LOCUS       NZ_CP056548             4613 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Citrobacter sp. RHBSTW-00424 plasmid pRHBSTW-00424_3, complete
            sequence.
ACCESSION   NZ_CP056548
VERSION     NZ_CP056548.1
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 4613)
  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 4613)
  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
            CP056548.1.
            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..4613
                     /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_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3705..4613,1..69)
                     /locus_tag="HV191_RS26780"
                     /old_locus_tag="HV191_26785"
     CDS             join(3705..4613,1..69)
                     /locus_tag="HV191_RS26780"
                     /old_locus_tag="HV191_26785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005321767.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_113740813.1"
                     /translation="MTKKAFIGNLPQRPYCTDDTSSGLLIRPQATALAYRHIQYNPPPH
                     VASLVFDLDKPDSYHAWQDAGLPAPHWISVNRTNGHAHIGYMLATPVARTSAARQKPLR
                     YLAAIEHVLAKRLGADMGYSGLITKNPTHSDWLTVWHQIEPYSLDYLAEFCPDADLAAY
                     SRRSRKEVGGLGRNVTVFDNVREWAYSSVRAYWRPNGYEAWADAVRSACESANAFGREQ
                     GGPLPVSEIKATAKSIARWVWRNLTPSTFADYVDRTHTTEIQAARGAKGGKVSKRPTKG
                     GMSKAELLPEVIRLKALGYSNRDIGEDLGIGFATVSRYLKRDPE"
                     /name="replication initiation protein"
     gene            complement(220..510)
                     /locus_tag="HV191_RS26785"
                     /old_locus_tag="HV191_26790"
     CDS             complement(220..510)
                     /locus_tag="HV191_RS26785"
                     /old_locus_tag="HV191_26790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005321770.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_104456155.1"
                     /translation="MKDNADKGTGDMFGEKRGRGRPKTGNAKTGAERQAAYRAKQQDNN
                     VTVTINRALVEGLDAQMQAIRDGGSAVVLTPEQAGEILRALRTAENKQLRG"
                     /name="hypothetical protein"
     gene            815..1045
                     /locus_tag="HV191_RS26790"
                     /old_locus_tag="HV191_26795"
     CDS             815..1045
                     /locus_tag="HV191_RS26790"
                     /old_locus_tag="HV191_26795"
                     /inference="COORDINATES: protein motif:HMM:NF017524.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_249417928.1"
                     /translation="MREHCLGVVPQQRRTPPPTIDPALLRQVAGIGNNLNQIARRINAS
                     PLTTLDKVEYLAALAAVARELEGLRRDRQNP"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1245..>1679
                     /locus_tag="HV191_RS26795"
                     /old_locus_tag="HV191_26800"
                     /pseudo=""
     CDS             1245..>1679
                     /locus_tag="HV191_RS26795"
                     /old_locus_tag="HV191_26800"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1732..2151
                     /locus_tag="HV191_RS26800"
                     /old_locus_tag="HV191_26805"
     CDS             1732..2151
                     /locus_tag="HV191_RS26800"
                     /old_locus_tag="HV191_26805"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_249417929.1"
                     /translation="MAKTFEQTSKQQADDIESSLKPEFEKHEKAIKKALDSSRQSISDA
                     IQDQQKRIGWLLLKSWGVMLISALLLLAATSGTLWYQGNLIAERQATLEELAKKGGKLI
                     LSDRCKDENGKHRFCIRMNVDEGKFGDDYMIPKGY"
                     /name="MbeB family mobilization protein"
     gene            2155..2388
                     /locus_tag="HV191_RS26805"
                     /old_locus_tag="HV191_26810"
     CDS             2155..2388
                     /locus_tag="HV191_RS26805"
                     /old_locus_tag="HV191_26810"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD/MobD family mobilization/exclusion protein"
                     /protein_id="WP_113740815.1"
                     /translation="MTELERHLLNALETLQSEQEQQWRSLQTACDSLLGLYETTKKENA
