 tgccctgctg cgctcgatgc ccctttcaag ccctaggtgc tgcacagctt tggcaaagct
     2341 ggtctggtca gccgtcattt tcgccctgtt gccaatgaaa tccttggcgc tcaaacgtcc
     2401 gtcagcggtc aacggcacca caaacgcgct taggtgtggg ctggtctcgt cgcggtgaat
     2461 ggtggccgtg atgatgcggt cagcgccgta tttttcggcc agccacttgt gtgcctggtc
     2521 gaagaaatcc gcctgctgtt cgctggtggc tttcgtccac cattcgggc
//
