LOCUS       NZ_CP113785             4938 bp    DNA     circular CON 01-FEB-2024
DEFINITION  Citrobacter freundii strain CFSAN077772 plasmid pCFSAN077772,
            complete sequence.
ACCESSION   NZ_CP113785
VERSION     NZ_CP113785.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31929640
            Assembly: GCF_026526975.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4938)
  AUTHORS   Monte,D.F.M., Cao,G., Gonzalez-Escalona,N., Macarisin,D. and
            Magnani,M.
  TITLE     Genomic analysis of cAmpC (CMY-41)-producing Citrobacter freundii
            ST64 isolated from a patient in south of Brazil
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4938)
  AUTHORS   Gonzalez-Escalona,N. and Cao,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-NOV-2022) ORS/DM/MMSB, Food and Drug
            Administration-College Park, 5001 Campus Drive, College Park, MD
            20740-3835, USA
REFERENCE   3  (bases 1 to 4938)
  CONSRTM   GenomeTrakr network: Whole genome sequencing for foodborne pathogen
            traceback
  TITLE     Direct Submission
  JOURNAL   Submitted (29-NOV-2022) Center for Food Safety and Applied
            Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy,
            College Park, MD, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 15-NOV-2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: CFAN07772
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/01/2024 04:40:19
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,772
            CDSs (total)                      :: 4,655
            Genes (coding)                    :: 4,574
            CDSs (with protein)               :: 4,574
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 81
            CDSs (without protein)            :: 81
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 38 of 81
            Pseudo Genes (incomplete)         :: 43 of 81
            Pseudo Genes (internal stop)      :: 20 of 81
            Pseudo Genes (multiple problems)  :: 18 of 81
            Pseudo Genes (short protein)      :: 1 of 81
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP113785.1.
            Bacteria and source DNA available from Marciane Magnani.
            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..4938
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="CFSAN077772"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pCFSAN077772"
                     /geo_loc_name="Brazil"
                     /collection_date="2003"
                     /collected_by="Marciane Magnani"
     gene            complement(206..529)
                     /locus_tag="OW080_RS23815"
                     /old_locus_tag="OW080_23815"
     CDS             complement(206..529)
                     /locus_tag="OW080_RS23815"
                     /old_locus_tag="OW080_23815"
                     /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_007899679.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTAKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGVGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(1538..2824)
                     /locus_tag="OW080_RS23820"
                     /old_locus_tag="OW080_23820"
     CDS             complement(1538..2824)
                     /locus_tag="OW080_RS23820"
                     /old_locus_tag="OW080_23820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002437803.1"
                     /GO_process="GO:0006935 - chemotaxis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="WP_306170312.1"
                     /translation="MFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFLSTMGYR
                     ADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLEASYIPV
                     SDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEANENFVNA
                     TGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDPLWFRAT
                     YNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGANVIENS
                     ILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEAARAGAS
