LOCUS       CP056295                3976 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Citrobacter freundii strain RHBSTW-00857 plasmid pRHBSTW-00857_3,
            complete sequence.
ACCESSION   CP056295
VERSION     CP056295.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148717
KEYWORDS    .
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3976)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 3976)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP5 T3-00857
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 161.140534995879x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 22:07:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,792
            CDSs (total)                      :: 4,677
            Genes (coding)                    :: 4,576
            CDSs (with protein)               :: 4,576
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 101
            CDSs (without protein)            :: 101
            Pseudo Genes (ambiguous residues) :: 0 of 101
            Pseudo Genes (frameshifted)       :: 36 of 101
            Pseudo Genes (incomplete)         :: 66 of 101
            Pseudo Genes (internal stop)      :: 19 of 101
            Pseudo Genes (multiple problems)  :: 17 of 101
            ##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..3976
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00857"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:546"
                     /plasmid="pRHBSTW-00857_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3765..3976,1..103))
                     /locus_tag="HV300_23940"
     CDS             complement(join(3765..3976,1..103))
                     /locus_tag="HV300_23940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006219262.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pentapeptide MXKDX repeat protein"
                     /protein_id="QLT06853.1"
                     /translation="MFISTSYAENMTSETKLETAKDGMSKDGMSKDGMSKDGMSKDEMS
                     KDEMSKDGMSKDGMSKDGMSKDGMSKDGMSKDEMSKDGMSKDEMSKDGMSKDEMSKDGM
                     "
                     /name="pentapeptide MXKDX repeat protein"
     gene            complement(827..1213)
                     /locus_tag="HV300_23945"
     CDS             complement(827..1213)
                     /locus_tag="HV300_23945"
                     /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="QLT06854.1"
                     /translation="MRISNVEWLKKRIGFIRKLGEKTTRQRQIIDLLDDEASLSETDRR
                     LLHVLATAEKNELQEQDAAQKKAVQARISGQKNRRERNHKLFLAAGLMIDAGLVDTKTG
                     ELNFDSEKLLTALKRVRCDLETSV"
                     /name="hypothetical protein"
     gene            1381..2316
                     /locus_tag="HV300_23950"
     CDS             1381..2316
                     /locus_tag="HV300_23950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QLT06856.1"
                     /translation="MATYHLSVKFGGKGKALAHANYITREDKFSQRKDLEHTEHGNMPE
                     WAKDDPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLELVRDFVKQETGGQHTYS
                     FAIHNPQASIDGGEQPHAHIMMSQRVDDGIKRSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKAQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     gene            2319..2849
                     /locus_tag="HV300_23955"
     CDS             2319..2849
                     /locus_tag="HV300_23955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLT06855.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVQKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="hypothetical protein"
     Typing          3582..3737
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
     Typing          1382..2313
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.678"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acattccgtc cttagacatt ccgtctttag acattccgtc cttagctgtc tcaagtttgg
       61 tttctgaagt catattttct gcataagagg tagaaataaa cattgaaata gagccaagta
      121 gtagaattgg gattaatttt ttcaaaacat attccttttt ttatgaatgt tctttcttag
      181 agtgtttttt ttggaaaaag ttcagtcata aaaaacctaa tgccccaatg tggtactaat
      241 caaaacggag cgaagcgaca gcatcttcct gtctttgctt ttctccatga tcggtgattg
      301 ggtcatggct tcttagcgtg ttcctctggc taagtctggt acttctggtt aggttgggtt
      361 tctttcgacg gagcaatcca agaaatccct agtccgttga ttgatgctct tatcaggtac
      421 gcactgtaat ctttcgatac cgcagcgtga ttcggaggca gagccggaat ttcgttttcc
