LOCUS       NZ_CP056354             2746 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00678 plasmid pRHBSTW-00678_5, complete
            sequence.
ACCESSION   NZ_CP056354
VERSION     NZ_CP056354.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148682
            Assembly: GCF_013738915.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00678
  ORGANISM  Citrobacter sp. RHBSTW-00678
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 2746)
  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 2746)
  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                     :: WTP2 T2-00678
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 97.3983658811909x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:01:46
            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)                     :: 5,445
            CDSs (total)                      :: 5,328
            Genes (coding)                    :: 5,147
            CDSs (with protein)               :: 5,147
            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)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 52 of 181
            Pseudo Genes (incomplete)         :: 134 of 181
            Pseudo Genes (internal stop)      :: 33 of 181
            Pseudo Genes (multiple problems)  :: 32 of 181
            Pseudo Genes (short protein)      :: 1 of 181
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056354.1.
            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..2746
                     /organism="Citrobacter sp. RHBSTW-00678"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00678"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:2742661"
                     /plasmid="pRHBSTW-00678_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            <552..653
                     /locus_tag="HV265_RS27020"
                     /old_locus_tag="HV265_27030"
                     /pseudo=""
     CDS             <552..653
                     /locus_tag="HV265_RS27020"
                     /old_locus_tag="HV265_27030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011847251.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS30 family transposase"
                     /name="IS30 family transposase"
     gene            complement(842..1216)
                     /locus_tag="HV265_RS27025"
                     /old_locus_tag="HV265_27035"
     CDS             complement(842..1216)
                     /locus_tag="HV265_RS27025"
                     /old_locus_tag="HV265_27035"
                     /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_061335866.1"
                     /translation="MNGMSDVRLKKSTIESLKEYVNDFGMTVDDVVLNLIEENNSLKSL
                     LGQGFSLPGGDKDTHSFKDYVIHKLPKGKILVTKDGLKVSNMKKVLIEAGSAVGMDDKE
                     LNPDFTTYEIGRFLFKHLQG"
                     /name="hypothetical protein"
     gene            1545..1733
                     /locus_tag="HV265_RS27030"
                     /old_locus_tag="HV265_27040"
     CDS             1545..1733
                     /locus_tag="HV265_RS27030"
                     /old_locus_tag="HV265_27040"
                     /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_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1781..1981)
                     /locus_tag="HV265_RS27035"
                     /old_locus_tag="HV265_27045"
     CDS             complement(1781..1981)
                     /locus_tag="HV265_RS27035"
                     /old_locus_tag="HV265_27045"
                     /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_080484700.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RACMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          2..231
