LOCUS       NZ_CP057920             2064 bp    DNA     circular CON 02-APR-2024
DEFINITION  Escherichia fergusonii strain RHB10-C04 plasmid pRHB10-C04_3,
            complete sequence.
ACCESSION   NZ_CP057920
VERSION     NZ_CP057920.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148055
            Assembly: GCF_013899845.1
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                     :: RH15 T1-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 93.0350365511159x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013899845.1-RS_2024_04_02
            Annotation Date                   :: 04/02/2024 04:31:39
            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)                     :: 4,556
            CDSs (total)                      :: 4,439
            Genes (coding)                    :: 4,302
            CDSs (with protein)               :: 4,302
            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)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 46 of 137
            Pseudo Genes (incomplete)         :: 80 of 137
            Pseudo Genes (internal stop)      :: 20 of 137
            Pseudo Genes (multiple problems)  :: 11 of 137
            Pseudo Genes (short protein)      :: 2 of 137
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP057920.1.
            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="RHB10-C04"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:564"
                     /plasmid="pRHB10-C04_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(457..1446)
                     /locus_tag="HVW38_RS22650"
                     /old_locus_tag="HVW38_22655"
     CDS             complement(457..1446)
                     /locus_tag="HVW38_RS22650"
                     /old_locus_tag="HVW38_22655"
                     /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          complement(368..454)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.182"
                     /coverage="95.0"
                     /evalue="9.44e-28"
     Typing          540..731
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 gcgtgtgacg gtattacaat tacacatcct gtcccgaaaa ttcccgccgt ttctcggttt
       61 tttgagcgtc gcagaccgca cgacaaacga aacgaagtga agtttgtata agtgcgcact
      121 tcgtgagatt ccccgactgc cagtttgtcg atcgcgcgga acggctgcgg cacaaaaacg
      181 gcaaaatgat ttgctgtccg ttcgccgaaa tttttgcgta gctgtggtgg ctgcggtgcc
      241 aaaaatcatc cgcgcgttaa gtgtggatgc gcacttagta gtttctctcc ttcgtcggga
      301 aactgtgcgc tcctgcggag gggttaacgg cgcagaactg ccgatgctct gccagcgttc
      361 tggcgaaaaa atcgggacag gatgtgtaat tgtaataccg tcacacgcga cgctatcaca
      421 attaccacct ggtcagggct gcgccccgac accctgctag tctgattcag ttttatcttt
      481 cgtcggtgag cggcggtact ttctgacctc ggttttccat tcgaacgcga tgcgtgaacc
      541 gtcatcgtcg ccctcggaaa tatcatctcc gatcaccatg tcggcgtcgg tttcctgatc
      601 gagtttcagc acatctttga gtgcgccgcc ggtcgccaca aagcggcgct tgtgcgtctg
      661 gcgagtcagt tcgaggaacc attcaggatc ggccaccatg tcagccggct tcgtggaata
      721 tttcagggtt tcggccactg cgccgcgcac cagttcagcg gtcgcgcagg ctaaggactc
      781 gccatccttc ggcttgcggg gtttcactgc ccggacatca acattcgggt cataatcaac
      841 ccgcaggcac tcccgccata gctcaaccca gcgttcatgc ctgacgtaac ttttcccatt
      901 tagcatgcca ggaggagcca tcatcaaggt atggaagtgc gggtgtgcgc tgccgtcgct
      961 gccgcgggta acttccgttg tgcggatcca gccctgaaca ggcaggaact ccttgcgaac
     1021 cttcatacgc tgaaaagctg cattcatccg gttcagcatc tcgcccagtt ccccaatcgc
     1081 acagttgcgc acggtcaggg tcaggaacat ccagcgggca tcgggataat ccgccacgat
     1141 acgcgacagg gactggtaga aacgggcttg ccacatcagg gagcgcctcc actggcagac
     1201 aggacagtgc cggacacggc agaaatgtgc ctcacgcagc ctcagacgcg tttctccggt
     1261 ttccttgagg gtagaccacc cgaaacgcag taaaccgcca caggaagcca tacgagcccc
     1321 gtagtgctca tattcggccg caagcaggta aatccctccc acgtcgtcag aaacgcttct
     1381 gtgtgcgtcc cagggcgcat cagaggggga ataatcagtg aggtactgga gtttagggtt
     1441 ttgcatgcac accgccccat actgggcgat ggctcgattg acgtgttatc attgccatat
     1501 cacctgttgc tctcatcatg aatccagttt ctgcaggtgg tcacaccccc gaacgatgcc
     1561 cgtcgttgcg ggggtcactt ttaacgcaac cactcccgac agaataactc caaaaccatt
     1621 ttccgacaaa tcccccctca ggccttgcgg cacaagggct ggaggcgaat ttgaatccta
     1681 gagttatccc ttaagtataa atacaaggat cacgcgcgag atttgcttga attttgagct
     1741 ggattttcag taaccaaaaa cctcccaacc ccacccactt acacccatct catccacaga
     1801 ctttcacccc gattttgtga acaacaaaaa accgtcttgc aggtggttgg cctcactccg
     1861 tgacaccaac caccatcccc agtgttttcc ccgtgccgtc gtcaatcaca aaatcggaac
     1921 ccacgccaga ggcgcggggc cccgcgattt tctgtttgac gagttcggga acggtgagcg
     1981 gtacgcggaa ttttttcgcg ggccgtgagg cgttggcggg gtgtcggggc gcagccctga
     2041 ccaggtggta attgtgatag cgtc
//
