LOCUS       NZ_CP056825             4386 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. RHBSTW-00137 plasmid pRHBSTW-00137_4, complete
            sequence.
ACCESSION   NZ_CP056825
VERSION     NZ_CP056825.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148508
            Assembly: GCF_013790835.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. RHBSTW-00137
  ORGANISM  Citrobacter sp. RHBSTW-00137
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1  (bases 1 to 4386)
  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 4386)
  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                     :: WTP1 T1-00137
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 89.8124067554789x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 13:57:48
            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)                     :: 5,379
            CDSs (total)                      :: 5,263
            Genes (coding)                    :: 5,090
            CDSs (with protein)               :: 5,090
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 80
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 45 of 173
            Pseudo Genes (incomplete)         :: 132 of 173
            Pseudo Genes (internal stop)      :: 36 of 173
            Pseudo Genes (multiple problems)  :: 33 of 173
            Pseudo Genes (short protein)      :: 1 of 173
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056825.1.
            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..4386
                     /organism="Citrobacter sp. RHBSTW-00137"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00137"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:2742638"
                     /plasmid="pRHBSTW-00137_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4300..4386,1..186)
                     /locus_tag="HV091_RS26790"
     CDS             join(4300..4386,1..186)
                     /locus_tag="HV091_RS26790"
                     /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_220132918.1"
                     /translation="MLNPQTGVLVFVETGHQCLFPFVHKTRLFRLGNVGFLKGQHAGGV
                     GTGKVTAVNQFAGAFGVSPQHAGVTALAIFAQQVINGATARTGTP"
                     /name="hypothetical protein"
     gene            complement(194..520)
                     /gene="mobC"
                     /locus_tag="HV091_RS26680"
                     /old_locus_tag="HV091_26670"
     CDS             complement(194..520)
                     /gene="mobC"
                     /locus_tag="HV091_RS26680"
                     /old_locus_tag="HV091_26670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_001715145.1"
                     /translation="MEKRTREIKIRLTDSEHQRLIDRCDRTHLAEWLRQLGLGEHTARK
                     RRLPDVAPELLRQVSGIGNNLNQIARRLNQLDGLNPTERVSLLAVLNSLDRNLGELLEQ
                     HRDR"
                     /name="mobC"
     gene            complement(765..1265)
                     /locus_tag="HV091_RS26685"
                     /old_locus_tag="HV091_26675"
     CDS             complement(765..1265)
                     /locus_tag="HV091_RS26685"
                     /old_locus_tag="HV091_26675"
                     /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_001715146.1"
                     /translation="MFGFFRKKISSNQVDLYVSDKILGVAKKVVAIVEANGVTIVDGEG
                     VVFLAAGLFLNATYLKEHGRKSDAVRVKVIGFVKHYLDSTDDQSMLERLSDNTRWFSQG
                     NMSGYWFLNQVIGDLCGLKVNPIHQQILSNEVLDTLLKFFHERTVTISKTLSEDIYPFY
                     NPA"
                     /name="hypothetical protein"
     gene            complement(1265..2155)
                     /locus_tag="HV091_RS26690"
                     /old_locus_tag="HV091_26680"
     CDS             complement(1265..2155)
                     /locus_tag="HV091_RS26690"
                     /old_locus_tag="HV091_26680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /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_079967944.1"
                     /translation="MNNAALQLFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRIGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLKYAAAVENALRKKLDADTGYSGLICKNPNHGHWKIAVWQPELYTLDWLADSLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPQYEQWLQACYERARAYNLQFSAPLD
