LOCUS       NZ_CP056144             3258 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Klebsiella michiganensis strain RHBSTW-00909 plasmid
            pRHBSTW-00909_9, complete sequence.
ACCESSION   NZ_CP056144
VERSION     NZ_CP056144.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148741
            Assembly: GCF_013732655.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella michiganensis
  ORGANISM  Klebsiella michiganensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3258)
  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 3258)
  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 T3-00909
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 120.157574954315x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/02/2023 16:20:10
            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)                     :: 6,484
            CDSs (total)                      :: 6,360
            Genes (coding)                    :: 6,136
            CDSs (with protein)               :: 6,136
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 224
            CDSs (without protein)            :: 224
            Pseudo Genes (ambiguous residues) :: 0 of 224
            Pseudo Genes (frameshifted)       :: 83 of 224
            Pseudo Genes (incomplete)         :: 171 of 224
            Pseudo Genes (internal stop)      :: 42 of 224
            Pseudo Genes (multiple problems)  :: 62 of 224
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056144.1.
            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..3258
                     /organism="Klebsiella michiganensis"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00909"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:1134687"
                     /plasmid="pRHBSTW-00909_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(74..748)
                     /locus_tag="HV324_RS32130"
                     /old_locus_tag="HV324_32140"
     CDS             complement(74..748)
                     /locus_tag="HV324_RS32130"
                     /old_locus_tag="HV324_32140"
                     /inference="COORDINATES: protein motif:HMM:NF025107.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_065806389.1"
                     /translation="MIPNWAPMFSWWVHNGLIRKFNWRNDEIGKPSAKVAALMIYIAIT
                     MKCAEEVGIQEVKITYTRLSEMTGISRQLIREGTAILVKLDMIDVTRIGRNNTYKLISN
                     KERSGWCKIPVRAITSEGGHAITPFEDLKLRRKVELHALKIFIYLASVRDNYTEYSLAS
                     YQTISSAVGITEKDIQRALALLSLVGLITRISSEKADDTKKNQPNRYYLAGYKSFVKRS
                     DW"
                     /name="helix-turn-helix domain-containing protein"
     gene            1402..1611
                     /locus_tag="HV324_RS32135"
                     /old_locus_tag="HV324_32145"
     CDS             1402..1611
                     /locus_tag="HV324_RS32135"
                     /old_locus_tag="HV324_32145"
                     /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_158239539.1"
                     /translation="MNALKATTNHPDNGERMRNLLRGREALPAQPENRFSARSGIGFVD
                     GRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(1957..2379)
                     /locus_tag="HV324_RS32140"
                     /old_locus_tag="HV324_32150"
     CDS             complement(1957..2379)
                     /locus_tag="HV324_RS32140"
                     /old_locus_tag="HV324_32150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_025714834.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTSINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKREPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2379..2570)
                     /locus_tag="HV324_RS32145"
                     /old_locus_tag="HV324_32155"
     CDS             complement(2379..2570)
                     /locus_tag="HV324_RS32145"
                     /old_locus_tag="HV324_32155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2619..3068
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="92.0"
                     /evalue="8.57e-86"
ORIGIN
