LOCUS       NZ_CP095793             3003 bp    DNA     circular CON 21-APR-2024
DEFINITION  Escherichia fergusonii strain EF21JD053 plasmid pJD053-3K, complete
            sequence.
ACCESSION   NZ_CP095793
VERSION     NZ_CP095793.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN27582503
            Assembly: GCF_023094055.1
KEYWORDS    RefSeq.
SOURCE      Escherichia fergusonii
  ORGANISM  Escherichia fergusonii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3003)
  AUTHORS   Tang,B., Guan,C., Lin,H., Liu,C., Yang,H., Zhao,G. and Yue,M.
  TITLE     Emergence of co-existence of mcr-1 and blaNDM-5 in Escherichia
            fergusonii
  JOURNAL   Int J Antimicrob Agents 61 (3), 106742 (2023)
   PUBMED   36736926
REFERENCE   2  (bases 1 to 3003)
  AUTHORS   Tang,B., Guan,C., Lin,J., Yang,H. and Liu,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-APR-2022) Institute of Agro-product Safety and
            Nutrition, Zhejiang Academy of Agricultural Sciences, 198 Shiqiao
            Road, Hangzhou, Zhejiang 310021, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. JAN-2022
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023094055.1-RS_2024_04_21
            Annotation Date                   :: 04/21/2024 14:02:40
            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)                     :: 5,120
            CDSs (total)                      :: 5,003
            Genes (coding)                    :: 4,813
            CDSs (with protein)               :: 4,813
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 190
            CDSs (without protein)            :: 190
            Pseudo Genes (ambiguous residues) :: 0 of 190
            Pseudo Genes (frameshifted)       :: 60 of 190
            Pseudo Genes (incomplete)         :: 141 of 190
            Pseudo Genes (internal stop)      :: 31 of 190
            Pseudo Genes (multiple problems)  :: 37 of 190
            Pseudo Genes (short protein)      :: 2 of 190
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP095793.1.
            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..3003
                     /organism="Escherichia fergusonii"
                     /mol_type="genomic DNA"
                     /strain="EF21JD053"
                     /isolation_source="cecal contents"
                     /db_xref="taxon:564"
                     /plasmid="pJD053-3K"
                     /geo_loc_name="China:Zhejiang"
                     /collection_date="2021-12"
     gene            complement(4..327)
                     /gene="mobA"
                     /locus_tag="MYB88_RS25480"
                     /old_locus_tag="MYB88_25475"
     CDS             complement(4..327)
                     /gene="mobA"
                     /locus_tag="MYB88_RS25480"
                     /old_locus_tag="MYB88_25475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            612..806
                     /locus_tag="MYB88_RS25485"
                     /old_locus_tag="MYB88_25480"
     CDS             612..806
                     /locus_tag="MYB88_RS25485"
                     /old_locus_tag="MYB88_25480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_072842285.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDTLDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1277..1423
                     /locus_tag="MYB88_RS25490"
                     /old_locus_tag="MYB88_25485"
     CDS             1277..1423
                     /locus_tag="MYB88_RS25490"
                     /old_locus_tag="MYB88_25485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /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_077251022.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKAPLAAAIGKRVYKILLT
                     QSS"
                     /name="replication initiation protein"
     gene            1763..2071
                     /locus_tag="MYB88_RS25495"
                     /old_locus_tag="MYB88_25490"
     CDS             1763..2071
                     /locus_tag="MYB88_RS25495"
                     /old_locus_tag="MYB88_25490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017134632.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="WP_072842281.1"
                     /translation="MKNSFELISTDPVKFNTWSIKSKLIIIIRKLMIDNNWSQSEAAEK
                     LGISQPRVSNMLNGKLDKFSIDTLLEMVFKMGYKLDMDFNPLKTESPLTMVVKKAMV"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(2088..2420)
                     /locus_tag="MYB88_RS25500"
                     /old_locus_tag="MYB88_25495"
     CDS             complement(2088..2420)
                     /locus_tag="MYB88_RS25500"
                     /old_locus_tag="MYB88_25495"
