LOCUS       NZ_CP117175             3223 bp    DNA     circular CON 31-MAR-2024
DEFINITION  Serratia proteamaculans strain CD3406 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP117175
VERSION     NZ_CP117175.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17103453
            Assembly: GCF_019295365.2
KEYWORDS    RefSeq.
SOURCE      Serratia proteamaculans
  ORGANISM  Serratia proteamaculans
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Yersiniaceae; Serratia.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Begrem,S., Jerome,M., Leroi,F., Delbarre-Ladrat,C., Grovel,O. and
            Passerini,D.
  TITLE     Genomic diversity of Serratia proteamaculans and Serratia
            liquefaciens predominant in seafood products and spoilage potential
            analyses
  JOURNAL   Int J Food Microbiol 354, 109326 (2021)
   PUBMED   34247024
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Sauvage,T. and Passerini,D.
  TITLE     A comparison of Oxford nanopore library preparation strategies for
            multiplex bacterial genomics
  JOURNAL   Unpublished
REFERENCE   3  (bases 1 to 3223)
  AUTHORS   Sauvage,T. and Passerini,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-FEB-2023) EM3B, IFREMER, rue de l'ile d'yeu, Nantes
            44311, France
REFERENCE   4  (bases 1 to 3223)
  AUTHORS   Begrem,S., Passerini,D. and Leroi,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-DEC-2020) EM3B, IFREMER, rue de l'Ile d'Yeu, Nantes
            44311, France
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 03-FEB-2023
            Assembly Method                   :: Unicycler v. V0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 134.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019295365.2-RS_2024_03_31
            Annotation Date                   :: 03/31/2024 07:42:15
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,618
            CDSs (total)                      :: 5,500
            Genes (coding)                    :: 5,443
            CDSs (with protein)               :: 5,443
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 57
            CDSs (without protein)            :: 57
            Pseudo Genes (ambiguous residues) :: 0 of 57
            Pseudo Genes (frameshifted)       :: 16 of 57
            Pseudo Genes (incomplete)         :: 43 of 57
            Pseudo Genes (internal stop)      :: 12 of 57
            Pseudo Genes (multiple problems)  :: 9 of 57
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP117175.1.
            Bacteria and source DNA available from Collection of Ifremer_EM3B
            laboratory.
            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..3223
                     /organism="Serratia proteamaculans"
                     /mol_type="genomic DNA"
                     /strain="CD3406"
                     /isolation_source="shrimp seafood product"
                     /db_xref="taxon:28151"
                     /plasmid="unnamed7"
                     /geo_loc_name="France"
                     /collection_date="2006"
     gene            join(2962..3223,1..62)
                     /locus_tag="JET59_RS28060"
                     /old_locus_tag="JET59_028060"
     CDS             join(2962..3223,1..62)
                     /locus_tag="JET59_RS28060"
                     /old_locus_tag="JET59_028060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_004193914.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            271..>705
                     /locus_tag="JET59_RS28065"
                     /old_locus_tag="JET59_028065"
                     /pseudo=""
     CDS             271..>705
                     /locus_tag="JET59_RS28065"
                     /old_locus_tag="JET59_028065"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            740..1225
                     /locus_tag="JET59_RS28070"
                     /old_locus_tag="JET59_028070"
     CDS             740..1225
                     /locus_tag="JET59_RS28070"
                     /old_locus_tag="JET59_028070"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_025367738.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1229..1444
                     /locus_tag="JET59_RS28075"
                     /old_locus_tag="JET59_028075"
     CDS             1229..1444
                     /locus_tag="JET59_RS28075"
                     /old_locus_tag="JET59_028075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_024195375.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1612..1944
                     /locus_tag="JET59_RS28080"
                     /old_locus_tag="JET59_028080"
     CDS             1612..1944
                     /locus_tag="JET59_RS28080"
                     /old_locus_tag="JET59_028080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008784643.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="WP_001099531.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(2153..2323)
                     /locus_tag="JET59_RS28085"
