LOCUS       NZ_CP100518             3642 bp    DNA     circular CON 22-JUL-2023
DEFINITION  Klebsiella pneumoniae strain LH35-d plasmid pLH35-d-C, complete
            sequence.
ACCESSION   NZ_CP100518
VERSION     NZ_CP100518.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29499315
            Assembly: GCF_024227055.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3642)
  AUTHORS   Biggel,M.
  TITLE     ESBL-producing Enterobacteriaceae from poultry
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3642)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JUL-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/22/2023 02:42:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,337
            CDSs (total)                      :: 5,216
            Genes (coding)                    :: 5,112
            CDSs (with protein)               :: 5,112
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 51 of 104
            Pseudo Genes (incomplete)         :: 46 of 104
            Pseudo Genes (internal stop)      :: 19 of 104
            Pseudo Genes (multiple problems)  :: 11 of 104
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100518.1.
            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..3642
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="LH35-d"
                     /isolation_source="pooled poultry feces"
                     /host="Gallus gallus domesticus"
                     /db_xref="taxon:573"
                     /plasmid="pLH35-d-C"
                     /geo_loc_name="Switzerland"
                     /collection_date="2022"
                     /collected_by="Institute for Food Safety and Hygiene,
                     University of Zurich"
     gene            350..790
                     /locus_tag="NLZ11_RS26615"
                     /old_locus_tag="NLZ11_26615"
     CDS             350..790
                     /locus_tag="NLZ11_RS26615"
                     /old_locus_tag="NLZ11_26615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002642251.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_019704629.1"
                     /translation="MSKYLITFDLDTTKLKTLYHGKNYNNAYYDIRSTLSRRGFENIQG
                     SVYLGQEGISEAHGTIAIQELTAKYSWFYECVSNIKFYRIESDLNAQFIADGVNEARKR
                     FYTQLEDMRKSLLSVGLTVEQVNEIIGQQQFKLESTISPDKM"
                     /name="hypothetical protein"
     gene            860..1162
                     /locus_tag="NLZ11_RS26620"
                     /old_locus_tag="NLZ11_26620"
     CDS             860..1162
                     /locus_tag="NLZ11_RS26620"
                     /old_locus_tag="NLZ11_26620"
                     /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_128316336.1"
                     /translation="MKIGSTREYGATKSHLLLMITTLPAGVGVFIYPIAEAVWGELPLL
                     KVVGYTALSLMIGGVVGNIVVRGLFSTSLGILFINPLAMISSLTGIAFLIVQYLP"
                     /name="hypothetical protein"
     gene            complement(2606..3028)
                     /locus_tag="NLZ11_RS26625"
                     /old_locus_tag="NLZ11_26625"
     CDS             complement(2606..3028)
                     /locus_tag="NLZ11_RS26625"
                     /old_locus_tag="NLZ11_26625"
                     /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_060627039.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPSHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3028..3219)
                     /locus_tag="NLZ11_RS26630"
                     /old_locus_tag="NLZ11_26630"
     CDS             complement(3028..3219)
                     /locus_tag="NLZ11_RS26630"
                     /old_locus_tag="NLZ11_26630"
                     /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_254541419.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVESDLCEKLHDDA
                     EHLFRTLFSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3..103
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.216"
                     /coverage="98.0"
                     /evalue="3.0200000000000003e-27"
     Typing          3342..3642
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.695"
                     /coverage="98.0"
                     /evalue="8.049999999999999e-135"
ORIGIN
        1 cccccccgtt cagtccgact gctgcgcctt atccggtaac tatcgtcttg agtccaatcc
       61 ggaaagacgc gacttatcgc cactggcagc agccattggt aacagaacca ggtggattta
