LOCUS       NZ_CP056863             2746 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00107 plasmid pRHBSTW-00107_3, complete
            sequence.
ACCESSION   NZ_CP056863
VERSION     NZ_CP056863.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148489
            Assembly: GCF_013794885.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00107
  ORGANISM  Citrobacter sp. RHBSTW-00107
            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                     :: WTP5 T1-00107
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 94.8044097125314x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 13:53:36
            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)                     :: 5,481
            CDSs (total)                      :: 5,362
            Genes (coding)                    :: 5,204
            CDSs (with protein)               :: 5,204
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 31 of 158
            Pseudo Genes (incomplete)         :: 121 of 158
            Pseudo Genes (internal stop)      :: 25 of 158
            Pseudo Genes (multiple problems)  :: 16 of 158
            Pseudo Genes (short protein)      :: 1 of 158
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056863.1.
            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-00107"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00107"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:2742635"
                     /plasmid="pRHBSTW-00107_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            125..490
                     /locus_tag="HV072_RS27185"
                     /old_locus_tag="HV072_27190"
     CDS             125..490
                     /locus_tag="HV072_RS27185"
                     /old_locus_tag="HV072_27190"
                     /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_181627509.1"
                     /translation="MSDVRLKKSTIESLKEYVNDFGMTVDDVVLNLIEENNSLKSLLGQ
                     GFSLPGGDKDTHSFKDYVIHKLPKGKILVTKDGLKVSNMKKVLIEAGSAVGMDDKELNP
                     DFTTYEIGRFLFKHLQG"
                     /name="hypothetical protein"
     gene            complement(679..>780)
                     /locus_tag="HV072_RS27190"
                     /old_locus_tag="HV072_27195"
                     /pseudo=""
     CDS             complement(679..>780)
                     /locus_tag="HV072_RS27190"
                     /old_locus_tag="HV072_27195"
                     /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            2070..2297
                     /locus_tag="HV072_RS27340"
     CDS             2070..2297
                     /locus_tag="HV072_RS27340"
                     /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_225622915.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRACMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(2345..2533)
                     /locus_tag="HV072_RS27200"
                     /old_locus_tag="HV072_27205"
     CDS             complement(2345..2533)
                     /locus_tag="HV072_RS27200"
                     /old_locus_tag="HV072_27205"
                     /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"
     Typing          complement(1102..1597)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.97"
                     /coverage="82.0"
                     /evalue="0.0"
ORIGIN
        1 gcatagttat catcgcacct acagaccgct tgttgtattc agaacaatat ttatttgtat
       61 aatttgtatt ttgttgtatt atttcttcaa attagagcgg tggggtaata ataatatgaa
      121 tggtatgtct gacgtaagac taaagaaatc aactattgag agcctaaaag agtacgtgaa
      181 tgactttggc atgacggttg atgatgttgt cctgaactta attgaagaga ataattcatt
      241 aaaatcgtta ttaggtcagg gcttttcttt gcctggtgga gataaggaca cacattcctt
      301 caaggattac gtgattcata agcttccaaa aggaaagatc ttggttacca aagacgggct
      361 taaagttagc aacatgaaga aggtattgat cgaggcaggg agcgctgtag ggatggatga
      421 taaagagcta aaccctgact ttacgaccta tgaaataggc cgttttctct tcaaacatct
      481 tcagggataa aggtgtctac cagttcgtgg ccgggatttt aggttcaatt cagctagttc
      541 ccggacagaa aaaaagccac cgtgtaggtg gcttttttat tcctgcttta ggcaaagcat
      601 tattgatagc atttgcaagc aaaccgttag cgacttctgc tgaatgcttc tgggcggatt
      661 caagttcgaa gtgcaacgct aagccgcctg tcttagctca gcaaagacca ctgaaggttg
      721 ccggaatcca agacatttcc gtggcctgct attcagtgct ctctggtact tgcggagctc
      781 ccctgtgtga taagtcaggt gtggaatttt tacgtataag gccccgctag gcggaaacca
      841 atactgaagc caaatcactg gtaaacagcc ggatcttctt gtgatccttt tactctcgtc
      901 gtaatctcat gtcctgtaaa caaaaaaacc accgctacca acggtggttc gtttgccgga
      961 atcaagagct accaactctt tcttccgaag gtaactggct ttcacggagc gcagatacca
     1021 aaactgtcct tccagtgtag ccgcagtcag gccgccactt caagaactct gtagaagcac
     1081 tctactaccc tgctccgtga atcctcttac caatggctgc tgccaatggc gttaagtcgt
     1141 gtctttccgg gttggactca agacgatagt taccggacaa ggcgcagcgg tcggactgaa
     1201 cggggggttc gtgcatacag tccagcttgg agcgaactgc ctacccggaa ctgagtgtca
     1261 ggcgtggaat gagataaacg cggccataac agcggaatga caccggtaaa ccgaaaggca
     1321 ggaacaggag agcgcacgag ggagccacca gggggaaacg cctggtatct ttaagtcctg
     1381 tcgggtttcg ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga
     1441 gcctatggaa aaacggcttc tccgtggcct tcttgcttcc ctgttaagct tcttcctgga
     1501 agatgccagg aaatttccgc cccgccagta agccggtacc gctcgccgca gccgaacgac
     1561 cgagcggagc gagtcagtga gcgaggaagc ggaatatctc cgggcttatc tttggcaccg
     1621 tacgcgccat agctgcattt tttaatacga tgcaggatag ggcaaacgcc gcaaaatgac
     1681 gtcatccgac atcattccgc cgcgttcgtc cagtgaccta cagtcggctc tggggtgtcg
     1741 gggctgtgcc ctgaccaggc gttttggagt atcgccaccg tggtggcggt gctacaaaac
     1801 atatcctgtc ccttccttgg catctctgaa gtttagccag tatacactcc gctagcgcta
     1861 cgtgactggt tcagggctgc gccccgacac ccgctaaaag cactgacgcg cctgcggctt
     1921 gcccaacccc gcgccgtccg ggaaagaatt tcccgatcga cccgacgttt ctgtttacct
     1981 gtgatgttaa cgtttggatc tttttcccgg gtttacctat tttcttctaa tgaagcgttc
     2041 acagctgacg ttaatagatg ggtgctttca tgtttggttt ttcaccagga gaacttatga
     2101 acctttgccc cgatgaacgt ctgctctttg tgcggatgat ttccgctatg cttcgccgtt
     2161 cgggcggtga tgcgggtgct gttatgtttg aggcgtatcg ccatattgtg tccgatacca
     2221 atcaagctcg tcgtgcctgc atgctcgacc tgctcgaaag cgtcaggcat gactatgtac
     2281 acggtggata tacatagttg ccctggatac gcttttcgtc taagtgagcg ttcttttcgt
     2341 ctctttattc gccgtcctgt ataccgaagc gtgcgctcag cttctgataa agcgcttctg
     2401 cctgttcgtg cattcgctca cagtcggctg cctcgtcatc aagatcgagc acgtcgagtt
     2461 tttcgagcag cagcagcgac tgcgcccgga taaattttgc catgttcagt gcggctgatt
     2521 cctgttttgt catacggctt tttcccggtt ttatggtgat cgcagactga aatcttactt
     2581 cattcacttg agtgcatagc catgcaggta cgcagaaatc atcagcgcgt ttctgagcgg
     2641 ttttcagggg gtaagatgtg ttcttttgca ggtgaggtcg tagaaacgcc ctgagagcct
     2701 ctcaggcggt gcacgcaacg gatgttatgt tcaatctggc ggtgcg
//
