LOCUS       NZ_CP056918             2064 bp    DNA     circular CON 02-APR-2024
DEFINITION  Escherichia fergusonii strain RHB42-C24 plasmid pRHB42-C24_3,
            complete sequence.
ACCESSION   NZ_CP056918
VERSION     NZ_CP056918.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148442
            Assembly: GCF_013798785.1
KEYWORDS    RefSeq.
SOURCE      Escherichia fergusonii
  ORGANISM  Escherichia fergusonii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2064)
  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 2064)
  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                     :: RH12 T3-C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 159.720754205215x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013798785.1-RS_2024_04_02
            Annotation Date                   :: 04/02/2024 04:25:53
            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)                     :: 4,558
            CDSs (total)                      :: 4,441
            Genes (coding)                    :: 4,301
            CDSs (with protein)               :: 4,301
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 47 of 140
            Pseudo Genes (incomplete)         :: 82 of 140
            Pseudo Genes (internal stop)      :: 20 of 140
            Pseudo Genes (multiple problems)  :: 11 of 140
            Pseudo Genes (short protein)      :: 2 of 140
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056918.1.
            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..2064
                     /organism="Escherichia fergusonii"
                     /mol_type="genomic DNA"
                     /strain="RHB42-C24"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:564"
                     /plasmid="pRHB42-C24_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(1239..2064,1..164))
                     /locus_tag="HV025_RS22650"
                     /old_locus_tag="HV025_22660"
     CDS             complement(join(1239..2064,1..164))
                     /locus_tag="HV025_RS22650"
                     /old_locus_tag="HV025_22660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_181576157.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLSRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          737..818
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="96.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(1150..1236)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.182"
                     /coverage="96.0"
                     /evalue="9.44e-28"
     Typing          1322..1513
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 aaacgcagta aaccgccaca ggaagccata cgagccccgt agtgctcata ttcggccgca
       61 agcaggtaaa tccctcccac gtcgtcagaa acgcttctgt gtgcgtccca gggcgcatca
      121 gagggggaat aatcagtgag gtactggagt ttagggtttt gcatgcacac cgccccatac
      181 tgggcgatgg ctcgattgac gtgttatcat tgccatatca cctgttgctc tcatcatgaa
      241 tccagtttct gcaggtggtc acacccccga acgatgcccg tcgttgcggg ggtcactttt
      301 aacgcaacca ctcccgacag aataactcca aaaccatttt ccgacaaatc ccccctcagg
      361 ccttgcggca caagggctgg aggcgaattt gaatcctaga gttatccctt aagtataaat
      421 acaaggatca cgcgcgagat ttgcttgaat tttgagctgg attttcagta accaaaaacc
      481 tcccaacccc acccacttac acccatctca tccacagact ttcaccccga ttttgtgaac
      541 aacaaaaaac cgtcttgcag gtggttggcc tcactccgtg acaccaacca ccatccccag
      601 tgttttcccc gtgccgtcgt caatcacaaa atcggaaccc acgccagagg cgcggggccc
      661 cgcgattttc tgtttgacga gttcgggaac ggtgagcggt acgcggaatt ttttcgcggg
      721 ccgtgaggcg ttggcggggt gtcggggcgc agccctgacc aggtggtaat tgtgatagcg
      781 tcgcgtgtga cggtattaca attacacatc ctgtcccgaa aattcccgcc gtttctcggt
      841 tttttgagcg tcgcagaccg cacgacaaac gaaacgaagt gaagtttgta taagtgcgca
      901 cttcgtgaga ttccccgact gccagtttgt cgatcgcgcg gaacggctgc ggcacaaaaa
      961 cggcaaaatg atttgctgtc cgttcgccga aatttttgcg tagctgtggt ggctgcggtg
     1021 ccaaaaatca tccgcgcgtt aagtgtggat gcgcacttag tagtttctct ccttcgtcgg
     1081 gaaactgtgc gctcctgcgg aggggttaac ggcgcagaac tgccgatgct ctgccagcgt
     1141 tctggcgaaa aaatcgggac aggatgtgta attgtaatac cgtcacacgc gacgctatca
     1201 caattaccac ctggtcaggg ctgcgccccg acaccctgct agtctgattc agttttatct
     1261 ttcgtcggtg agcggcggta ctttctgacc tcggttttcc attcgaacgc gatgcgtgaa
     1321 ccgtcatcgt cgccctcgga aatatcatct ccgatcacca tgtcggcgtc ggtttcctga
     1381 tcgagtttca gcacatcttt gagtgcgccg ccggtcgcca caaagcggcg cttgtgcgtc
     1441 tggcgagtca gttcgaggaa ccattcagga tcggccacca tgtcagccgg cttcgtggaa
     1501 tatttcaggg tttcggccac tgcgccgcgc accagttcag cggtcgcgca ggctaaggac
     1561 tcgccatcct tcggcttgcg gggtttcact gcccggacat caacattcgg gtcataatca
     1621 acccgcaggc actcccgcca tagctcaacc cagcgttcat gcctgacgta acttttccca
     1681 tttagcatgc caggaggagc catcatcaag gtatggaagt gcgggtgtgc gctgccgtcg
     1741 ctgccgcggg taacttccgt tgtgcggatc cagccctgaa caggcaggaa ctccttgcga
     1801 accttcatac gctgaaaagc tgcattcatc cggttcagca tctcgcccag ttccccaatc
     1861 gcacagttgc gcacggtcag ggtcaggaac atccagcggg catcgggata atccgccacg
     1921 atacgcgaca gggactggta gaaacgggct tgccacatca gggagcgcct ccactggcag
     1981 acaggacagt gccggacacg gcagaaatgt gcctcacgca gcctcagacg cgtttctccg
     2041 gtttccttga gggtagacca cccg
//