                     GRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREGVTLMRE
                     AGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            complement(3753..3968)
                     /locus_tag="OW080_RS23825"
                     /old_locus_tag="OW080_23825"
     CDS             complement(3753..3968)
                     /locus_tag="OW080_RS23825"
                     /old_locus_tag="OW080_23825"
                     /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="WP_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3975..4466)
                     /locus_tag="OW080_RS23830"
                     /old_locus_tag="OW080_23830"
     CDS             complement(3975..4466)
                     /locus_tag="OW080_RS23830"
                     /old_locus_tag="OW080_23830"
                     /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_016355729.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGRQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESNDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     Typing          complement(645..817)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="9.14e-86"
     Typing          742..1288
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.545"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(2..216)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.611"
                     /coverage="97.0"
                     /evalue="7.82e-38"
     Typing          complement(213..529)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.509"
                     /coverage="99.0"
                     /evalue="2.4500000000000008e-59"
     Typing          complement(3656..4938)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.76"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttttcccgc tggccgggag gcagatcggc ctccgcaaac gacaggacgc cggaggtgta
       61 tttcttcacg taaggcgacg cgtcgatcag ctcccggact tcttccggct tcccctgcag
      121 gacgctggcg ccttcacgct gccggtcttt acccagcaga tagtccaccg gcccggcgcc
      181 accgccgcga ccgcgtggat gaaatttaac gatcatcgtc cgttcctttc tcaagaacgg
      241 cgtgccgcag ccgctcaagc ccggcatcga tggccatcag cgccgccaca atctgcaccc
      301 ggtcatgacc ggtaccgacg ccggcgttaa cacggcgggc tatctggttc aggttgttgc
      361 ccataccggc aagctggcgc agcagcgccg gcgagatcga aggaagtttt gcggtacgag
      421 ccggcttttc gtccaggcag gtctgccgca tccacgccgc cagctgcctg ccgtcgcagc
      481 gctcaagtag ccgcctgtgc tcatcctccg tcacccacat ggtgagcatc ttgttccgtt
      541 tctctgacaa aacagtctcc tgataacccc gggacgggcg ggaaaacctt tcccggtcgg
      601 cgcggggttg gacaagccgc aggcgcgtca gtggctgtta gcgggtttcg gggcgcagcc
      661 ctgaaccagt cacgtagcgc tagcggagtg tatactggct tactatgttg gcacggatgc
      721 gaatatcagt gaagtgcttc atgtggcagg agaaaaatgc agcagcggag cgtcagcaga
      781 atatgcgata caggatatat tccgcttcct cgctcactga ctcgctgcgc tcggtcgttc
      841 ggctgcggcg agcggtaccg gcttacaggc ggggcggaaa tttcctggga gatgccagaa
      901 agaagcttaa cagggaagcg ataaggccgc ggcgaagccg tttttccata ggctccgccc
      961 ccctgacaag catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact
     1021 ataaagatac caggcgtttc cccctggtgg ctccctcgtg cgctctcctg ttcctgcctt
     1081 tcggtttacc ggtgtcattc cgctgttatg gccgcgtttg tctcattcca cgcctgacac
     1141 tcagttccgg gaaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt
     1201 ccgaccgctg cgccttatcc ggtaactatc aacttgagtc caatccggaa aaacacgaca
     1261 aagcgccact ggcagcagcc actggtaaca ggtttagagg aggagagtct tgaagtttcg
     1321 ggtgcgataa ggctacactg aaaggacagt tttggtgact gtgctcctcc aagccagtta
     1381 ccgcggttca aaagagcgtc aactcttgcg aaccttcgaa aaagccacct tgccgggtgg
     1441 ttttttcgtt ttcagagcaa gagattacga cgcaacggaa aggatctcaa gaagatcatc
     1501 tgtgatgttc gacagatatg gggatatgca ccatggctta tccggcttta actgaaatgg
     1561 cgacatcctt aaccgcagtc tcaacccctg cagcattcct ctgaatgctg gtcataactt
     1621 cacccgcttc gcgcatgagt gtaacccctt cacgagtgtt catcaggctg ttttcaatgc
     1681 cacagagaac atccttggcc agttgactat tgctggccac gacttgctca atttcttcag
