LOCUS       NZ_CP071269             3030 bp    DNA     circular CON 04-JUN-2024
DEFINITION  Citrobacter freundii strain MEI002 plasmid p4, complete sequence.
ACCESSION   NZ_CP071269
VERSION     NZ_CP071269.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18062620
            Assembly: GCF_023612475.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3030)
  AUTHORS   Brilhante,M., Rohrbach,H., Endimiani,A., Schuller,S. and Perreten,V.
  TITLE     Promiscuous carbapenemase-containing plasmid spreads in three
            different Enterobacteriaceae species in the outdoor areas of a
            veterinary clinic
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3030)
  AUTHORS   Brilhante,M. and Perreten,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-FEB-2021) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern, Bern 3012,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023612475.1-RS_2024_06_04
            Annotation Date                   :: 06/04/2024 06:22:37
            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)                     :: 4,826
            CDSs (total)                      :: 4,706
            Genes (coding)                    :: 4,639
            CDSs (with protein)               :: 4,639
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 67
            CDSs (without protein)            :: 67
            Pseudo Genes (ambiguous residues) :: 0 of 67
            Pseudo Genes (frameshifted)       :: 21 of 67
            Pseudo Genes (incomplete)         :: 42 of 67
            Pseudo Genes (internal stop)      :: 13 of 67
            Pseudo Genes (multiple problems)  :: 8 of 67
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071269.1.
            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..3030
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="MEI002"
                     /isolation_source="Outdoors environment of a veterinary
                     clinic"
                     /db_xref="taxon:546"
                     /plasmid="p4"
                     /geo_loc_name="Switzerland:Bern"
                     /collection_date="2019-08"
                     /genotype="ST22"
     gene            complement(969..1481)
                     /locus_tag="J0G25_RS24090"
                     /old_locus_tag="J0G25_24015"
     CDS             complement(969..1481)
                     /locus_tag="J0G25_RS24090"
                     /old_locus_tag="J0G25_24015"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_053507525.1"
                     /translation="MTKVTVDYPSSISRRKLSNLFNHSPFMLSLVHDMCDSQAIVLAAM
                     CEGKCVTSAGNRIEADYEVTKLAAVIDVLENKFYLPVSRVKIPTASDTGGGTIQAKYLI
                     TENDMQLLLEDPESVVLTRERLALSKLKSRDERCLKRLVSVHGYDEVFRSLQALDVAND
                     SFGRDCG"
                     /name="hypothetical protein"
     gene            2497..2685
                     /locus_tag="J0G25_RS24095"
                     /old_locus_tag="J0G25_24020"
     CDS             2497..2685
                     /locus_tag="J0G25_RS24095"
                     /old_locus_tag="J0G25_24020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_053507524.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDMLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2733..2933)
                     /locus_tag="J0G25_RS24100"
                     /old_locus_tag="J0G25_24025"
     CDS             complement(2733..2933)
                     /locus_tag="J0G25_RS24100"
                     /old_locus_tag="J0G25_24025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048230212.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAFMFEAYRHIVSDTNQAR
                     RSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          complement(109..282)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.571"
                     /coverage="100.0"
                     /evalue="1.23e-64"
     Typing          206..751
