LOCUS       NZ_CP056549             3066 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Citrobacter sp. RHBSTW-00424 plasmid pRHBSTW-00424_4, complete
            sequence.
ACCESSION   NZ_CP056549
VERSION     NZ_CP056549.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148608
            Assembly: GCF_013741155.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00424
  ORGANISM  Citrobacter sp. RHBSTW-00424
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 3066)
  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 3066)
  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                     :: WTP4 T2-00424
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 99.4247629843307x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013741155.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 02:41:57
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,404
            CDSs (total)                      :: 5,288
            Genes (coding)                    :: 5,114
            CDSs (with protein)               :: 5,114
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 174
            CDSs (without protein)            :: 174
            Pseudo Genes (ambiguous residues) :: 0 of 174
            Pseudo Genes (frameshifted)       :: 44 of 174
            Pseudo Genes (incomplete)         :: 136 of 174
            Pseudo Genes (internal stop)      :: 28 of 174
            Pseudo Genes (multiple problems)  :: 31 of 174
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056549.1.
            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..3066
                     /organism="Citrobacter sp. RHBSTW-00424"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00424"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:2742647"
                     /plasmid="pRHBSTW-00424_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(2766..3066,1..41)
                     /locus_tag="HV191_RS26825"
                     /old_locus_tag="HV191_26845"
     CDS             join(2766..3066,1..41)
                     /locus_tag="HV191_RS26825"
                     /old_locus_tag="HV191_26845"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_049592808.1"
                     /translation="MFTLQKPMHPGEFIREVYLEPLELQIGTFAEKLGVDTSTVSRLVN
                     QKADLSYEMALRLSKALGRSADSWMKMQIAYGLYRAQDKVNLEEVEVVYRPRNLDAPEK
                     QVHEFYENI"
                     /name="HigA family addiction module antitoxin"
     gene            478..666
                     /locus_tag="HV191_RS26830"
                     /old_locus_tag="HV191_26830"
     CDS             478..666
                     /locus_tag="HV191_RS26830"
                     /old_locus_tag="HV191_26830"
                     /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(714..941)
                     /locus_tag="HV191_RS26835"
                     /old_locus_tag="HV191_26835"
     CDS             complement(714..941)
                     /locus_tag="HV191_RS26835"
                     /old_locus_tag="HV191_26835"
                     /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_224019247.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(2221..2496)
                     /locus_tag="HV191_RS26840"
                     /old_locus_tag="HV191_26840"
     CDS             complement(2221..2496)
                     /locus_tag="HV191_RS26840"
                     /old_locus_tag="HV191_26840"
                     /inference="COORDINATES: protein motif:HMM:NF016875.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_094544860.1"
                     /translation="MIKNFKSKKLKQFNSGDTSKVAQAHKKKIEIILNALDTATSINDL
                     DLPGLDLHSYAEYTPTRWSLKVSANYRIFFEWDGANVRNVDYDDPH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          1411..1915
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.788"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 ctcctgaaaa acaggtccat gaattttatg aaaatatcta aaaacgatat ttcatttagg
