LOCUS       CP047776                4921 bp    DNA     circular BCT 10-DEC-2020
DEFINITION  Citrobacter freundii strain Cfr-13 plasmid pCfr13-3, complete
            sequence.
ACCESSION   CP047776
VERSION     CP047776.1
DBLINK      BioProject: PRJNA599404
            BioSample: SAMN13747506
KEYWORDS    .
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4921)
  AUTHORS   Kohler,P., Tijet,N., Kim,H.C., Johnstone,J., Edge,T., Patel,S.N.,
            Seah,C., Willey,B., Coleman,B., Green,K., Armstrong,I., Katz,K.,
            Muller,M.P., Powis,J., Poutanen,S.M., Richardson,D., Sarabia,A.,
            Simor,A., McGeer,A. and Melano,R.G.
  CONSRTM   Toronto Invasive Bacterial Diseases Network (TIBDN)
  TITLE     Dissemination of Verona Integron-encoded Metallo-beta-lactamase
            among clinical and environmental Enterobacteriaceae isolates in
            Ontario, Canada
  JOURNAL   Sci Rep 10 (1), 18580 (2020)
   PUBMED   33122675
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4921)
  AUTHORS   Melano,R.G., Tijet,N. and Seah,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JAN-2020) Research, Public Health Ontario, 661
            University Avenue, Toronto, Ontario M5G 1M1, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v 0.4.8-BETA
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina MiSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 01/14/2020 17:27:56
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.10
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,084
            CDSs (total)                      :: 4,968
            Genes (coding)                    :: 4,844
            CDSs (with protein)               :: 4,844
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 34 of 124
            Pseudo Genes (incomplete)         :: 83 of 124
            Pseudo Genes (internal stop)      :: 18 of 124
            Pseudo Genes (multiple problems)  :: 10 of 124
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4921
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="Cfr-13"
                     /isolation_source="Rectal"
                     /db_xref="taxon:546"
                     /plasmid="pCfr13-3"
                     /geo_loc_name="Canada:Ontario"
                     /lat_lon="43.6532 N 79.3832 W"
                     /collection_date="21-Dec-2015"
                     /collected_by="Public Health Ontario"
     gene            185..529
                     /gene="mobC"
                     /locus_tag="GVI61_25400"
     CDS             185..529
                     /gene="mobC"
                     /locus_tag="GVI61_25400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="QPO99860.1"
                     /translation="MSEKRNKMLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPAR
                     TGKLPSISPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHA
                     VLEKGTDDDR"
                     /name="mobC"
     gene            468..1232
                     /locus_tag="GVI61_25405"
                     /pseudo=""
     CDS             468..1232
                     /locus_tag="GVI61_25405"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; 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            1207..1698
                     /locus_tag="GVI61_25410"
     CDS             1207..1698
                     /locus_tag="GVI61_25410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015060400.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="QPO99861.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="mobilization protein"
     gene            1705..1920
                     /gene="mbeD"
                     /locus_tag="GVI61_25415"
     CDS             1705..1920
                     /gene="mbeD"
                     /locus_tag="GVI61_25415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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="QPO99862.1"
                     /translation="MTELEKQLLSVLEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="mbeD"