        1 aaccaaagag taacgtcaag aatgcattcc tagcttagcg ttaaacccat ccctgcctat
       61 gcacacctcg tattcaccag tccgatcttt taacaaagct tttatatcca gcaagatagt
      121 agcgattagg ctgattcttt ttagtgtcat cagctttttc actagaaatc ctagtgatca
      181 gacctaccaa tgagaggagt gctaatgctc tctggatatc tttttctgta atgccaacag
      241 cactacttat agtctggtaa gaagctaacg aatactctgt gtagttatca cgaacagaag
      301 caagataaat gaatattttt agcgcatgca gctctacttt tcgccttagc tttaaatctt
      361 caaatggtgt aatagcatgg ccaccttcac tagttattgc tcttacaggt atcttgcacc
      421 atccactacg ctctttattg cttatcagtt tataggtgtt gtttcgacca atccgcgtaa
      481 catcaatcat atccagctta actaaaatag ctgtaccttc tcttatcagc tgccgactaa
      541 tccctgtcat ttctgatagc cgggtatagg ttattttcac ttcctgaatg ccaacttctt
      601 cagcgcattt catggtaatt gctatgtaaa tcataagagc ggcaaccttt gctgatggtt
      661 tgccgatctc atcgttacgc caattaaatt tccgaataag tccgttatga acccaccaag
      721 agaacatcgg agcccaatta gggatcatct cacttcctcc agccaataat gcaaatagca
      781 acgaagcctg ccaaaacagc taatgacaac aggaacggaa cgaacccact gatgacaggg
      841 gctattgagg taataaatga actgataacg gttaaatttt ccataaaagg tccttctacg
      901 aggagttatt ttcaaatttt atctcgccaa aggatttaca tctagagaca atggttttaa
      961 ttttttttga aaataaaaaa taaaaccaat ttaatcaatc acttactttt agaatcatta
     1021 gtttttagca tctaaaaatt agttcataag atgaaattta gcgcgataaa agaccattta
     1081 tcagtcaaaa aacgcccaaa ttgataaact attagttcac aaaaaacaaa cataaaccat
     1141 tgataaatat atgttttttg taaggtgttg ttttataata ctattttttt atcgtcgagt
     1201 aagagccaca gagtcgagct atttaccata acatccgttg cccgcaccgc ctcagaggcc
     1261 ctcagggcgt ttctgaggcc tccggcctga aacacacacc tttctgtgcc catatcgaga
     1321 aaaaacgccc ctgatgattc tggcgcgact gcatggctat gcacggacat acctggccgg
     1381 gattttagcg gctaaaatcc gatgaacgcc ctgaaagcca ccacgaacca ccccgataac
     1441 ggtgaacgga tgcgcaattt attgcgtggc cgtgaggcgt tgccggcaca gccggaaaac
     1501 cggttttcag cacgttcagg aatcgggttc gtcgacggcc ggcaatcacg ttatggcaag
     1561 tcgccggacg actcaccaca cgattcaccg gcgattcgaa tcgtgaattg aatcaagagt
     1621 caccatgaac aaaaaacgcc caaattgatg aattgaatca agagtcgatt catcataaca
     1681 acatgataat aaagcgtgat tcacatatga atcgtgggca attcgtaaac gattcgccat
     1741 agagtcgtcc acgacttgga tctgcacttt gtaacacatc actgcacatt aatttttcat
     1801 taaccaattg ttttaaataa ggaatctgca aaattttaat tttgcgtagt gtgtgggtat
     1861 ttttagtcgt gaggagcgtt cagagatctg gcgatttttg ggaaggttca ggaactccct
     1921 gggatggccg gagaggaaaa ctcaagcatg gcaggatcag gattttttcc agaatttcca
     1981 ccacggggaa tggggtggtg aagaaggctc gcgcttgtgc tccagaagct gcatagcctg
     2041 acgaagggaa tcaatatgct catctcgagc cttaacagcc cctttaagac catcgttttc
     2101 agcttcaagt agagcgattc tatgttgtaa atcatgtaaa ccaacgctgt taatacttgt
     2161 agattctgcg tcacttttta catcatattt tacagtatcg atgacaccat caagagaacc
     2221 aaacactcta ataagctctg aagtatcaat aactttaata gccttcccgt gctttacaac
     2281 agaggtgtaa cttaacttcc cactgttaat catcttgtaa attgtgggac ggctaacctt
     2341 aacaagccgt gccgcttcac taatagacac tctggccatc aattaccatc ctgtaattca
     2401 tccagtctcg aggacagtgt acggaaaaga tgctccgcat catcgtggag tttctcacaa
     2461 aggtcggcct caacatcgag atcaagctcg ttaagcttct ccagcaggag cagagactga
     2521 ttctggatga atttagccat gttcagcgct gttttctgtt gtttcgtcat aaagggcctc
     2581 agagcgtcag tgctcaatgt cagacagatc tcttttccgc ttcctcgctc actcagtcgc
     2641 tacgctcctg ccgttcggct gcggcgagcg gtcgcaacgc gcacataacg acatagagca
     2701 gacagctcgg agagggagaa ggcagcacag cggccgtttt tccataggct ccgcccccct
     2761 gacaagcatc acgaaatctg acgctcaaat cagtggtggc gaaacccgac aggacttaaa
     2821 gataccgggc gtttcccccc ggtggctccc tcttgcgctt tcctgttccc gccctgcggt
     2881 ttacgtgttg tggtggaagc cttacctaaa tcaccacgtc ccgctccgtt tagacagttc
     2941 gctccaagct gggctgtatg caagaacccc ccgttcagcc cgactaccac gccctttccg
     3001 gtaactatca cttgagtcca acccggagca gacacgacaa atcgccattg gcggtagcca
     3061 ctggtaacgg ggtaacaaga tgcctataga ttctttagtc ttgatgtttg agcctaacaa
     3121 cggctaaact taaagagaaa tttggcggca gcggtcttgt tcaccctgtt accacggtta
     3181 agcagttccc caactgactt aaccttcgaa aaaccgcctt gcagggcggt tttttcgtta
     3241 atgcgtaacg atactctt
//