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.364"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 tccaaacgtt aacatcacag gtaaacagaa acgtcgggtc gatcgggaaa ttctttcccg
       61 gacggcgcgg ggttgggcaa gccgcaggcg cgtcagtgct tttagcgggt gtcggggcgc
      121 agccctgaac cagtcacgta gcgctagcgg agtgtatact ggcttaatat gtcgacacgg
      181 atgcggaggt cagtgaagtg cttcatgtgg aaggaggaaa aaggcagcac cggcgcgtca
      241 gcagaatata cgagacagga gatattccgc ttcctcgctc actgactcgc tgcgctcggt
      301 cgttcggctg cggcgagcgg tgtgggctta caaactgggc ggaaatttcc tagaggatgc
      361 cagggcgata cttagcaaag aagaagcaag gccacggcgt tgccgttttt ccataggctc
      421 cgcccccctg acaagcatca cgaaatctga cgctcaaatc agtggtggcg aaacccgaca
      481 ggacttaaag ataccaggcg tttccccctg gtggctccct cgtgcgctct cctgttcctg
      541 cctttcggtt taccggtgtc actccgctgt tatggccgcg gtttctcatt ccacgcctga
      601 cactcggttc cgggaaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc
      661 agtccgaccg ctgcgcctgt tccggtaact ttcgacttga atccaatccg gatagacacg
      721 gcaaagcgcc aatggcagcg gccattggta actgggcaaa gggatgagtc ttgatgtgat
      781 agccatattg cggctaaact ggagatactt gttttggtga ctcgtcgccc ttacgacagt
      841 tacccggttc aaaaacttgc ccgtttgttg aaccttgaaa aagccacctt gccgggtggc
      901 ttttttcttt ctaacgtcaa acgttaaacg gccatgcttt aaacgtcaat tcattgccgt
      961 ttaaagcatt acccgcaatc tcgaccaaaa gaatcattag ctacatctaa cgcctgtagt
     1021 gatcgaaaaa cttcatcata accgtgaacg gacaccaaac gttttaaaca acgttcatct
     1081 cgacttttta acttagaaag agccaatctc tctcgcgtca aaaccactga ttccggatct
     1141 tccagcaaca gctgcatatc attttccgta atgagatatt tagcttggat agttccacct
     1201 ccagtatccg acgcggtggg aatcttcacg cgtgatacag gcaggtaaaa cttattttcc
     1261 agaacatcaa tgaccgcagc cagcttagtt acttcgtagt ctgcttcaat ccggttcccc
     1321 gcacttgtta cgcatttccc ttcacacatg gcagcaagaa caatagcttg agagtcacac
     1381 atgtcatgaa caagagacaa cataaacggg gagtgattga acagatttga aagcttacgg
     1441 cgggagatag aagaaggata atcgacagtt actttagtca tgattcacct ccacgccact
     1501 aaagatagcg gacggaacct tgcggcacgt gaaggagata tagctaacat cccccggatg
     1561 agggatcgag attgtattac acattttggc accttgacct tgcggtccgt gaagaagatt
     1621 aaggttattt gctaacgggg catgagctgg taaggctcgc aaactggtaa ggtctgccgt
     1681 tgcgcctatt ctaacacgat caccatattg aagagcaatt aatgcgctga tgaatcgagg
     1741 atttttgaca caaaaaaacc cgcctcttca cgattagcgg gttctcttgt gaaggtttca
     1801 ccttcttaag aagccatctc aagcttcgac aaatagccac cacagctacc tgcctatgtt
     1861 ttttaattgc cagccaccac agccagcgcc agggatagta attctaacga gggatcccgt
     1921 aaacagtgtt taaaaaacca gccatcagac caacagcagc atcgagagca gcctgtaaaa
     1981 cccccactgt acggcaccaa acgctgccta agacattatc tacacaaaaa cctagtcata
     2041 ggttcaccaa taatttaaag ccgtttaaat cagtttgaag ccgtttagag catatataaa
     2101 ttgtttagtg ttttttccta ttgaaaggat cccaatcgat cggtgtagtt tataggttta
     2161 caaatagtct ttgtttaaca ataaattaaa taaataaaga aggatcgatg aggatctctg
     2221 gtgtatcgat ctatcaggtt cctacttgat gaatcacgta ggaagaaact acgacacaag
     2281 ctcgggaaag taacttttaa cataacatcc gttgcccgca ccgcctcaga ggctctcagg
     2341 gcgtttctga ggcctccggc ctgaaacata cacctttctg tgcccatatc gagaaaaaac
     2401 gcccctgatg atttctgcgt acctgcatgg ctatgcactc aagtgaatga agtaagattt
     2461 cagtctgcga tcaccataaa accgggaaaa agccgtatga caaaacagga atcagccgca
     2521 ctgaacatgg caaaatttat ccgggcgcag tcgctgctgc tgctcgaaaa actcgacatg
     2581 ctcgatcttg atgacgaggc agccgactgt gagcgaatgc acgaacaggc tgaagcgctt
     2641 tatcagaagc tgagcgcacg cttcggtata caggacggcg aataaagaga cgaaaagaac
     2701 gctcacttag acgaaaagcg tatccagggc aactatgtat atccaccgtg tacatagtca
     2761 tgcctgacgc tttcgagcag gtcgagcatg taggaacgac gagcttgatt ggtatcggac
     2821 acaatatggc gatacgcctc aaacataaaa gcacccgcat caccgcccga acggcgaagc
     2881 atagcggaaa tcatccgcac aaagagcaga cgttcatcgg ggcaaaggtt cataagttct
     2941 cctggtgaaa aaccaaacat gaagcaccca tctattaacg tcagctgtga acgcttcatt
     3001 agaagaaaat aggtaaaccc gggaaaaaga
//