                     ENEVSGIAKSIAKWTYKNFSEANFLQYVADTHSSEIQSKRGMKSRGGGRPKIVGSPWLN
                     LGISRSKWYRDFRGL"
                     /name="replication initiation protein"
     gene            complement(2349..2633)
                     /gene="nadS"
                     /locus_tag="HV091_RS26695"
                     /old_locus_tag="HV091_26685"
     CDS             complement(2349..2633)
                     /gene="nadS"
                     /locus_tag="HV091_RS26695"
                     /old_locus_tag="HV091_26685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            complement(2635..2967)
                     /locus_tag="HV091_RS26700"
                     /old_locus_tag="HV091_26690"
     CDS             complement(2635..2967)
                     /locus_tag="HV091_RS26700"
                     /old_locus_tag="HV091_26690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_001715142.1"
                     /translation="MSHTIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(3123..3368)
                     /locus_tag="HV091_RS26795"
                     /old_locus_tag="HV091_26695"
     CDS             complement(3123..3368)
                     /locus_tag="HV091_RS26795"
                     /old_locus_tag="HV091_26695"
                     /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 family mobilization/exclusion protein"
                     /protein_id="WP_306303658.1"
                     /translation="MSKTMTEMEKQLLSALESLQASYEQQQEAWQDSYSSLQHMFEATS
                     QALTHSDRVCQRLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3417..3902)
                     /locus_tag="HV091_RS26800"
                     /old_locus_tag="HV091_26700"
     CDS             complement(3417..3902)
                     /locus_tag="HV091_RS26800"
                     /old_locus_tag="HV091_26700"
                     /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_139764470.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFARLEKSISAELQSSS
                     QSISNAIREQNGRLTGMLRTSVSTAMAWIFICFALLIGILGGIIWFQGTIITSRLSEMD
                     SYSQLLASLKAKSGAGVTIYSDEKNRNTYLAVLPKQAHGVETYTSQAGNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            complement(<3949..4371)
                     /locus_tag="HV091_RS26805"
                     /old_locus_tag="HV091_26705"
                     /pseudo=""
     CDS             complement(<3949..4371)
                     /locus_tag="HV091_RS26805"
                     /old_locus_tag="HV091_26705"
                     /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"
     Typing          195..387
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.969"
                     /coverage="100.0"
                     /evalue="1.72e-93"
     Typing          complement(5..204)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.075"
                     /coverage="89.0"
                     /evalue="1.48e-29"
     Typing          complement(3038..4386)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="86.222"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 aggctcggca atgtcggctt cctgaaagga cagcacgccg gaggtgtagg cacgggcaaa
       61 gtcacagccg tcaatcagtt cgcgggtgcg ttcggcgtct ccccgcaaca cgcgggcgtc
      121 actgcgctgg cgatctttgc ccagcaggta atcaacgggg ccactgcccg aaccggcacc
      181 ccgtgagtga attttaacga tcacggtgct gctccagcag ttcaccgaga ttgcggtcga
      241 ggctgtttaa caccgccagc agggacacac gctcagtggg attcagtccg tcgagctggt
      301 taagacggcg ggcgatctgg ttcaggttgt tgccaatccc gctgacctgt cgcagcagtt
      361 cgggcgccac atcgggcaga cggcgctttc tggcggtgtg ttctcccaga ccgagctgac
      421 gcagccattc ggccagatgg gttcggtcac accggtcgat cagacgctga tgctctgagt
      481 cagtcaggcg gattttgatc tctctcgtgc gcttttccat tcttactccg ctgagaaata
      541 ttcgcaccca aagtgcgaaa gtttcgcagt ggatgcccgg ggtttcgggg ggcggcgagc
      601 cccctgaacc agtcacagac ggcacctcgt agaggggacg ctgtgtgtac tggcttaaag
      661 agtaatgcag tatgtcagat tctgtgctgg ctgcaaaaaa aaagccccgc ttatacgggg
      721 ctgttatctg atataggttg ttttgtccca aactacgaaa acagtcaggc tggattataa
      781 aatggatata tgtcttcact gagggtttta ctgatagtga ccgtgcgctc gtggaaaaat
      841 ttcagcagtg tatctagtac ttcgtttgat agaatttgtt gatggatggg attaaccttc
      901 aatccgcaaa ggtccccaat gacttgatta agaaaccaat aacccgacat gttcccttga
      961 gaaaaccagc gggtgttatc agataatctt tccagcatac tttgatcatc tgttgaatct
