LOCUS       CP056291                3976 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Citrobacter freundii strain RHBSTW-00858 plasmid pRHBSTW-00858_3,
            complete sequence.
ACCESSION   CP056291
VERSION     CP056291.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148718
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 T3-00858
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 165.36211553509x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 22:04:22
            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)                    :: 4,574
            CDSs (with protein)               :: 4,574
            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)              :: 103
            CDSs (without protein)            :: 103
            Pseudo Genes (ambiguous residues) :: 0 of 103
            Pseudo Genes (frameshifted)       :: 37 of 103
            Pseudo Genes (incomplete)         :: 66 of 103
            Pseudo Genes (internal stop)      :: 20 of 103
            Pseudo Genes (multiple problems)  :: 17 of 103
            ##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-00858"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:546"
                     /plasmid="pRHBSTW-00858_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3793..3976,1..131)
                     /locus_tag="HV301_23940"
     CDS             join(3793..3976,1..131)
                     /locus_tag="HV301_23940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014007589.1"
                     /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="QLT02277.1"
                     /translation="MFISTSYAENMTSETKLETAKDGMSKDGMSKDGMSKDGMSKDEMS
                     KDEMSKDGMSKDGMSKDGMSKDGMSKDGMSKDEMSKDGMSKDEMSKDGMSKDEMSKDGM
                     "
                     /name="pentapeptide MXKDX repeat protein"
     gene            complement(1047..1577)
                     /locus_tag="HV301_23945"
     CDS             complement(1047..1577)
                     /locus_tag="HV301_23945"
                     /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="QLT02278.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVQKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="hypothetical protein"
     gene            complement(1580..2515)
                     /locus_tag="HV301_23950"
     CDS             complement(1580..2515)
                     /locus_tag="HV301_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="QLT02280.1"
                     /translation="MATYHLSVKFGGKGKALAHANYITREDKFSQRKDLEHTEHGNMPE
                     WAKDDPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLELVRDFVKQETGGQHTYS
                     FAIHNPQASIDGGEQPHAHIMMSQRVDDGIKRSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKAQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     gene            2683..3069
                     /locus_tag="HV301_23955"
     CDS             2683..3069
                     /locus_tag="HV301_23955"
                     /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="QLT02279.1"
                     /translation="MRISNVEWLKKRIGFIRKLGEKTTRQRQIIDLLDDEASLSETDRR
                     LLHVLATAEKNELQEQDAAQKKAVQARISGQKNRRERNHKLFLAAGLMIDAGLVDTKTG
                     ELNFDSEKLLTALKRVRCDLETSV"
                     /name="hypothetical protein"
     Typing          complement(160..315)
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
     Typing          complement(1584..2515)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.678"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acggaatgtc taaagacgga atgtctaagg acggaatgtc taaagacgaa atgtctaagg
       61 acggaatgtc taaagacgaa atgtctaaag acggaatgtc taaagacgaa atgtctaaag
      121 acggaatgta atctaataaa agattcacct aatccctttt atgttaaacg ggcgagttag
      181 ttagcgaaaa ccgcccgttc atccccacta aagcccctca aaacgatttt aagacactat
      241 caccctataa aacacccaaa tctacgctga aagtttagaa cggttttgcg agcttctgag
      301 tgcgttttta acatcattca aactgacaag taaaacgatg cgaaatcgct gaaagacaca
      361 aacttgtttt gtggcaagaa gcgatttgac caaccgagta cgggtccgct tggaaaaagg
      421 aaattatcct acgttaagcg ttttaagcta acgggtgatt tcgttccatt gagcgcgaac
      481 ccctgaccgt aagggatgta cgaaatgatc cggctgtccg ttaatggttt tgcttacttt
      541 cggacatgtt gtctacatgc tgtacgtaat cgttcggttt cggacacaga aacgctgtag