                     SLQGEVRALRQQCEHLSKQVSSLATQVASLKA"
                     /name="MbeD/MobD family mobilization/exclusion protein"
     gene            2724..2963
                     /locus_tag="HV191_RS26810"
                     /old_locus_tag="HV191_26815"
     CDS             2724..2963
                     /locus_tag="HV191_RS26810"
                     /old_locus_tag="HV191_26815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001118105.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system CcdA family
                     antitoxin"
                     /protein_id="WP_104456153.1"
                     /translation="MVAAAMRSKRTVSVTLEPSLLERARAAGINLSATLATALQHEISG
                     SEAERWKRENREAIQTLNRMVEERGLFSDDHRTF"
                     /name="type II toxin-antitoxin system CcdA family
                     antitoxin"
     gene            2963..3271
                     /locus_tag="HV191_RS26815"
                     /old_locus_tag="HV191_26820"
     CDS             2963..3271
                     /locus_tag="HV191_RS26815"
                     /old_locus_tag="HV191_26820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199743.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CcdB family protein"
                     /protein_id="WP_094461470.1"
                     /translation="MQFTIYRNKGNARDYPYLLNVQSDIIDELNTRMVIPLVPLAAFIG
                     RPAQRLNPVISVEGKKHLVLTQEMASVRLGQLGEEVTDVQESRQLIKDSIDFLLDGV"
                     /name="CcdB family protein"
     gene            3275..3490
                     /locus_tag="HV191_RS26820"
                     /old_locus_tag="HV191_26825"
     CDS             3275..3490
                     /locus_tag="HV191_RS26820"
                     /old_locus_tag="HV191_26825"
                     /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_094461471.1"
                     /translation="MNNPEKYRRIGVMVAGVDYQSLDHWVKACNIAANVGQIQAFRVLL
                     KEATDQGKPLAWPHGGNHVIIGRRLN"
                     /name="hypothetical protein"
     Typing          3904..4613
                     /name="rep_cluster_1068"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.719"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1567..2597
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.128"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gatataggcg aggatcttgg aattggcttt gctacggtta gccgctatct caaacgcgat
       61 ccagagtgat ccaataagcc tatatcagat aacagcgccc gaaagggcgt ttcttgtctc
      121 tacagaatca ttccagagag aggatcggtg cgaggggggt aaggccgatc ccgaagggtt
      181 gtccatcagg ccgtgtattt ggcctgtggg caataggtct tatccccgga gctgtttgtt
      241 ctctgccgtt cgtagagccc gcaggatctc cccggcttgt tctggggtca gcaccaccgc
      301 ggaccctcca tccctgatcg cttgcatctg ggcatccagc ccctctacca atgctctatt
      361 tatcgtcaca gtaacgttat tgtcctgctg ctttgcacgg taggctgctt gtcgttctgc
      421 ccctgtcttg gcgtttccgg tcttgggtct cccccggcca cgcttctcgc caaacatgtc
      481 tccggttccc ttatctgcgt tgtctttcat cgccctaatt cccgtcacag tgaccacaaa
      541 tattatttgt cactgtgaca caaaaatcat taatccgcac cttcaaaatc cacccatgtt
      601 aaactactaa gcaaggacac acagggggcc cgcttcgcgg tctatcccct gtggccttgt
      661 tcagggggca agccccccga aacccccgaa aaaacggagg caactgatgc cgacagagca
      721 gccaaaacgg ctcaaaacga tcaaggtcag agtcaccgaa accgagtggg ccagcttgcg
      781 ggcggcctgc cccaaagccc agttggcgga gtggatgcgc gagcactgct tgggggttgt
      841 tccccagcag cgacgcaccc caccgccaac catcgatccg gccttgctcc ggcaggtggc
      901 cgggataggt aacaacctca accagatcgc caggcgtatc aatgccagcc cgctgaccac
      961 gttggacaaa gtggaatatc tggcagcact ggccgccgtg gcccgagaac tggaggggct
     1021 acgccgtgat cgtcaaaatc catagccggg gagtcggtcg cggatctggt ccggtggaat
     1081 acctgcttgg caaagacggg aaccgggacg gggccacgct ggatcgcggc gaccccgaga
     1141 tggtcaagga gttgatagac ggcagccatt acgcccagcg gtacaccagc ggcgtgctgt
     1201 cgttccacga accggacttg ccgagggaga ccaaggaacg gttgatggac gagttcgagc
     1261 aagccctgtt gcccggactg gacgcagacc aatatgcggt gctgtgggtc gagcaccggg
     1321 acaaagaccg cctagagctg aatttcgtgg tgccgaacgt cgaacttctg tccggcaaac
