LOCUS       NZ_CP056326             3490 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00821 plasmid pRHBSTW-00821_6, complete
            sequence.
ACCESSION   NZ_CP056326
VERSION     NZ_CP056326.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148702
            Assembly: GCF_013732395.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00821
  ORGANISM  Citrobacter sp. RHBSTW-00821
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 3490)
  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 3490)
  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 T3-00821
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 149.488582115015x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:06:36
            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)                     :: 5,692
            CDSs (total)                      :: 5,573
            Genes (coding)                    :: 5,393
            CDSs (with protein)               :: 5,393
            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)              :: 180
            CDSs (without protein)            :: 180
            Pseudo Genes (ambiguous residues) :: 0 of 180
            Pseudo Genes (frameshifted)       :: 35 of 180
            Pseudo Genes (incomplete)         :: 139 of 180
            Pseudo Genes (internal stop)      :: 26 of 180
            Pseudo Genes (multiple problems)  :: 17 of 180
            Pseudo Genes (short protein)      :: 1 of 180
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056326.1.
            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..3490
                     /organism="Citrobacter sp. RHBSTW-00821"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00821"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:2742663"
                     /plasmid="pRHBSTW-00821_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            192..1043
                     /locus_tag="HV285_RS28225"
                     /old_locus_tag="HV285_28230"
     CDS             192..1043
                     /locus_tag="HV285_RS28225"
                     /old_locus_tag="HV285_28230"
                     /inference="COORDINATES: protein motif:HMM:NF025056.4"
                     /GO_function="GO:0003953 - NAD+ nucleosidase activity
                     [Evidence IEA]; GO:0005515 - protein binding [Evidence
                     IEA]"
                     /GO_process="GO:0007165 - signal transduction [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="toll/interleukin-1 receptor domain-containing
                     protein"
                     /protein_id="WP_191212475.1"
                     /translation="MEKNFSDIIIDEIYKGIVQENYPEKILMWPLINGFNIRVGSLLGK
                     YQILIYKNTGNSAFKTSNGIGELSKDIFNGCFYPNGSLDFKKAISIVEQVFDVKEKDAV
                     FIVETITDGDQSFVKNGSYIDEQINMILKKHEMALNMIPLQIFLSHKTIDKPKVREFHK
                     VLKTLGFDPWLDEDKMSAGVELERALIKGMKDSCAAVFFITPSYKDDSYLSAEINYAIS
                     EKRKRPDFSIIALVYEEVGSKGVVPDLLTPYVWKEPKNDLEAMRYLLDALPVKVGSIEL
                     KK"
                     /name="toll/interleukin-1 receptor domain-containing
                     protein"
     gene            1834..2025
                     /locus_tag="HV285_RS28230"
                     /old_locus_tag="HV285_28235"
     CDS             1834..2025
                     /locus_tag="HV285_RS28230"
                     /old_locus_tag="HV285_28235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_149228829.1"
                     /translation="MNKEQKTALNMAKFIQGQSLLLLEKLNALDFDTEADLCEKLHEDT
                     EQLYRVLSERLKESEDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2025..2456
                     /locus_tag="HV285_RS28235"
                     /old_locus_tag="HV285_28240"
     CDS             2025..2456
                     /locus_tag="HV285_RS28235"
                     /old_locus_tag="HV285_28240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000135007.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="excisionase family DNA-binding protein"
                     /protein_id="WP_050074852.1"
                     /translation="MAKVSISEAARLVNVSRPTLYKMLNNGTLTYTSVVKHGKQVKTID
                     TSELIRVFGSLGGVKDDTQNAVSVDGHATAINSDILQDLQHQIALLKTENDGLKGAVNA
                     RDEHISSLRQAMLLLEHKQEQPAPQISSPAHSPWWKFWK"
                     /name="excisionase family DNA-binding protein"
     gene            complement(2462..2620)
                     /locus_tag="HV285_RS28240"
                     /old_locus_tag="HV285_28245"
     CDS             complement(2462..2620)
                     /locus_tag="HV285_RS28240"
                     /old_locus_tag="HV285_28245"