      601 ccccgcgaac cgagtgatat ccaatagccg attggttaaa aagtagtctt agcgtaggtt
      661 attttccctt ttccaagcgg accccaaaat caatttatat aatctcatta tgctcttaaa
      721 aaagaatcaa caaaaagatc cttagcagat acttacgcct gtggcaccga tttaccataa
      781 cgcgtcatta cgcgcaccgc tgaaacgcgc tcagggcggt tttacgtcct gagccataaa
      841 aacccccgtc ttctcaccga aaaccgctca gaatcgcata ccgtgatttt cagccccatg
      901 cataaccatg cacctgactg actggcgaga acttccggcc tgaattcagg ccggaagtct
      961 caaaagacgc cccaaacccg gctgaaaacg gtgaacgggt gcgcaattta ttgtgcgaac
     1021 gtgaggcgtt ggacaagcgc agcgcgtcag ttctttttct tttccggttt ctgttccgtt
     1081 gtcagcagct tttcaaggtc tgccactttc tgatagacgg cagcagacgc gttgtaattg
     1141 tcctgtagtt ccgttttcac aaaccagctt gtggcaaata tcagtacgac aaaggcaacc
     1201 gcaacccctg caaaccactt ccagctgtaa ccccgcagcg tgttgtactc cgcgatgata
     1261 ttgctgcgga taatggaaat ttccttgtcc agcgcgtccg cattgatttt catgttcccg
     1321 acggattttt ccagacgctg aaaatcagcg ctgatacgct cgccaatcag ccccgcaaca
     1381 tccattttct gcacttcctg ccggacttca tcccgtacct gctgtgccac actgtctgat
     1441 atttcccggt agcctttcag ggtttccctt gccaccgcca gcgaatccgc cacggctttc
     1501 tgctgctctt ttgcggcctc tttcagatgc tccgccgaca gcaggagtgt gagaagtttt
     1561 tcttcggtgc tcgccatagt tacctgctta tggaaaatcc gcgtgacagg gatttcacgc
     1621 gctctatttc aacatttccc tgttttgtga cccgtgcagc catctcccgc ccgtactgct
     1681 gcgagatatc atgcgtcaga gatctgacca gttccttccg gtttacctcg ataccgctgg
     1741 cattcatcca gctacggtcg ctgtggtcga tatgcttcgc ctgttcaggc acatccacga
     1801 ctgaaaacgt ccggctgtct ttaatatcct gcctctggct gtcgtccagt cgtccggctg
     1861 cttcaaaacc gagatgctgt tccggtttcc ggtctatacc ctgtgctttc agtgaccggc
     1921 tatcaataaa accctgctca aagccatatc gtttcatatg cgcgttgtgc gtacgctccc
     1981 agcgctcccg cagggctttc agtgcctgtt tttgttctgt aggggttaaa ttatgccctg
     2041 agtccttgcg cgcgccgcca cgcgccggaa atttggcgtt atagcgcctg aaatactgct
     2101 ctgggctgcg cttaataccg tcatcaacac gctggctcat catgatatgg gcgtgcggct
     2161 gttcgccgcc gtcaatgctg gcttgcggat tgtgaatcgc aaacgaatac gtatgttgac
     2221 cgcccgtttc ctgcttcaca aaatccctga caagctccag ccgctgcgct tcgttcagtt
     2281 cacggggtag tgctatctcg atttcccggt acgttgaacc gttggcacgt tcgaacgcat
     2341 ccgcagcctg ccagaaatgg gcggggtcat ctttcgccca ttccggcata ttgccgtgct
     2401 cggtgtgttc gagatctttt cgctgactga acttatcttc ccgcgtgatg taattggcat
     2461 gagcaagggc tttacccttg ccgccaaatt tcacgctgag atgataggtt gccatgatgt
     2521 ttttgccctt ggttttacgc acgtgtttct gcccgcaggg agaaacatat aagtgcgctt
     2581 tactctaatt tgaagaatta tgagtaaaga taagtcatgc gacttctgac cgcaagttat
     2641 atactttcac catcggaaat atcgggatgg ggaagttaaa cgatgcggat cagtaacgtc
     2701 gaatggctta aaaagcgcat aggcttcatc agaaaactgg gggagaaaac aacacggcaa
     2761 cggcagatta tcgacctgct ggatgatgag gcttcgctca gtgagactga caggcgactg
     2821 ctccacgttc tggcaaccgc tgaaaaaaac gagttgcagg aacaggatgc cgcgcagaaa
     2881 aaggcggttc aggcacggat ttcaggtcag aaaaaccgca gggaacgtaa tcacaaactg
     2941 ttcttggctg ccggactgat gattgacgcg ggactggttg atacaaaaac gggtgagttg
     3001 aattttgact ctgaaaaatt actgaccgcg ctgaaacggg tacgctgtga tctggaaaca
     3061 tcggtgtgac cgtgcattct gcaaggattc agtgatatga cgcttcctcg atgcaaaacc
     3121 agtttgcatc ttgcggcgag cgttgcagat tgaaatacga ggggattttt tgcttaagtt
     3181 cagaaagcgc agagccgaaa tgattgtgac atcactccgg ctctgctaat ctgattcggt
     3241 gcattcgttg ctaagatcag acctagacaa tccaatctta gcaatgggaa gctagcttgt
     3301 cactacttcc ttaaaaccat tcaacgacat taactcaaat gcaccacttg attgactcgg
     3361 acttagcccg gtctccgaaa ggataaacag gcaaattgtg gtagtaaaac gtaccggaaa
     3421 acgaaattcc ggctctgcct ccgaatcacg ctgcggtatc gaaagattac agtgcgtacc
     3481 tgataagagc atcaatcaac ggactaggga tttcttggat tgctccgtcg aaagaaaccc
     3541 aacctaacca gaagtaccag acttagccag aggaacacgc taagaagcca tgacccaatc
     3601 accgatcatg gagaaaagca aagacaggaa gatgctgtcg cttcgctccg ttttgattag
     3661 taccacattg gggcattagg ttttttatga ctgaactttt tccaaaaaaa acactctaag
     3721 aaagaacatt cataaaaaaa ggaatatgtt ttgaaaaaat taatcccaat tctactactt
     3781 ggctctattt caatgtttat ttctacctct tatgcagaaa atatgacttc agaaaccaaa
     3841 cttgagacag ctaaggacgg aatgtctaaa gacggaatgt ctaaggacgg aatgtctaag
     3901 gacggaatgt ctaaagacga aatgtctaag gacgaaatgt ctaaagacgg aatgtctaaa
     3961 gacggaatgt ctaagg
//