     gene            2816..4120
                     /locus_tag="GVI61_25420"
     CDS             2816..4120
                     /locus_tag="GVI61_25420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013357653.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing protein"
                     /protein_id="QPO99863.1"
                     /translation="MFSLKNMFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFL
                     STMGYRADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLE
                     ASYIPVSDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEAN
                     ENFVNATGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDP
                     LWFRATYNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGA
                     NVIENSILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEA
                     ARAGASGRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREG
                     VTLMREAGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing protein"
     Typing          2..93
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.925"
                     /coverage="100.0"
                     /evalue="4.5299999999999997e-39"
     Typing          4842..4921
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.765"
                     /coverage="100.0"
                     /evalue="2.12e-32"
     Typing          complement(4371..4917)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.727"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          520..2018
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.297"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cacttcactg atattcgcat ccgtgccaat atagtaagcc agtatacact ccgctagcgc
       61 tacgtgactg gttcagggct gcgccccgaa acccgccaaa agcctgacgc gcctgcggct
      121 tgtccaaccc cgcgccgacc gggaaaggct ttcccgcccg tcccggcgtt atcaggaggc
      181 cggtttgtca gagaaacgga acaagatgct caccatgtgg gtgacggagg acgagcaccg
      241 gcggctgctt gagcgctgtg acggcaggca gctggcggcg tggatgcggc agacctgcct
      301 ggacgaaaaa cctgcgcgca ccggaaagct cccctcaatc tcgccggcgc tgctgcgcca
      361 gcttgccggc atggggaata acctgaacca gatagcccgc cgtgttaacg ccggcggcgg
      421 caccggccat gacagggtgc agattgtggc ggcgctgatg gccatcgatg ccgggcttga
      481 gcggctgcgg cacgccgttc ttgagaaagg aacggacgat gatcgttaaa tttcatccac
      541 gtggccgcgg cggtggcgcc gggccggtgg actatctgct gggtaaagac cggcagcgtg
      601 aaggcgccag cgtcctgcag gggaagccgg aagaagtccg ggagctgatt gacgcgtcgc
      661 cttacgtgaa gaaatacacc tccggcgtcc tgtcgtttgc ggaggccgat ctgcctcccg
      721 gccagcggga aaaactgatg gccagcttcg agcgggttct gatgcccgga cttgataaag
      781 atcagtacag cattctgtgg gtggagcacg aggacaaggg gcgtctggag ctgaactttc
      841 tgatccccaa taccgagctg ctgaccggca ggcggctcca gccgtactac gaccgcgccg
      901 accggccgcg tatcgatgcc tggcagacca tcgtgaacgg cagactgggg ctgcacgatc
      961 cgaacgcgcc ggaaaaccgc cgggcgctgg tcacgccggc cggactgccg aaaacgaagc
     1021 aggaagccgc agaagccatc acccgtggac tgctgagctt agcctcgtcc ggggagctga
     1081 aaagccgtca ggacgtcact gaggctcttg aaggtgcagg ttttgaggtg gtgcgtacaa
     1141 cgaaaagcag tatcagcatt gccgaccctg acggggggcg aaacatccga ctgaagggag
     1201 ccatctatga gcagtctttt aacgctggcg aaggacttag agcagcaatc gaaagcgcag
     1261 cagaagagta ccggcgagat gctgaaagcc gcattcagcg agcacgagca gtctgtcaga
     1321 gcggaactga acgcaagcgc gaggagaatc agcgacgcca tcagcgccca cgagcagagt
     1381 atgagcgagg cgatggagaa aaaccggcgg agcgtgttgc tgacggccgg gaggacatgg
     1441 ctcaccatcc tgatggtgtc agcgctgctg atcgccacga gcgggagcat tctgtggtgg
     1501 caggggcagc agataaccga caattacacg catcttcgtc agcaggaaga taccctggcg
     1561 aaaatgaccg cccggacgtg gggagtgcgc tatcaggaga gcagcgacgg ccggaggttt
     1621 cttatcctgc cgccggggat gcaagccgaa gccatcccct acgacgggac gacatggatc
     1681 cgcctgaaac aggagtagcg gaaaatgaca gagctggaaa agcagttgct gagcgtatta
     1741 gagcagctac agcaggacta ctcgcaaagg ctggacgaat gggagagcgc cttcgcggaa