     1741 tcgcgctact gacgctcgcc gcaagattac gcacttctgc ggcaacaacc gcaaaacttc
     1801 ttccggatgc gccagccctt gctgcttcaa tcgcggcatt cagtgcaata agtcttgtct
     1861 gcatggcaaa cttccggatg gtttccacca tatcgtcaat actttcagac tgattgttga
     1921 gccgtgagat atcggtggag acagccccca tcccctgcgc aattctgtca atcataagga
     1981 tgctattttc aataacattg gcaccgttct gcgcactttc tcgggtctgc acggccatat
     2041 cccatgcatg cacagcagcc tcttgctctc tctggtttcg caggacatca gccgtaacat
     2101 ctgtagcgaa tttcacaatt ttataaagct gcccatcact gttaaagaca gggttataag
     2161 ttgcacggaa ccacagaggg tctccctgac ggttaaggcg tggaaacaga ccagaaaaaa
     2221 actcaccttg attcagactc tcccagaaat gtcggtattc atcacttttg taaagcgtct
     2281 cggcacagaa cagacgatga tgcttaccta tgatttcatc ccgcttatag ccagtggcat
     2341 tgacgaaatt ttcatttgct tcaagcacga tcccttcagg attgaaggtg atgatggcca
     2401 tagaacggtt tatggcattt acgactgctt cctgctcaag agcagaatgc acgcgctcag
     2461 aaatatcggc agcaatttta atgactctga taacacggcc gcgcctgtca gaaacgggga
     2521 tataactggc ttcaagccat acggaacgat ttccctttgc cagccgcagg tacttgccac
     2581 taaagctttc tcccctggca aggcgctgcc agaactggct gtattccggt gaacttacca
     2641 gcgagggcgg gcagaatata cgatggtggt gaccgattat ttcatcagcc ctgtacccca
     2701 tagtggagag aaaaagcggg ctggctttat ttatcacccc ctccggactg aactcaatga
     2761 caggcttatt ctgacaaatt gcgtcatacg aaatggctga tcgctggagg ttcagggaga
     2821 acatattttt aagtgaaaac atatgaatca gattgcccgg ataatgtaag tactgccatg
     2881 gttatcggct actccttatg tagcgttata tattactgcg acagggcggg aaaaagcccg
     2941 ctcttcagcc atgccggcat gatgtccggc tccggatttc acgcgtaaaa aacccgccat
     3001 ctttagcggg ctgaacaata agaaaatgtt catatttacg gcaaatccgc cggctccagc
     3061 agagaagctg gcgtctatca atcttggaag aaccagcgca gctccgcatg cattaacagg
     3121 catcagaagg caaaaaaatg gctcacatcc gggagcagga aaacactcaa ctgcctggat
     3181 cgcagcacat cctttgtgaa ggataattta agtatcggcc ggattgccgc gggcataagc
     3241 ccggccggca taattttttc cgtatccgcc agacctcggc ttttaacata acaccccttg
     3301 cccgcaccgc agaaacgggg ttggctgcgt ttccggtgcc agacgcgaga aagtggcgac
     3361 agacatgacg aaaaaacacc aaaaacgcag ccgctggata ttacactgat gcatagtcat
     3421 gcagccagat gcatgcagcg taaagtcaca ctaaaatcag cgcgaacgcc ttaaaaaccg
     3481 gaaaatgcct ctccggcaac tcacacagct ccatcaccag gtaaaaacag ttcagcaggg
     3541 cttcaataac gttgagaatt ttcatcactt cctccgggat aagtcactac cattccggta
     3601 gtcagcctat ttagcaggaa cgcgatgagc ccttcttcgt gcgggctgtc acctcatctt
     3661 cggaccatcg aaactcttct gcttctgtcg gagcgtcagc tccagctcgt tctgacgctg
     3721 atactccagt gcagccttct cctcgatggc attcagttcc cggacaagcg gcgcagctgc
     3781 tcgcttaaac tcagcacctg cgtgctcaag tccgacacgc gctcgttcag caccgcgttc
     3841 tcccgttgca taagtccaca catgctccgc cattccgcga aggcgctctc ccattcgtcc
     3901 agcctttgcg agtagtcctg ctgtagctgc tctaatgcgc tcagcaactg cttttccagc
     3961 tctgtcattt tccgctactc ctgtttcagg cggatccagg tcgtcccgtc gtaggggatg
     4021 gcttcggctt gcatccccgg cggcaggata aggaacctcc ggccgtcgtt gctctcctga
     4081 tagcgtactc cccacgtccg ggcggtcatt ttcgccaggg tatcttcctg ctgacgaaga
     4141 tgtgtgtaat tgtcggttat ctgccgtccc tgccaccaca gaatgctccc gctcgtggcg
     4201 atcagcagcg ctgacaccat caggatggtg agccatgtcc tcccggccgt cagcaacacg
     4261 ctccgccggt ttttctccat cgcctcgctc atactctgct cgtgggcgct gatggcgtcg
     4321 ctgattctcc tcgcgcttgc gttcagttcc gctctgacag actgctcgtg ctcgctgaat
     4381 gcggctttca gcatctcgcc ggtactcttc tgctgcgctt tcgattgctg ctctaagtcc
     4441 ttcgccagcg ttaaaagact gctcatagat ggctcccttc agtcggatgt ttcgcccccc
     4501 gtcagggtcg gcaatgctga tactgctttt cgttgtacgc accacctcaa aacctgcacc
     4561 ttcaagagcc tcagtgacgt cctgacggct tttcagctcc ccggacgagg ctaagctcag
     4621 cagtccacgg gtgatggctt ctgcggcttc ctgcttcgtt ttcggcagtc cggccggcgt
     4681 gaccagcgcc cggcggtttt ccggcgcgtt cggatcgtgc agccccagtc tgccgttcac
     4741 gatggtctgc caggcatcga tacgcggccg gtcggcgcgg tcgtagtacg gctggagccg
     4801 cctgccggtc agcagctcgg tattggggat cagaaagttc agctccagac gccccttgtc
     4861 ctcgtgctcc acccacagaa tgctgtactg atctttatca agtccgggca tcagaacccg
     4921 ctcgaagctg gccatcag
//