                     /old_locus_tag="JET59_028085"
     CDS             complement(2153..2323)
                     /locus_tag="JET59_RS28085"
                     /old_locus_tag="JET59_028085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004193911.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="hypothetical protein"
     ARG             1613..1944
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="41.35"
                     /coverage="102.8"
     Typing          2675..2866
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="89.0"
                     /evalue="3.38e-71"
     Typing          complement(2212..2692)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          53..1542
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2963..3222
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.552"
                     /coverage="81.0"
                     /evalue="1.67e-50"
ORIGIN
        1 atgccggact cgagcggttg cggcatgccg tactggaaaa gggtgctgat gatgatcgtt
       61 aagtttcatc ctcgggggcg cggcggcggc ggcgggccgg tcgattatct gctgggtaaa
      121 gatcgccagc gcgacggcgc cagcgttctg caggggaagc cggatgaagt ccgggagctt
      181 atcgacgcct cgccctacgc caaaaagtac acttccggcg ttctgtcttt tgccgaacag
      241 gatttaccgc ccggccagcg cgaaaagctg atggcgagtt tcgagcgggt tctgatgccc
      301 ggactcgata aagaccagta cagcgtgctg tgggttgagc accgggacaa ggggcggctg
      361 gagctgaact tcctgatccc gaacacggag cttctgaccg gcaagcggct acagccgtat
      421 tacgaccgcg ccgaccgtcc gcgcatcgat gcctggcaga ccatagtgaa cggcaggctg
      481 gggctgcatg acccgaacgc gccggagaac cggcgggtgc tggtctcgcc ttccgcgctg
      541 ccggaagcga agcaggaagc cgcccaggcg attacgagcg gcctgcttgc ccttgcctca
      601 tccggggagc tgaaaacgcg tcaggacgtc actgaggcgc tggaaagcgc aggttttgag
      661 gtggtgcgca ccacaaaaag cagcatcagc attgccgacc cggacggggg gcgaaacatc
      721 cgactgaagg gagccatcta tgaacagtct tttaacgctg gcgaaggact tagagcagaa
      781 atcgaaagcg cagcagcaga ctaccggcga gatgctgaaa gccgcattca gcgagcacga
      841 gaagtctgtc agagcggaac tgagcgaaag cgagaagaga atcagcgccg ccatcctcga
      901 ccacgaccgg aagctgtcct cagccatgag ccagcgcacg aaagggatgc tgcgcatggt
      961 cagccagacg tggctgacca tcgttctggt ctccgcgctg ctgatagcgt cgagcgcggg
     1021 cattctgtgg tggcaggggc agcagatact cgagaactat acgaccatcc gggagcagaa
     1081 gagcacgcag gccatgctgt cagagaggaa cagcggcgta cagctctcga cctgcggcga
     1141 gcagagacgc cgctgcgtga gggtgaaccc ggaagcggga cagttcggag aggactcgag
     1201 ctggatgata ctggcgggga aatagcacat gacggagctg gaaaaacagt tgctgagcgc
     1261 attagagcag ctacagcagg actactcgaa aaggctggac gagtgggaga acgccttcgc
     1321 ggaatggcgg acgatgtctg gtcttattca acgggagaac gcggcgctga acgagcgcgt
     1381 cacggtcttg agcaggcagg tgcagagttt gagcgagcag ctgcgccggt tgtcgaaagg
     1441 ctgaacgcga tagaaactca ccggcagcag gagcgggcgg tgcagcacca gaaagcgctg
     1501 gagctggaac gatcgcagtg gcagcatcat ggtccttcgc tatgataagc cgggttctat
     1561 taattagttg ttatgtaaag atatttaaat ttttcaacat gaggtatttt tatgaataca
     1621 tatattttcc tgggaggggc tattgtggct gaagtcatag gcaccacctt tatgaaatat
     1681 tcagaaggat ttacacgcct gtggccgtct gtaggaactg caataagtta ttgcgctgcc
     1741 ttttatctgc tttcccaaac attggaaaat atacctaccg gtattgctta cgcaatttgg
     1801 tctggtgcgg gaattgtact aataagccta gctggttggt tggttagcgg tcaaaaactt
     1861 gattggcccg caattgcagg aatgttcctt atttgcgttg gagttttggt tattaatatt
     1921 ttttcaaaat cttctgcgca ttaacttttt accgaagcat attggccaaa gcaaaaggat
     1981 ttccttgaga tcctttcttt ctgcgcgtaa tctttttccc tgtaaacaaa aaaaccaccg
     2041 ctaccaacgg tggttcgttt gccggaattc agagctacca actctttgtt ccgatggtaa
     2101 ctggctttca cggagcgcag atacctaaac tgtcctttca gtgtagccgc actcaggctt
     2161 tcacttcaag aactctgtag gcattctcta caatctctgc tccgtgaacc cagttaccaa
     2221 tggctaccgc cactggcgat ttgtcgtgtc tttccgggtt ggactcaagt tgatagttac
     2281 cggaacgggc gtggtagtcg gactgaacgg ggggttcgtg catacagtcc atcctggagc
     2341 gaactgccta cccggaaccg agtttcaggc gtggaatgag aaaccgcggc cataacagcg
     2401 gaatgacacc ggtaaaccga aaggcaggaa tgcgggggag cacgagggag ccaccagggg
     2461 gaaacgcctg gtatctttaa gccgcatcgg gtttcgccac cgctgatttg agcgtcattt
     2521 tcgtgatact cgtcaggggg gcggagccta tggaaaaacg gcaactccgc atccttttct
     2581 tggcctttcc tgcttcgagc ggcatttgct tatcccgtaa tctgtgagct ggtaacgccc
     2641 gccgcagtct cacggcagga gcgtagcgac cgagtgagcg aggaggcgtc atttcatcac
     2701 cacctgcatt ttgcacttac gcccggcagc cgcatttttc ccctgtcaca tgaagcactt
     2761 tcataaattg ccactccgtc ataacatgtt tagccagtat acactccgct agcgctacgt
     2821 gactggttca gggctgcgcc ccgaaacccg ctaaaaccac tgccgcgcct gcggcttgtc
     2881 caacaccgtg ccgaccggga aaagatttcc cgtccgtccc ggcgttatca ggaggccgga
     2941 ttggcagaca aacgcagcaa aatgctcacc atgtgggtga ctgaggacga gcaccggcgt
     3001 ctgctggagc gctgcgaggg taagcaactc gcggcctgga tgcggcagac gtgcctggac
     3061 gagaagcccg cacgcgccgg caaacttccg tcgatctcgc cggcgctgct tcgtcagctt
     3121 gccggcatgg ggaacaacct taaccagatt gcccgccagg ttaacgccgg tggtggaagc
     3181 ggacacgacc gcgtgcagat tgtcgccgcg ctgatggcca tcg
//