                     /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_191212474.1"
                     /translation="MRLTGGWVVPARIGNALWKDRFLTLLLTALILLCVSTGGAFLGMW
                     YYGAVMH"
                     /name="hypothetical protein"
ORIGIN
        1 acttatcagg ggcgttttgc ggcatttctg ccagggataa ggcggtcttt tacggcgaac
       61 gcgccggaac cgcactgagc gcgttttcgc ggtgcgtgca atgacgcgtt atggtaaata
      121 gcgcgagatt gatggtgtat atgaggtgtc acctcagtgt ataatcatat taaaaataaa
      181 cagaggtgtg tatggaaaag aattttagcg acatcattat cgatgaaatt tacaaaggaa
      241 ttgttcaaga aaattaccca gaaaaaatat tgatgtggcc tttgattaat ggttttaaca
      301 taagagtagg gtctctttta ggaaagtacc aaattcttat ttataagaat actgggaata
      361 gtgcattcaa gacatccaat ggcattggtg agttatcaaa agatattttt aatggatgtt
      421 tttatccaaa tgggagtctt gactttaaaa aagccatatc aatagttgag caagtatttg
      481 atgttaaaga aaaagatgct gtttttattg ttgagacgat aacagatggc gatcaaagtt
      541 ttgttaaaaa tggttcgtat attgacgagc agattaatat gattttaaaa aaacatgaga
      601 tggcattaaa tatgataccg ttgcaaatat tcctcagtca taaaactatc gacaagccaa
      661 aagtcagaga atttcataag gtattaaaga ctctaggttt cgatccttgg cttgacgagg
      721 acaaaatgag tgctggagtt gagttggagc gtgctttaat aaaaggaatg aaagattctt
      781 gcgcagctgt tttctttatt acgccgagtt ataaagatga tagttattta tccgccgaaa
      841 ttaactacgc tatatctgaa aaaagaaaaa gacctgattt ctcaattata gcgttggtct
      901 atgaagaagt gggtagcaaa ggtgttgtgc cagatttact gaccccatat gtgtggaaag
      961 aacctaagaa tgatctggag gccatgaggt atttgcttga tgctttacct gtgaaagtgg
     1021 gttctattga gttgaaaaaa tagggtttac ttcggttata gtcgttgact cataaggttc
     1081 aagcagaata agctagattg aaataaaaaa aaccgcctat aaaggcggtt tttttaaagg
     1141 ttctcagagt tggcgctctt tgaaccaagg taactggctt ggaggagcac agtcaccaaa
     1201 actgttcgtt tagtttagcc ttaatgggcg cataacttca agactcactc ctctaaatca
     1261 gttaccagtg gctaccgcca gtggcgattc gtcgtgtctt tccgggttgg atgcaagtga
     1321 acagttaccg gaacaggcgt ggtagtcgga ctaaacgggg agttcgtgca gatagtccag
     1381 cttggagcga actgtctaaa tggaatcgag tgtcaggcgt ggaatgagat aacgcggcct
     1441 ataacagcgg aatgacaccg atgcaccaca agacgggaac aggagagcgc acgagggagc
     1501 gacccatcgg aaacggtggg gatctttaag tcctgtcggg tttcgcccgt actgtcggat
     1561 tcatggttga gcgtcagctc ccacagatgc agctgaaaag tgtctgttta tatgaactct
     1621 ggcaggaggg cgaagcctat ggaaaaacgc ccctgggggc gtggccttct ccggggtctg
     1681 gctttctggc ctgcctccgt tttaccgttt acgttatctg ttacttcgaa tctcaccgct
     1741 cgccgcagac tcatgaccga acgtagtgag cgaatgagcg aggaagcgga atatcatctg
     1801 atcttgcatt tggtactgcc acacggaggt ttcgtgaaca aagaacaaaa aactgcgctg
     1861 aatatggcca aattcattca gggtcagtct ctgcttttgc tggagaagct caatgccctg
     1921 gatttcgata ctgaggctga cctttgcgag aagctccatg aggatacgga acagctttac
     1981 cgtgttttgt cagaacgact gaaggaatca gaggatggca actaatggcg aaagtctcta
     2041 tcagtgaagc agcgcggctt gtaaatgtca gtcgccctac gctttacaag atgcttaaca
     2101 atggaacact tacttacacc tcggttgtaa agcatggaaa gcaagtaaaa accattgata
     2161 cgtctgagct tatacgtgtt tttggttcgc ttggtggtgt aaaggacgat acacaaaacg
     2221 ctgtaagtgt tgacggtcat gctacagcga ttaacagtga tattttacaa gatttacagc
     2281 atcagattgc gttgttaaag accgaaaatg acgggcttaa aggggcggtg aatgccaggg
     2341 atgaacatat cagttcactt cgtcaggcta tgttgcttct ggagcataaa caggagcagc
     2401 cagcaccgca gatctcttct ccggcgcact ccccttggtg gaagttctgg aagtagttct
     2461 gtcagtgcat aaccgccccg taataccaca tccccaggaa tgcgccgccc gtactgacgc
     2521 acagcaggat cagtgcggtg agcagtagcg tcaggaaccg gtctttccat aaagcattcc
     2581 ctatacgggc tggaacgacc catccccctg ttaggcgcat ttgcttttga atttggggtt
     2641 cggtttttgg gcacggccgt cgggcgtaat catcgggcac agggtgcgcc cgatgattac
     2701 gcccgatgat tttcttcggt gagctgcctc ggtgaatcca ctcggtgata gcttgtcacc
     2761 gagtggattc accgataaac cgtcttcaga gagtcgctaa atccctttaa ttctggcgtt
     2821 ccgatggctt gctggacgcc gccatcggaa cgacacagga tattattccg ctggacgctg
     2881 cataacatcc tgaagggcgg ccacaccgtc tcgctacgcg cgaccaaccc ccttacaagc
     2941 caatttttac ccctgttttt tcctgtgcgt ttcccgctca taaaaaacca gtggaattgt
     3001 ctgtaacgag gttggtcgcg cgtcgtcctt gaggactagc ttaacggtgt ggcgggcttt
     3061 gcccccaaat ccgaagtcgc cattgggatg gcttgcctca gtaggctgag tcattcgaat
     3121 tcggcccccc cgaaggcatg atcccctgaa cgggtatcac aaaaaacagg tcagacccgg
     3181 tttaacagga ggatggctcg cagtggcgaa ccatccccct tcgccaaggg tggggtcgtt
     3241 acagcccgta aagggttcgc ttcgccgcta cgcgcccttg actggctttc tctcgattct
     3301 aaagcagttc taagtcccct tgatctggcg gtggtggctt gctcatacaa gacttcgtgc
     3361 gctatggggc ttttacgcgc gaatttccgc atctgcctta ggtaaacccg gataaatccg
     3421 cattacggtg tttctttcac gccagttcgg gcaccaggca gtgccgtgca tagtcatgca
     3481 tacggttaaa
//