      481 ggtacgtttt actaccacaa tttgcctgtt tatcctttcg gagaccgggc taagtccgag
      541 tcaatcaagt ggtgcatttg agttaatgtc gttgaatggt tttaaggaag tagtgacaag
      601 ctagcttccc attgctaaga ttggattgtc taggtctgat cttagcaacg aatgcaccga
      661 atcagattag cagagccgga gtgatgtcac aatcatttcg gctctgcgct ttctgaactt
      721 aagcaaaaaa tcccctcgta tttcaatctg caacgctcgc cgcaagatgc aaactggttt
      781 tgcatcgagg aagcgtcata tcactgaatc cttgcagaat gcacggtcac accgatgttt
      841 ccagatcaca gcgtacccgt ttcagcgcgg tcagtaattt ttcagagtca aaattcaact
      901 cacccgtttt tgtatcaacc agtcccgcgt caatcatcag tccggcagcc aagaacagtt
      961 tgtgattacg ttccctgcgg tttttctgac ctgaaatccg tgcctgaacc gcctttttct
     1021 gcgcggcatc ctgttcctgc aactcgtttt tttcagcggt tgccagaacg tggagcagtc
     1081 gcctgtcagt ctcactgagc gaagcctcat catccagcag gtcgataatc tgccgttgcc
     1141 gtgttgtttt ctcccccagt tttctgatga agcctatgcg ctttttaagc cattcgacgt
     1201 tactgatccg catcgtttaa cttccccatc ccgatatttc cgatggtgaa agtatataac
     1261 ttgcggtcag aagtcgcatg acttatcttt actcataatt cttcaaatta gagtaaagcg
     1321 cacttatatg tttctccctg cgggcagaaa cacgtgcgta aaaccaaggg caaaaacatc
     1381 atggcaacct atcatctcag cgtgaaattt ggcggcaagg gtaaagccct tgctcatgcc
     1441 aattacatca cgcgggaaga taagttcagt cagcgaaaag atctcgaaca caccgagcac
     1501 ggcaatatgc cggaatgggc gaaagatgac cccgcccatt tctggcaggc tgcggatgcg
     1561 ttcgaacgtg ccaacggttc aacgtaccgg gaaatcgaga tagcactacc ccgtgaactg
     1621 aacgaagcgc agcggctgga gcttgtcagg gattttgtga agcaggaaac gggcggtcaa
     1681 catacgtatt cgtttgcgat tcacaatccg caagccagca ttgacggcgg cgaacagccg
     1741 cacgcccata tcatgatgag ccagcgtgtt gatgacggta ttaagcgcag cccagagcag
     1801 tatttcaggc gctataacgc caaatttccg gcgcgtggcg gcgcgcgcaa ggactcaggg
     1861 cataatttaa cccctacaga acaaaaacag gcactgaaag ccctgcggga gcgctgggag
     1921 cgtacgcaca acgcgcatat gaaacgatat ggctttgagc agggttttat tgatagccgg
     1981 tcactgaaag cacagggtat agaccggaaa ccggaacagc atctcggttt tgaagcagcc
     2041 ggacgactgg acgacagcca gaggcaggat attaaagaca gccggacgtt ttcagtcgtg
     2101 gatgtgcctg aacaggcgaa gcatatcgac cacagcgacc gtagctggat gaatgccagc
     2161 ggtatcgagg taaaccggaa ggaactggtc agatctctga cgcatgatat ctcgcagcag
     2221 tacgggcggg agatggctgc acgggtcaca aaacagggaa atgttgaaat agagcgcgtg
     2281 aaatccctgt cacgcggatt ttccataagc aggtaactat ggcgagcacc gaagaaaaac
     2341 ttctcacact cctgctgtcg gcggagcatc tgaaagaggc cgcaaaagag cagcagaaag
     2401 ccgtggcgga ttcgctggcg gtggcaaggg aaaccctgaa aggctaccgg gaaatatcag
     2461 acagtgtggc acagcaggta cgggatgaag tccggcagga agtgcagaaa atggatgttg
     2521 cggggctgat tggcgagcgt atcagcgctg attttcagcg tctggaaaaa tccgtcggga
     2581 acatgaaaat caatgcggac gcgctggaca aggaaatttc cattatccgc agcaatatca
     2641 tcgcggagta caacacgctg cggggttaca gctggaagtg gtttgcaggg gttgcggttg
     2701 cctttgtcgt actgatattt gccacaagct ggtttgtgaa aacggaacta caggacaatt
     2761 acaacgcgtc tgctgccgtc tatcagaaag tggcagacct tgaaaagctg ctgacaacgg
     2821 aacagaaacc ggaaaagaaa aagaactgac gcgctgcgct tgtccaacgc ctcacgttcg
     2881 cacaataaat tgcgcacccg ttcaccgttt tcagccgggt ttggggcgtc ttttgagact
     2941 tccggcctga attcaggccg gaagttctcg ccagtcagtc aggtgcatgg ttatgcatgg
     3001 ggctgaaaat cacggtatgc gattctgagc ggttttcggt gagaagacgg gggtttttat
     3061 ggctcaggac gtaaaaccgc cctgagcgcg tttcagcggt gcgcgtaatg acgcgttatg
     3121 gtaaatcggt gccacaggcg taagtatctg ctaaggatct ttttgttgat tcttttttaa
     3181 gagcataatg agattatata aattgatttt ggggtccgct tggaaaaggg aaaataacct
     3241 acgctaagac tactttttaa ccaatcggct attggatatc actcggttcg cggggctaca
     3301 gcgtttctgt gtccgaaacc gaacgattac gtacagcatg tagacaacat gtccgaaagt
     3361 aagcaaaacc attaacggac agccggatca tttcgtacat cccttacggt caggggttcg
     3421 cgctcaatgg aacgaaatca cccgttagct taaaacgctt aacgtaggat aatttccttt
     3481 ttccaagcgg acccgtactc ggttggtcaa atcgcttctt gccacaaaac aagtttgtgt
     3541 ctttcagcga tttcgcatcg ttttacttgt cagtttgaat gatgttaaaa acgcactcag
     3601 aagctcgcaa aaccgttcta aactttcagc gtagatttgg gtgttttata gggtgatagt
     3661 gtcttaaaat cgttttgagg ggctttagtg gggatgaacg ggcggttttc gctaactaac
     3721 tcgcccgttt aacataaaag ggattaggtg aatcttttat tagattacat tccgtcttta
     3781 gacatttcgt ctttagacat tccgtcttta gacatttcgt ctttagacat tccgtcctta
     3841 gacatttcgt ctttagacat tccgtcctta gacattccgt ctttagacat tccgtcctta
     3901 gacattccgt ctttagacat tccgtcttta gacatttcgt ccttagacat ttcgtcttta
     3961 gacattccgt ccttag
//