     1801 tggcggagca tgtgtggtct tatgcaacgg gagaacgcgg tgctgaacga gcgcgtgtcg
     1861 gacttgagca cgcaggtgct gagtttaagc gagcagctgc gccgcttgtc cgggaactga
     1921 atgccatcga ggagaaggct gcactggagt atcagcgtca gaacgagctg gagctgacgc
     1981 tccgacagaa gcagaagagt ttcgatggtc cgaagatgag gtgacagccc gcacgaagaa
     2041 gggctcatcg cgttcctgct aaataggctg actaccggaa tggtagtgac ttatcccgga
     2101 ggaagtgatg aaaattctca acgttattga agccctgctg aactgttttt acctggtgat
     2161 ggagctgtgt gagttgccgg agaggcattt gccggttttt aaggcgttcg cgctgatttt
     2221 agtgtgactt tacgctgcat gcatctggct gcatgactat gcatcagtgt aatatccagc
     2281 ggctgcgttt ttggtgtttt ttcgtcatgt ctgtcgccac tttctcgcgt ctggcaccgg
     2341 aaacgcagcc aaccccgttt ctgcggtgcg ggcaaggggt gttatgttaa aagccgaggt
     2401 ctggcggata cggaaaaaat tatgcccgcg gcaatccggc cgatacttaa attatccttc
     2461 acaaaggatg tgctgcgatc caggcagttg agtgttttcc ggctcccgga tgggagccat
     2521 ttttttgcct tctgatgcct gttaatgcat gcggagctgc gctggttctt ccaagattga
     2581 tagacgccag cttctctgct ggagccggcg gatttgccgt aaatatgaac attttcttat
     2641 tgttcagccc gctaaagatg gcgggttttt tacgcgtgaa atccggagcc ggacatcatg
     2701 ccggcatggc tgaatagcgg gctttttccc gccctgtcgc agtaatatat aacgctacat
     2761 aaggagtagc cgataaccat ggcagtactt acattatccg ggcaatctga ttcatatgtt
     2821 ttcacttaaa aatatgttct ccctgaacct ccagcgatca gccatttcgt atgacgcaat
     2881 ttgtcagaat aagcctgtca ttgagttcag tccggagggg gtgataaata aagccagccc
     2941 gctttttctc tccactatgg ggtacagggc tgatgaaata atcggtcacc accatcgtat
     3001 attctgcccg ccctcgctgg taagttcacc ggaatacagc cagttctggc agcgccttgc
     3061 caggggagaa agctttagtg gcaagtacct gcggctggca aagggaaatc gttccgtatg
     3121 gcttgaagcc agttatatcc ccgtttctga caggcgcggc cgtgttatca gagtcattaa
     3181 aattgctgcc gatatttctg agcgcgtgca ttctgctctt gagcaggaag cagttgtaaa
     3241 tgccataaac cgttctatgg ccatcatcac cttcaatcct gaagggatcg tgcttgaagc
     3301 aaatgaaaat ttcgtcaatg ccactggcta taagcgggat gaaatcatag gtaagcatca
     3361 tcgtctgttc tgtgccgaga cgctttacaa aagtgatgaa taccgacatt tctgggagag
     3421 tctgaatcaa ggtgagtttt tttctggtct gtttccacgc cttaaccgtc agggagaccc
     3481 tctgtggttc cgtgcaactt ataaccctgt ctttaacagt gatgggcagc tttataaaat
     3541 tgtgaaattc gctacagatg ttacggctga tgtcctgcga aaccagagag agcaagaggc
     3601 tgctgtgcat gcatgggata tggccgtgca gacccgagaa agtgcgcaga acggtgccaa
     3661 tgttattgaa aatagcatcc ttatgattga cagaattgcg caggggatgg gggctgtctc
     3721 caccgatatc tcacggctca acaatcagtc tgaaagtatt gacgatatgg tggaaaccat
     3781 ccggaagttt gccatgcaga caagacttat tgcactgaat gccgcgattg aagcagcaag
     3841 ggctggcgca tccggaagaa gttttgcggt tgttgccgca gaagtgcgta atcttgcggc
     3901 gagcgtcagt agcgcgactg aagaaattga gcaagtcgtg gccagcaata gtcaactggc
     3961 caaggatgtt ctctgtggca ttgaaaacag cctgatgaac actcgggaag gggttacact
     4021 catgcgcgaa gcgggtgaag ttatgaccag cattcagagg aatgctgcag gggttgagac
     4081 tgcggttaag gatgtcgcca tttcagttaa agccggatag gccatggtgc atatccccat
     4141 atctgtcgaa catcacagat gatcttcttg agatcctttc cgttgcgtcg taatctcttg
     4201 ctctgaaaac gaaaaaacca cccggcaagg tggctttttc gaaggttcgc aagagttgac
     4261 gctcttttga accgcggtaa ctggcttgga ggagcacagt caccaaaact gtcctttcag
     4321 tgtagcctta tcgcacccga aacttcaaga ctctcctcct ctaaacctgt taccagtggc
     4381 tgctgccagt ggcgctttgt cgtgtttttc cggattggac tcaagttgat agttaccgga
     4441 taaggcgcag cggtcggact gaacgggggg ttcgtgcata cagtccagct tggagcgaac
     4501 tgccttcccg gaactgagtg tcaggcgtgg aatgagacaa acgcggccat aacagcggaa
     4561 tgacaccggt aaaccgaaag gcaggaacag gagagcgcac gagggagcca ccagggggaa
     4621 acgcctggta tctttatagt cctgtcgggt ttcgccacca ctgatttgag cgtcagattt
     4681 cgtgatgctt gtcagggggg cggagcctat ggaaaaacgg cttcgccgtg gccttatcgc
     4741 ttccctgtta agcttctttc tggcatctcc caggaaattt ccgccccgcc tgtaagccgg
     4801 taccgctcgc cgcagccgaa cgaccgagcg cagcgagtca gtgagcgagg aagcggaata
     4861 tatcctgtat cacatattct gctgacgctc cgctgctgca tttttctcct gccacatgaa
     4921 g
//