     1021 aggtagtgct ttacaaaacc aataacttta actcttacag cgtctgattt tctcccatgt
     1081 tccttaagat aagtagcatt gagaaaaagc ccagcggcta aaaatacaac accttcgcca
     1141 tcaacgatgg ttacgccatt agcttcaact atggctacaa ccttctttgc aacacctaga
     1201 atcttatcgc taacgtataa gtcgacttga ttgctgctaa ttttttttct aaaaaaacca
     1261 aacattataa ccctctaaaa tctctatacc atttagaacg actgattcct aaattaagcc
     1321 aagggcttcc gacaatcttt ggccttcccc ctcctcgact tttcattcct cttttcgatt
     1381 gaatttcaga tgagtgagta tctgcaacat attgcaaaaa attagcttca gagaagtttt
     1441 tgtatgtcca tttagcaatg ctcttagcta ttccactaac ttcattttca tccagagggg
     1501 cagaaaattg caggttgtaa gctctggccc gctcatagca ggcttgcagc cattgctcat
     1561 actgcggcca gccctgacgg atagcgcggt aagcccactt gcgtgtttta tcgaaaagag
     1621 tgcagttacg gcctaagccg taatcggcaa cgatttcttt atcgttcgcg gcgttcaggt
     1681 cgagcgagtc ggccagccag tccagcgtgt agagttccgg ctgccagacg gcaattttcc
     1741 agtgaccatg gttcgggttc ttgcaaatta accccgaata tcccgtgtca gcatccagtt
     1801 ttttacgtag cgcgttctct acggcagcgg cgtacttcag cggcttcatt tttccatctg
     1861 gtgcagtgcg tatcgaggtt ttcagcgcat agagcaggtg agcatgacca ttttcggggt
     1921 tggtgatggt cagcgtaggc gcgggcgcat tgcgatcgct ccagtcgatg gcggcaccga
     1981 tacggtcaac gtcaaaaccg agccagaaca tggcgtgagg ctggttgaac tggatgtatt
     2041 tcgccagaat cgcgcgctcc ttaccggcaa tgcgtacacc aaagtgcaga tcgtccgaaa
     2101 agtacggctt gtgcggtaag cgttcgttga aaagttggag tgcagcgtta ttcaaagcgc
     2161 cctgcactta tggcgggctg ttgtctggca cgtttcatgt gctaatatcc tttcaaggtt
     2221 tcgtacctgg ccctggttat catgcggatc cgccaagatt tgagcatgat gccggggctt
     2281 tgttttttct gttgccgtta aattacacgc gaacggcctc gcctgtcgaa tccttctgtc
     2341 acaacggctt agtgcgccgc cagctcctgg aagaatttcg ggttcgcctg gatggttgcc
     2401 agcaccttcg ccgccagtcc ggtcggatta cggcgtccgg tttcccagct ttttatggtg
     2461 tcgaggctgg ttcccagcac tttcgccatc tcactctgtg aaacgttcag ttgtgccctg
     2521 atagccttca cgtctgccag ctcgtaacgg gtgacgcggg caggctctct gacgccgttt
     2581 ttgatttcaa cggcttcttc cagcgatgct ttcagctcgt caaaaaaact catgtcacac
     2641 ctcgtctttc agttgttggg tcagcgtctt cagcgcggct ttctccgcgt ccgtcaggct
     2701 gtctttggtg cttttcgggt aggccatcac cagataaatc acctcggcgg tggccagaaa
     2761 ataaatcacc ctcgcgctgc cgctttttcc ctggttgccc gtcgccattc tgacttttcg
     2821 cagcccgccg gttttctgga tgagatcgcc tttgtccggc gactcaatca gcgtcttttg
     2881 cagctccctg agctcttcat ccgtggcgat ctgttttatc tgacgggtaa acatcggggt
     2941 ctcgataaat tcaatcgtgt gactcacggt tgtctcctgt atctaacgga gtacatagta
     3001 cacttaattc tgattccgga aaagaggtca catcgagggg ccatagtacc gggtcggctt
     3061 tttctgcggc tccggctgtt gctcgcgcag cttttccgca cgggcgcggt catgctgcgc
     3121 aatcagcgca tcaagcggct gacgttcctg ctcaagctct cgacctgcgc gcgcaagctc
     3181 tctacctgac tgctcaagcg ctgacacacc ctgtcgctgt gcgtcagcgc ctgtgaggta
     3241 gcctcgaaca tgtgctgcaa actgctgtag ctgtcctgcc acgcctcctg ctgttgctcg
     3301 tagcttgcct gtaagctctc taaggcgctc agaagctgtt tttccatctc ggtcatggtt
     3361 ttgctcatcc tcggtgttaa aaccgctcag acgcgattca gggcgttctg atgaggttat
     3421 ttcgccgtgt atttcaccac ggtattcccg gcctgcgagg tgtaggtttc cacgccgtgc
     3481 gcctgcttcg gcagcaccgc caggtaggtg ttccggttct tttcgtcgct gtaaatcgtc
     3541 acgcccgcgc cgcttttcgc tttcaggctc gccagcagct gactgtagct gtccatttcg
     3601 ctcaggcgtg aggtgatgat cgtgccttga aaccaaatta tcccgcccag gatgccaatc
     3661 agcagggcga agcagatgaa tatccacgcc atcgccgttg agactgacgt tctgagcatg
     3721 cccgtcaacc tgccgttctg ctcgcggata gcgttgctga tgctctgcga gcttgattgc
     3781 agttccgcgc tgatagactt ctccagcctc gcgaactcgc gcttcacgct ctgctcggta
     3841 tcctgcgcct gctgcttcga tttctcctcg aagcccttcg ccaaatttaa aatctcgctc
     3901 ataaatcatt cctttcagcc ggatatttct gccgccgtcc ggatcggcaa tgctgatgct
     3961 gcttttcgtt tcccgcgcca cggtcaggcc gtagctttcc agctgcgtca ccacgtcctg
     4021 ccggctgcgg atcacgccct gctgcatcag gttcatcagg ccggcggtga ttttctctgc
     4081 cgcctgctgt ttgtcgcggg gcagatcact ggcctgcgta agcgggcggc ggtaggtcgg
     4141 gtcattcggg tcgcgtagcc ccagccggtc gttggtcagg gtctgccagg cgttgacgcg
     4201 gggacggtcg gcgcggtcga aatagggttg cagacgtttc ccgctctgta attcgatgtt
     4261 cgggatcacg aagttcagct cgaggcggcc tttgtcctga tgctcaaccc acagacaggc
     4321 gtactggtct ttgtcgagac cggtcatcag tgtctgttcc cattcgtcca taagacgcgc
     4381 cttttc
//