       61 taaagaaaag ctcctaacca taggggcttt ttgtctctac acctgtgtat ttatgtgaag
      121 acctaacttg cactcgcaga ggcggcagca tcgttattcc tgaagatgct taaacagcgg
      181 gtgttgagcc tgtatcaacc attgatagtg atctgtatat cctcttcact aaccccaaac
      241 ttcatagcca gcccccttct atgcttacct agagaattta ccataacatc cgttgcgtgc
      301 accgcctgag aggctctcag ggcgtttcta cgacctcacc tgcaaaagaa cacatcttac
      361 cccctgaaaa ccgctcagaa acgcgctgat gatttctgcg tacctgcatg gctatgcact
      421 caagtgaatg aagtaagatt tcagtctgcg atcaccataa aaccgggaaa aagccgtatg
      481 acaaaacagg aatcagccgc actgaacatg gcaaaattta tccgggcgca gtcgctgctg
      541 ctgctcgaaa aactcgacgt gctcgatctt gatgacgagg cagccgactg tgagcgaatg
      601 cacgaacagg cagaagcgct ttatcagaag ctgagcgcac gcttcggtat acaggacggc
      661 gaataaagag acgaaaagaa cgctcactta gacgaaaagc gtatccaggg caactatgta
      721 tatccaccgt gtacatagtc atgcctgacg ctttcgagca ggtcgagcat gtaggaacga
      781 cgagcttgat tggtatcgga cacaatatgg cgatacgcct caaacataac agcacccgca
      841 tcaccgcccg aacggcgaag catagcggaa atcatccgca caaagagcag acgttcatcg
      901 gggcaaaggt tcataagttc tcctggtgaa aaaccaaaca tgaaagcacc catctattaa
      961 cgtcagctgt gaacgcttca ttagaagaaa ataggtaaac ccgggaaaaa gatccaaacg
     1021 ttaacatcac aggtaaacag aaacgtcggg tcgatcggga aattctttcc cggacggcgc
     1081 ggggttgggc aagccgcagg cgcgtcagtg cttttagcgg gtgtcggggc gcagccctga
     1141 accagtcacg tagcgctagc ggagtgtata ctggctaaac ttcagagatg ccaaggaagg
     1201 gacaggatat gttttgtagc accgccacca cggtggcgat actccaaaac gcctggtcag
     1261 ggcacagccc cgacacccca gagccgactg taggtcactg gacgaacgcg gcggaatgat
     1321 gtcggatgac gtcattttgc ggcgtttgcc ctatcctgca tcgtattaaa aaatgcagct
     1381 atggcgcgta cggtgccaaa gataagcccg gagatattcc gcttcctcgc tcactgactc
     1441 gctacgctcg gtcgttcggc tgcggcgagc ggaaggagaa tattcacaaa ggcatatggc
     1501 gatgaagacg agataaagcg agggaggaaa ggccgcggcg ctgccggttt tccataggct
     1561 ccgcccccct gacaagcatc acagaatctg acgctcaaat cagtggtggc gaaacccgac
     1621 aggactataa agatcccagg cgtttccccc tggtagctcc ctcgtgcgct ctcctgttcc
     1681 tgcctttcgg tttaccggtg tcactccgct gttatggccg cgtttatctc attccacgcc
     1741 tgacactcag ttccgggtag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg
     1801 ttcagtccga ccgctgcgcc ttttccggta actatcgtct tgagtccaac ccggaaaggc
     1861 acgacttatc gccactggca gcggccactg gtaagagggt gtacaagaga ttactaatgc
     1921 agagttcttg aagtatcagc ctaactacgg ctaaactgga aggacgtatt tggtggcagc
     1981 ggtcttgtac accctgttac cacggttcag aagttcccca acttgctgaa ccttcgaaaa
     2041 accacctccc caggtggttt tttcgtttca ggattaaaga tactctgcgt cccactcaat
     2101 ctcaagaaat tatctttacc aagccattga cttaataaaa aaaaaccata taatagcctc
     2161 atgggcttga atcactaaag tgattcaagc ccatgaccta agtcgttgat ttaactgaca
     2221 ttaatgtgga tcgtcgtaat ccacattacg gacgttggca ccatcccact caaagaaaat
     2281 acgatagttc gccgacacct ttaatgacca gcgggttggg gtatattcag catacgaatg
     2341 aagatccaaa ccaggaaggt caagatcatt tattgaagta gcggtatcta aagcgtttaa
     2401 gataatctct attttctttt tatgcgcttg tgctacctta cttgtatcac cactgttaaa
     2461 ttgttttagt tttttggatt taaaattttt aatcattgaa cttctccata tgaaaatttt
     2521 tatgttttag aagttcttct tgtttagtaa agtttcttga ctgtgttcta tttataggta
     2581 gtattctacg cctgcgaagc tttagaactg ccagatagtc actacaagaa caaaacagaa
     2641 gaaccaaact gttaacgtta agaaaaaatt acccttaact aatccatttt atcacaaatg
     2701 gattgcttat gtcaataggt ttgcgcgttg cgcaaggcac aaaatcagag tatttaggag
     2761 gttgcatgtt tacattgcaa aaacctatgc accccggcga gtttatccgc gaagtatatt
     2821 tagagccgtt agagcttcaa ataggaacgt ttgcagaaaa gcttggggtt gatacatcaa
     2881 ccgttagccg gttagtaaac caaaaagctg acctttctta tgaaatggca ttacgcctat
     2941 caaaagcctt agggcgttct gctgactctt ggatgaaaat gcaaatagca tatggtttat
     3001 atcgtgctca agataaagta aatcttgaag aagttgaggt ggtttaccgc ccacggaact
     3061 tggatg
//