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.552"
                     /coverage="87.0"
                     /evalue="6.76e-104"
     Typing          2604..2746
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.781"
                     /coverage="89.0"
                     /evalue="3.45e-49"
ORIGIN
        1 tctcctgttc ctgcctttcg gtttaccggt gtcattccgc tgttatggcc gcgtttatct
       61 cattccacgc ctgacactca gttccgggta ggcagttcgc tccaagctgg actgtatgca
      121 cgaacccccc gttcagtccg accgctgcgc cttgtccggt aactatcgtc ttgagtccaa
      181 cccggaaaga cacgacttaa cgccattggc agcagccatt ggtaagagga ttcacggagc
      241 agggtagtag agtgcttcta cagagttctt gaagtggcgg cctgactgcg gctacactgg
      301 aaggacagtt ttggtatctg cgctccgtga aagccagtta ccttcggaag aaagagttgg
      361 tagctcttga ttccggcaaa cgaaccaccg ttggtagcgg tggttttttt gtttacagga
      421 catgagatta cgacgagagt aaaaggatca caagaagatc cggctgttta ccagtgattt
      481 ggcttcagta ttggtttccg cctagcgggg ccttatacgt aaaaattcca cacctgactt
      541 atcacacagg ggagctccgc aagtaccaga gagcactgaa tagcaggcca cggaaatgtc
      601 ttggattccg gcaaccttca gtggtctttg ctgagctaag acaggcggct tagcgttgca
      661 cttcgaactt gaatccgccc agaagcattc agcagaagtc gctaacggtt tgcttgcaaa
      721 tgctatcaat aatgctttgc ctaaagcagg aataaaaaag ccacctacac ggtggctttt
      781 tttctgtccg ggaactagct gaattgaacc taaaatcccg gccacgaact ggtagacacc
      841 tttatccctg aagatgtttg aagagaaaac ggcctatttc ataggtcgta aagtcagggt
      901 ttagctcttt atcatccatc cctacagcgc tccctgcctc gatcaatacc ttcttcatgt
      961 tgctaacttt aagcccgtct ttggtaacca agatctttcc ttttggaagc ttatgaatca
     1021 cgtaatcctt gaaggaatgt gtgtccttat ctccaccagg caaagaaaag ccctgaccta
     1081 ataacgattt taatgaatta ttctcttcaa ttaagttcag gacaacatca tcaaccgtca
     1141 tgccaaagtc attcacgtac tcttttaggc tctcaatagt tgatttcttt agtcttacgt
     1201 cagacatacc attcatatta ttattacccc accgctctaa tttgaagaaa taatacaaca
     1261 aaatacaaat tatacaaata aatattgttc tgaatacaac aagcggtctg taggtgcgat
     1321 gataactatg ccgcaccgcc agattgaaca taacatccgt tgcgtgcacc gcctgagagg
     1381 ctctcagggc gtttctacga cctcacctgc aaaagaacac atcttacccc ctgaaaaccg
     1441 ctcagaaacg cgctgatgat ttctgcgtac ctgcatggct atgcactcaa gtgaatgaag
     1501 taagatttca gtctgcgatc accataaaac cgggaaaaag ccgtatgaca aaacaggaat
     1561 cagccgcact gaacatggca aaatttatcc gggcgcagtc gctgctgctg ctcgaaaaac
     1621 tcgacgtgct cgatcttgat gacgaggcag ccgactgtga gcgaatgcac gaacaggcag
     1681 aagcgcttta tcagaagctg agcgcacgct tcggtataca ggacggcgaa taaagagacg
     1741 aaaagaacgc tcacttagac gaaaagcgta tccagggcaa ctatgtatat ccaccgtgta
     1801 catagtcatg cctgacgctt tcgagcaggt cgagcatgca ggcacgacga gcttgattgg
     1861 tatcggacac aatatggcga tacgcctcaa acataacagc acccgcatca ccgcccgaac
     1921 ggcgaagcat agcggaaatc atccgcacaa agagcagacg ttcatcgggg caaaggttca
     1981 taagttctcc tggtgaaaaa ccaaacatga aagcacccat ctattaacgt cagctgtgaa
     2041 cgcttcatta gaagaaaata ggtaaacccg ggaaaaagat ccaaacgtta acatcacagg
     2101 taaacagaaa cgtcgggtcg atcgggaaat tctttcccgg acggcgcggg gttgggcaag
     2161 ccgcaggcgc gtcagtgctt ttagcgggtg tcggggcgca gccctgaacc agtcacgtag
     2221 cgctagcgga gtgtatactg gctaaacttc agagatgcca aggaagggac aggatatgtt
     2281 ttgtagcacc gccaccacgg tggcgatact ccaaaacgcc tggtcagggc acagccccga
     2341 caccccagag ccgactgtag gtcactggac gaacgcggcg gaatgatgtc ggatgacgtc
     2401 attttgcggc gtttgcccta tcctgcatcg tattaaaaaa tgcagctatg gcgcgtacgg
     2461 tgccaaagat aagcccggag atattccgct tcctcgctca ctgactcgct ccgctcggtc
     2521 gttcggctgc ggcgagcggt accggcttac tggcggggcg gaaatttcct ggcatcttcc
     2581 aggaagaagc ttaacaggga agcaagaagg ccacggagaa gccgtttttc cataggctcc
     2641 gcccccctga caagcatcac gaaatctgac gctcaaatca gtggtggcga aacccgacag
     2701 gacttaaaga taccaggcgt ttccccctgg tggctccctc gtgcgc
//