                     /inference="COORDINATES: protein motif:HMM:NF017757.4"
                     /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_072842283.1"
                     /translation="MSNDDTEYTFKPVNAQALKALRSLPEWVQVAFVHALDSVFYGVDP
                     GMPIVHLTSIGPGVVELKINGRPAYRCVYRSKAPGQVDLLHAFVKTCQGPDKKNMATAT
                     SRYKLL"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          complement(337..577)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.347"
                     /coverage="100.0"
                     /evalue="3.56e-116"
     Typing          842..1346
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.692"
                     /coverage="95.0"
                     /evalue="4.94e-158"
     Typing          complement(8..327)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.41e-62"
ORIGIN
        1 aagctaatct gccataagcc tggataacag ggcacggtga tactccgtaa tagcgatcag
       61 cacctccgca tactccctgt ccccgacacg cttgccgtcg ataaagagtt ttttctgtaa
      121 cgcccccagt ctcataactt ctttcagtac ccgatcatca gtcagtgagt taactttctt
      181 accgagagct gccgcccgta aaaaaccgga aacagtcttg ccgcattcag cagccctttt
      241 tctgatttcc tggtcttctt ctgccgtcag acgaacaggg cgactgatag cccgcctgcg
      301 cgtattactt ccacttcgtt ttgtcataaa acatggctcc gtatctgaca tggggtgtcg
      361 gggcgaagcc ctgaccaggg taattgtaat agcgtgcatg tatgcgcggt ataacaattg
      421 cacatcctgt cctgtcagca agttcgaatt accgacaaag gcacggcagt tttttggcag
      481 tgacagtgtt gtccgacaga aatgcccgtc aaagagtcag acagcagaat accgacggta
      541 aaacagtcga aaagtggtac gcgatataat cacacaacgc agatgacaga aagaacggag
      601 aaaacagaaa gatgaacaag cagcagcaaa ccgtactcaa catggcagga ttcataaaaa
      661 gccagagcct gacgctgctc gaaaaactgg acacacttga tgctgacgaa caggccgcca
      721 tgtgtgagaa gctgcacgaa ctcgcggaag aacttcagaa cagcatacag acacgctttg
      781 aagcggaaaa tcgcaccggg atataacgca tcaggacagg atgcagaacg gcatagagga
      841 gcgtaaggag aaaatgtcac ataaggcgct cttccgcttc ctcgctcact gactcgctac
      901 gctcggtcgt tcgactgcgg cgagcggtgt cagctcactc aaaggcggta atacggttat
      961 ccacagaatc aggggataaa gccggaaaga acatgtgagc aaaaggcaaa ggcccagaag
     1021 aagggcgcac aggaggcgtt tttccatagg ctccgccccc ctgacgagca tcacaaaaac
     1081 cgacgctcaa gtcagaggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
     1141 cctggaagct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccaa tgtcattccg
     1201 ctgttatggc cgcgtttgtc tcattccacg cctgacactc agttccgggt aggcagttcg
     1261 ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gaccgctgcg ccttgtccgg
     1321 taactatcaa cttgagtcca acccggaaag acacgacaaa gcgccactgg cagcagccat
     1381 tgggaagagg gtgtacaaga tattactgac gcagagttct tgaagtcaga gccaaactac
     1441 agctaaacta aaaagacaga atttggtttc agcggtcttg tacaccctgt taccatggtt
     1501 cagaagttcc ccaactcact gaaccctcaa aaaaaccgcc tccccaggcg gtttttttgt
     1561 ttcttgaaca agactactct ttgcttaaga gtcacgtcaa taccatcatt gttacttgca
     1621 agatcaaatg caattcacat ctttttctct tgaaagagat atcattactt gtataatgcc
     1681 ccgcccatat atatatatat aaggagttcc ttgtcggaac ttttatcatc gaggtacagg
     1741 taatccaaca tggagctgtt ctatgaaaaa ttcatttgag ctgataagta ccgacccggt
     1801 gaaattcaac acatggtcga taaaatcaaa actcataata ataatcagaa agttaatgat
     1861 cgataacaat tggtctcaat ctgaagcagc tgaaaagcta ggtatcagtc agccccgagt
     1921 aagtaacatg ctgaacggga agctagacaa attctccatc gacacattgt tagaaatggt
     1981 gttcaagatg ggttacaagc tagatatgga tttcaaccca ttaaaaacag aatcaccact
     2041 cacaatggtt gtaaaaaagg cgatggtgta agcatcgcct ttatggatta caacaacttg
     2101 tagcgtgatg ttgcggttgc catattcttc ttatcgggtc cttgacacgt tttcacgaac
     2161 gcatgcagca agtccacttg acctggagct ttgctgcgat aaacgcaacg ataagcaggg
     2221 cgaccattga ttttcaactc aacaacaccg ggtccgatgg acgtcaagtg cacgatgggc
     2281 atccccggat ccactccgta gaaaactgaa tccaatgcgt gcacgaatgc aacctgaacc
     2341 cactcaggga gtgatctcaa tgcctttaaa gcctgggcat taacaggttt gaacgtatat
     2401 tcagtgtcgt cgtttgacat agcaatcctc tcttaggtta ttgatgttta acaaattaac
     2461 taccgtattg atatttcgca taaatactcc gattaattga tctgtgagca taaaaaaacc
     2521 acaccgccct attttttagg tcagtgcgcg tatggtcatt agctcgtaga accaataatt
     2581 attggcaatc tcgccaatac tgacacagta tacaaatact tatatgcaat caagttttat
     2641 caaaggtata caaaactaac cgctcaaaaa aaaagcggtt taccttaagt catgacacta
     2701 aagagggtta tttaggcaaa cagaactgta gccagagaag cccgattgct agataaaaac
     2761 caatgaagaa acctcgccaa tgatagattt accataatcc cttaattgta cgcaccgcag
     2821 aaacgcgctg aacgggattc tgccgcagac accgcaaaaa gagatgtgtt accaagcgaa
     2881 aaccggaaaa atgcgtcagg atcgttttca gctcgctgca tagctatgca tgaaagcgaa
     2941 tggtgatcac tttgggagct tacggtgttc ataccgtctg ttttcgacag ttttctctcc
     3001 ggg
//
