LOCUS       NZ_CP056288             2581 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00859 plasmid pRHBSTW-00859_5, complete
            sequence.
ACCESSION   NZ_CP056288
VERSION     NZ_CP056288.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148719
            Assembly: GCF_013729795.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00859
  ORGANISM  Citrobacter sp. RHBSTW-00859
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 2581)
  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 2581)
  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 T3-00859
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 181.325365466083x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:10:43
            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)                     :: 5,633
            CDSs (total)                      :: 5,514
            Genes (coding)                    :: 5,341
            CDSs (with protein)               :: 5,341
            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)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 33 of 173
            Pseudo Genes (incomplete)         :: 134 of 173
            Pseudo Genes (internal stop)      :: 25 of 173
            Pseudo Genes (multiple problems)  :: 16 of 173
            Pseudo Genes (short protein)      :: 1 of 173
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056288.1.
            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..2581
                     /organism="Citrobacter sp. RHBSTW-00859"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00859"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:2742666"
                     /plasmid="pRHBSTW-00859_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            461..838
                     /locus_tag="HV302_RS27975"
                     /old_locus_tag="HV302_27885"
     CDS             461..838
                     /locus_tag="HV302_RS27975"
                     /old_locus_tag="HV302_27885"
                     /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_126530080.1"
                     /translation="MIHNHPTWVIKSMIYRLGILSISLLTAGCVSTSNVLELGRDTYTV
                     SATADGFRDAASARQSAFKTGSEKCNSLGKKFLLTNENVANTRMGIDTTVTLYFRCLDE
                     RDSEYVRPNLQKAPDLLIESK"
                     /name="hypothetical protein"
     gene            895..1200
                     /locus_tag="HV302_RS27980"
                     /old_locus_tag="HV302_27890"
     CDS             895..1200
                     /locus_tag="HV302_RS27980"
                     /old_locus_tag="HV302_27890"
                     /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_191212356.1"
                     /translation="MMKVGNIREYGPTKTHLLLMVTTLPAGVGVFIYPIVEAVWGELSL
                     LKVIGYTVLSLIVGGLVGNMIVRGLFSTSIGILLINPLAILFSIAGIAFLIVQYLP"
                     /name="hypothetical protein"
     gene            1392..1580
                     /locus_tag="HV302_RS27985"
                     /old_locus_tag="HV302_27895"
     CDS             1392..1580
                     /locus_tag="HV302_RS27985"
                     /old_locus_tag="HV302_27895"
                     /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(1628..1855)
                     /locus_tag="HV302_RS27990"
                     /old_locus_tag="HV302_27900"
     CDS             complement(1628..1855)
                     /locus_tag="HV302_RS27990"
                     /old_locus_tag="HV302_27900"
                     /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_228710239.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSYMLDLLENVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          2..319