     1381 gccttcagcc gtatttccac ggggcggacg gccaccggat caacgcatgg cgaacggcca
     1441 taaatggcga gttgggattg cacgacccgg acgacccaat caatcggcag gccgtgacca
     1501 cggccaaaga cctcccccgg aacaagctgg aagccgaaca agccattaca ggcggcctgc
     1561 tcggcatggc ggcggcgggg ctcttaaaaa accgggagga cgtactcaag accctgaccg
     1621 gggcggggtt tgatgttacc aggacaacca agaacagcat cagcattgcc gaccccgaag
     1681 ggggccggaa catccgccta aagggggcaa tctatgagca agattttaga catggcaaag
     1741 accttcgagc agacatcgaa gcagcaagcc gacgatatag agagcagtct gaagcccgag
     1801 ttcgagaagc acgagaaagc tatcaaaaag gcgttggact caagcaggca gagcatcagc
     1861 gacgccatcc aagaccagca gaagcggatc ggctggctcc tgctcaagag ctggggagtg
     1921 atgctgatct cggccttact gttgctggcc gcgacgagcg ggacgctgtg gtatcagggg
     1981 aacctgatcg ccgagcggca ggccacccta gaggagttag ccaagaaggg ggggaaattg
     2041 atcctcagcg acaggtgcaa ggacgagaac gggaagcacc ggttttgcat caggatgaac
     2101 gtggacgaag ggaagttcgg ggacgactac atgataccaa agggctacta aacgatgacc
     2161 gagctagaac ggcacttatt gaacgcgcta gagaccttgc agagcgagca agagcagcaa
     2221 tggcgcagct tgcaaacagc gtgcgacagc ttgctggggc tgtacgagac gacgaaaaaa
     2281 gaaaacgcga gtttgcaggg agaagtgaga gccttgcgcc agcagtgcga gcacttgagc
     2341 aagcaggtca gcagcttggc aacgcaggtc gccagcttga aggcgtgatc gcgcagcaga
     2401 cggcgcagac gcaggaaggt ttgttggacg aataccagca ggcccacgca gagcggaacc
     2461 tgtatttcaa tcggaagcat gagcagaaag agatctccgg cttgccgata gacaaggcca
     2521 gcgagtacct acaggacgcc ctagagggcc ggatagagcg gcagcaggcc agcgaactgg
     2581 ggcggggggt tgagatgtag ctgccgcgct gcgcttggcg gcccctgccc cgagcgcgac
     2641 agacttcgct agtcgcaccc gttgcaaggg cgtgatatca tcgagcacgt gtagtggcac
     2701 gtgtcacatt attggaggtc atcatggtcg cagcagcaat gcgcagcaag agaacggtca
     2761 gcgtcacgct ggagcccagc ttgctggaac gagccagagc ggcggggatc aacctgtctg
     2821 ctaccctagc caccgcgcta cagcatgaaa tcagcggctc agaggccgag cgttggaagc
     2881 gagagaacag ggaggcaatc caaaccctta atcggatggt cgaagagcgc ggcctgtttt
     2941 ctgacgatca caggacgttc tgatgcagtt cacgatctac cgcaacaagg gcaatgcccg
     3001 cgattatccc tacttgctga atgtgcaaag cgacatcatc gacgaactga acactaggat
     3061 ggtgatcccg ttggtaccgc tggcggcctt cattgggcgg ccagcgcaac gactaaaccc
     3121 cgttatttcc gtcgaaggaa aaaagcatct ggtgttgacc caagaaatgg cgtcggttcg
     3181 gttggggcag cttggagagg aagtcactga cgtgcaggag tctcgtcagc tcatcaagga
     3241 ctcaatagat ttcctactgg atggagtgta aggcatgaac aaccccgaga aataccggcg
     3301 gatcggtgta atggttgccg gtgtggatta tcagagcctc gatcattggg tcaaagcgtg
     3361 caacatagcg gcgaatgtcg gccagataca ggcatttcgg gtgctgctca aggaggctac
     3421 cgaccagggc aagcccttgg catggcccca cggcggcaat catgtgatca tcggccgccg
     3481 tcttaactga ggtaactgcc gcgcagcgct cgcctcgtcg gctccagtgg agtaacctgc
     3541 tgaccagaaa aaacaaaacc ccgttgctgt gcatctatct tggcggagag aacactggcg
     3601 aacggggccg acttaactcc ccatacgggg agtaaaacca taggtgaata ctaccacatg
     3661 gatcacatca aacaacccag ccccgccaat aagcgccggg cgcgatgaca aaaaaagcct
     3721 ttatcgggaa tcttccccag cgtccctatt gcactgacga tacatcgtca ggtctgctca
     3781 ttcgtccgca ggctaccgcg ctggcctatc gccatatcca gtacaaccca ccgccgcatg
     3841 tggcgtcttt ggtattcgac ttggataagc cggacagtta ccacgcttgg caggatgcgg
     3901 gcttgcctgc cccgcactgg atcagcgtta accgcacgaa cggacatgcc catatcgggt
     3961 acatgttggc gaccccagta gcccgtacca gcgccgcacg gcaaaagccg ttgcgctatc
     4021 tggccgccat agaacacgtt ctagcgaagc ggctaggggc cgacatgggg tattcagggc
     4081 tgatcaccaa aaaccccacc catagcgatt ggctcaccgt ctggcaccaa atcgagccct
     4141 acagcctcga ctacctcgcc gagttctgcc cagacgccga tttggcggcc tatagccgcc
     4201 gcagtcgcaa agaggttggc gggctggggc gtaacgtcac ggtgttcgat aacgtacgtg
     4261 aatgggccta cagctcggtt agagcgtatt ggcggcccaa cgggtatgag gcttgggccg
     4321 atgcggtgag atctgcttgt gagagcgcca atgcgtttgg ccgtgagcag ggtggcccgc
     4381 tgcccgtgtc ggagatcaag gccacggcca agagcatcgc ccgttgggtg tggcggaacc
     4441 tcaccccgtc cacgttcgcg gattacgttg atcggacaca taccaccgag attcaggccg
     4501 ctagaggggc caagggtggc aaagtatcca agcgcccaac caagggcggc atgagcaagg
     4561 ccgagctgtt gccggaggtg atcaggctta aggcgctggg ctacagcaat cga
//