      121 gatattaaga gtcttgaagt gatggcccta ctgcggctac actggaagga cagtatttgg
      181 tatctgtgct ccaccaagcc agttacccgg ttaagcagtt ccccaactga cttaaccttt
      241 gaaaaaaccg cctccccagg cggttttttt cgtttaacgt cggtaagata cgctttaggg
      301 ttccagctag tcaagctggc tactaaaagt taataagcgc aggaaaaata tgagcaaata
      361 cctgattaca tttgaccttg atacaacaaa gttaaaaacc ttgtatcacg gcaagaacta
      421 caataatgct tattacgata ttcgaagcac gttgagccga cgcggctttg aaaacataca
      481 aggtagcgtt tatttaggtc aggaaggtat aagtgaggct cacggaacca ttgcaattca
      541 agagctaaca gctaaataca gctggttcta tgaatgcgta tctaacataa aattctatcg
      601 tatagaatct gatttaaacg cacagtttat cgctgatggc gttaacgaag cgagaaaaag
      661 attctatacc caacttgaag atatgcgcaa aagtttacta tccgttggtt taacagtaga
      721 acaagtaaac gaaataatag gtcagcaaca attcaaatta gaaagcacga taagccctga
      781 taaaatgtga gcataagtaa aaatggtttt tcttcttata atgacgctat ggtgggcatc
      841 ctcattcatc actcatctaa tgaagattgg tagcaccaga gagtacggtg caactaaatc
      901 tcatttactt ttgatgatca ccacacttcc cgctggagtt ggcgtcttta tctacccaat
      961 agcagaagct gtatggggtg agctaccgtt actgaaagtt gtaggctata ccgccttatc
     1021 cctcatgata ggaggggttg ttggcaacat agttgttcgt ggattatttt caacttcgct
     1081 gggtattttg tttataaatc ccctagcaat gatctccagt cttacaggta tagcattctt
     1141 aatcgtgcaa tacttaccat aacattaacc ccaacgcgca tgaaaggccc gcactgcggg
     1201 ctttttttta gaagagatgt gccttcgttt caacttagct tcaatagagg caccggcaac
     1261 atacaaaata tccgtatttt aatactagcc accgagcggt ttcctacgca tcgcgatcaa
     1321 aaatgcacga gcaatctgat cgggcataaa atttcagcaa cccactaaac tcacccaagg
     1381 aagagtaaaa cataatctat tgataaaaaa taattttata tttttagaaa agtactgaat
     1441 gttctttcgc ggcaaacggt tcaataaaaa tgagcatcag agcaagttgg aaggcacttt
     1501 tgagtacttg ataggagact ttaaaatgat aattacaatt gagttaaaag gggcattgat
     1561 ggccaaaaat cactcagagt ataaggtttt gtttgagggt aaatatttcg cggtaatatg
     1621 gataatatag attcatcggc gaacgtcggc gaacgtcggc gaacgtcggc gaacgtcgga
     1681 ataaaatcaa ttaaatatta catcaagata aaaacaataa aaaattaaaa aataagtact
     1741 gaatgttctt tcgcggcaaa cggttatata aaaattagca tcagagcaag ttggaaggca
     1801 cttttgagta ctaacaaaca ctcatctcac tccgctgtag ggaccagtaa ccccaaccat
     1861 tcgatgtcat ttaacataag gccctgattg tacgcaccgc taaaacggcc tcagggcgtt
     1921 tctgacggga aaccggtaaa acaggcaaca aaccacccga aaacccgcca gaaacgcgca
     1981 ggctctgttt ttacggcatg catgagtatg cgcgcaagtg catagcgcgg aaattgacac
     2041 tattcagcca gggtaagtcc tgtttccggc gttctttcca tccgaaaacg gtgaacgggg
     2101 acgcaattta ttgcgtggcc gtgaagcgtt gccggcgcag ccggaaaacc ggttttcagc
     2161 acgctcagga atcgggttcg tcgacggccg gcaatcacgt tatggcaagt cgccggacga
     2221 ctcaccacac gattcaccgg cgattcgaat cgtgaattga atcaagagtc accatgaaca
     2281 aaaaacgccc aaattgatga attgaatcaa gagtcgattc atcataacaa catgataata
     2341 aagcgtgatt cacatatgaa tcgtgggcaa ttcgtaaacg attcgccata gagtcgtcca
     2401 cgacttggat ctgcactttg taacacatca ctgcacatta atttttcatt aaccaattgt
     2461 tttaaataat gaatctgcaa aattttaatt ttgcgtagtg tgtgggtatt tttagtggtg
     2521 aggagcgttc agagatctgg cgattttttg gaaggttcag gaactccccg gaatggccgg
     2581 agaggaaaac tgaagcatga tggggtcagg attttttcca gaatttccac cacggggaat
     2641 gggatggtga agaaggttcg tgcttgtgct ccagaagctg catagcctga cgaagggaat
     2701 caatatgctc atctcgagcc ttaacagccc ctttaagacc atcgttttca gcttcaagta
     2761 aagcgattct atgttgtaaa tcatgtaaac caacgctgtt aatacctgta gattctgcgt
     2821 cactttttac atcatatttt acagtatcga ttacaccatc aagagaacca aacactctaa
     2881 taagctcaga agtatcaata actttaatag ccttcccgtg ctttacaaca gaggtgtaac
     2941 ttaacttccc actgttaatc atcttgtaaa ttgtaggacg actaacctta acaagccgtg
     3001 ccgcttcact aatagacact ctggccatca gttaccatcc tgtaattcat ccagtctcga
     3061 gaacagtgta cggaaaagat gctccgcatc atcgtggagt ttctcacaaa ggtcggactc
     3121 gacatcgaga tcaagctcgt taagcttctc cagcaggagc agagactgat tctggatgaa
     3181 tttagccatg ttcagcgctg ttttctgttg tttcgtcata agaggcctca gagcgtcagt
     3241 gctcagtgta gggatgttct cttttccgct tcctcgctca ctcagtcgct atgctcctgc
     3301 cgttcggctg cggcgagcgg caggagcatg cgtgtaaaaa ctcgagaaaa ccgagcgatc
     3361 gcgtgacggg gaaaaggaaa ggccgctgtg cggccgtttt tccataggct ccgcccccct
     3421 gacaagcatc acagaaactg acgctcaaat cagtggtggc gaaacccgac aggactataa
     3481 agataccagg cgtttccccc tgatggctcc ctcgtgcgct ctcctgttcc tgccattcgg
     3541 tttaccggtg tcattccgct gttatggccg cgtttgtctc attccacgcc tgacactcag
     3601 ttccgggtag gcagttcgct ccaagctgga ctgtatgcac ga
//