                     /name="rep_cluster_2374"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.183"
                     /coverage="98.0"
                     /evalue="1.56e-57"
     Typing          2355..2581
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.197"
                     /coverage="83.0"
                     /evalue="6.65e-97"
ORIGIN
        1 ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgactgc tgcgccttat
       61 ccggtaacta tcgtcttgag tccaacccgg aaagacacga caaaacgcca ctggcagcag
      121 ccactggtaa caggtttgtg cgagagatgt gttcagagtt cttgaagtgg cggcctgact
      181 gaggctacac tggaaggaca gatttggtga catgtctcgc acaagactgt taccacggtt
      241 agagaatctg ccaggattaa ctaaccttcg aaaaaccacc tgccagggtg gttttttcgt
      301 ttccagtgca agagattacg acgcaacaga aaggatctca agaggatcct atcccatccc
      361 tctcccccca aagggaaacc agcaccactc cacgacacca tttctttgaa aaaaattatt
      421 gaacccattg attttaataa taaaaaaaac agatataatc atgatccaca atcacccaac
      481 ttgggtaata aaatcaatga tttataggtt agggatttta tcaatatcgc tgcttacagc
      541 tggttgtgtt tctaccagca atgttcttga gttaggcagg gatacatata cggtttcagc
      601 aactgctgat ggttttagag atgcggcatc agcacgccaa agtgccttta aaacaggttc
      661 tgagaaatgt aatagtctcg gtaaaaaatt cctgctcact aacgaaaacg tggctaacac
      721 cagaatgggg atagatacca cagtaacact ctatttccgt tgtcttgacg aaagagacag
      781 cgagtatgta cgaccaaatc tacagaaagc acctgatcta ctcatcgaga gtaagtaact
      841 atgaatttcc ttatgatcat gaccctatgg tggatatcgt cattcatcac acacatgatg
      901 aaagttggaa atatcagaga gtacggcccc actaaaaccc atttgctgtt gatggttact
      961 acgctccctg ctggcgttgg tgtttttatc tatccgatag tagaagcggt atggggagaa
     1021 ctgtcattgc tgaaagttat tggttatacc gttttatccc tcattgtcgg agggcttgtt
     1081 ggcaatatga ttgttcgtgg attattttca acatcaatag ggattttgct cataaacccg
     1141 ttggcaatac tcttcagcat tgcgggtatc gcattcttaa tcgtgcaata tttaccataa
     1201 catctcttgc ccgcaccgcc tgagaagctc tcagggcgtt tctgaggact ccggcctgaa
     1261 acatacacct ttctgtgccc atatcgagaa aaaacgcccc tgatgatttc tgcgtacctg
     1321 catggctatg cactcaagtg aatgaagtaa gatttcagtc tgcgatcacc ataaaaccgg
     1381 gaaaaagccg tatgacaaaa caggaatcag ccgcactgaa catggcaaaa tttatccggg
     1441 cgcagtcgct gctgctgctc gaaaaactcg acgtgctcga tcttgatgac gaggcagccg
     1501 actgtgagcg aatgcacgaa caggcagaag cgctttatca gaagctgagc gcacgcttcg
     1561 gtatacagga cggcgaataa agagacgaaa agaacgctca cttagacgaa aagcgtatcc
     1621 agggcaacta tgtatatcca ccgtgtacat agtcatgcct gacgttttcg agcaggtcga
     1681 gcatgtagga acgacgagct tgattggtat cggacacaat atggcgatac gcctcaaaca
     1741 taacagcacc cgcatcaccg cccgaacggc gaagcatagc ggaaatcatc ctcacaaaga
     1801 gcagacgttc atcggggcaa aggttcataa gttctcctgg tgaaaaacca aacatgaaag
     1861 cacccatcta ttaacgtcag ctgtgaacgc ttcattagaa gaaaataggt aaacccggga
     1921 aaaagatcca aacgttaaca tcacaggtaa acagaaacgt cgggtcgatc gggaaattct
     1981 ttcccggacg gcgcggggtt gggcaagccg caggcgcgtc agtgctttta gcgggtgtca
     2041 gggcacagcc ccgacacccc agagccgact gtaggtcact gggcgaacgc ggcggaatga
     2101 tgtcggatga cgtcattttg cggcgtttgc cctatcctgc atcgtattaa aaaatgcagc
     2161 tatggcgcgt acggtgccaa agataagccc ggagatattc cgcttcctcg ctcactgact
     2221 cgctccgctc ggtcgttcgg ctgcggcgag cggggaaagc atgcccggga atggaagcta
     2281 cattatccac agattcaggg gagaagcggc agaagaacat gtgcgcagga agaaaggccc
     2341 agagagagga tcccggcgtt gccggttttc cataggctcc gcccccctga caagcatcac
     2401 agaatcggac gctcaaatca gtggtggcga aacccgacag gacttaaaga taccaggcgt
     2461 ttccccctgg tggctccctc gtgcgctctc ctgttcctgc ctttcggttt accggtgtca
     2521 ttccgctgtt atggccgcgt ttgtctcatt ccacgcctga cactcagttc cgggtaggca
     2581 g
//
