LOCUS       NZ_CP104611             4660 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Klebsiella pneumoniae strain AHM8C161BI plasmid pHNAH8161B-7,
            complete sequence.
ACCESSION   NZ_CP104611
VERSION     NZ_CP104611.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30667241
            Assembly: GCF_030169265.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4660)
  AUTHORS   He,W., Gao,M., Lv,L., Wang,J., Cai,Z., Bai,Y., Gao,X., Gao,G.,
            Pu,W., Jiao,Y., Wan,M., Song,Q., Chen,S. and Liu,J.H.
  TITLE     Persistence and molecular epidemiology of blaNDM-positive
            Gram-negative bacteria in three broiler farms: A longitudinal study
            (2015-2021)
  JOURNAL   J Hazard Mater 446, 130725 (2023)
   PUBMED   36630875
REFERENCE   2  (bases 1 to 4660)
  AUTHORS   He,W., Gao,M., Lv,L. and Liu,J.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-SEP-2022) College of Veterinary Medicine, South China
            Agricultural University, Wushan, Tianhe District, Guangzhou,
            Guangdong 510642, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030169265.1-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 05:51:25
            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)                     :: 6,218
            CDSs (total)                      :: 6,096
            Genes (coding)                    :: 5,888
            CDSs (with protein)               :: 5,888
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 72 of 208
            Pseudo Genes (incomplete)         :: 138 of 208
            Pseudo Genes (internal stop)      :: 38 of 208
            Pseudo Genes (multiple problems)  :: 32 of 208
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104611.1.
            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..4660
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="AHM8C161BI"
                     /isolation_source="chicken feces"
                     /db_xref="taxon:573"
                     /plasmid="pHNAH8161B-7"
                     /geo_loc_name="China"
                     /collection_date="2018-11"
     gene            complement(170..571)
                     /locus_tag="N5862_RS30925"
                     /old_locus_tag="N5862_30910"
     CDS             complement(170..571)
                     /locus_tag="N5862_RS30925"
                     /old_locus_tag="N5862_30910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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 domain-containing protein"
                     /protein_id="WP_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(571..762)
                     /locus_tag="N5862_RS30930"
                     /old_locus_tag="N5862_30915"
     CDS             complement(571..762)
                     /locus_tag="N5862_RS30930"
                     /old_locus_tag="N5862_30915"
                     /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"
     gene            1178..1291
                     /locus_tag="N5862_RS31155"
     CDS             1178..1291
                     /locus_tag="N5862_RS31155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_080882241.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPVRHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(1495..3195)
                     /locus_tag="N5862_RS30935"
                     /old_locus_tag="N5862_30920"
     CDS             complement(1495..3195)
                     /locus_tag="N5862_RS30935"
                     /old_locus_tag="N5862_30920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697690.1"
                     /GO_function="GO:0019239 - deaminase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="anti-phage dCTP deaminase"
                     /protein_id="WP_225368539.1"
                     /translation="MSLARKLREKRSNPIHSANEDSSGGDSINQITSRQSMDLVIGFCG
                     AVGSGIKSIVDVTEEELDDLGYDVYRIRVSELMQKLFSEWRDDIVTPFDRYHKLQDFGD
                     ALRNKYYPHILSEAVIHEIKIEKGIDTSSKKNKKAFLVDQLKHQDEIELLRMVYQHNFY
                     LLGVIRSEVERKRNLRDEGLSKSEVDIVIHHDRKSESDYGQQTAKAILDSDYFVKNNQG
                     QRAHLKAKVKRFIGLIHGLNGLTPTTYEKGMYAAHSASLQSACLSRQVGAAILDVNGNL
                     ISVGRNDVPKFNGGLYSADDGVNDHRCVYKGGKCYNEVRKLKIKSKISQILMSESACEL
                     GVKLTEDQAEQLADVIYKKTPVSSIIEYSRSIHAEMDAITSLARLGNGGFSDKVLYTTT
                     FPCHNCARHIVAVGITKVVYIEPYEKSLALELHDDAITEVNEHGKVIFESFEGVSPRRY
                     QKFFFSTDERKDSFGNAEKYSTKYKNHIDIQFIDSYLDFENRVVDIFRTNTNIDSGNHV
                     GRTDSTINLSSQPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPDSK"
                     /name="anti-phage dCTP deaminase"
     gene            complement(3208..3390)
                     /locus_tag="N5862_RS30940"
                     /old_locus_tag="N5862_30925"
     CDS             complement(3208..3390)
                     /locus_tag="N5862_RS30940"
                     /old_locus_tag="N5862_30925"
                     /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_080882243.1"
                     /translation="MGKELSLNKIYDKNSRYINDSRGHELGKEKKVFDFEVEMIKKRRE
                     DAIRKIIEDSKSLKW"
                     /name="hypothetical protein"
     gene            3778..3987
                     /locus_tag="N5862_RS30945"
                     /old_locus_tag="N5862_30930"
     CDS             3778..3987
                     /locus_tag="N5862_RS30945"
                     /old_locus_tag="N5862_30930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005227293.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YdgH/BhsA/McbA-like domain containing protein"
                     /protein_id="WP_009310047.1"
                     /translation="MKSIKTFVAVAALSMMSFGAFAQSVSATASTLDRAEAKIAAQAAE
                     QGASYKITSAQFNNRVHMTAELTK"
                     /name="YdgH/BhsA/McbA-like domain containing protein"
     Typing          884..1291
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aatttcagga aagtaaccca ctgatattaa atacaaatct gcaaaatatt aattttgcgt
       61 ggggtgtggg tatttttagt ggtgaggagc gttcagagat ctgacgattt ttgggaaggt
      121 tcaggaactc cccgggatgg ccggagagga aaactgaagc atgacggggt caggattttt
      181 tccagaattt ccaccatggc gccggggatt cagttaattt tgcctggtga ttttcgagaa
      241 ggagcatggc ctgtttcagg ctgtcaatgt gcgaatcctt ggacaaaagt aaggtattca
      301 ggtgttcaat ctcctgtttc agatgacgaa tcacctgttc actctggtca gcagaggctg
      361 tatcacgctg ttcagagacc tgtccagaat ggtgttcacc cttcggttgc tcaaagggac
      421 caaagacacg taaaagctct gaagtatcta ccatttttgc attgcgttca ccgctacagg
      481 tggacaggtc acctgcttta atcaacctgt gcagtgttgt tctactctta cccgtcagtc
      541 gggcagcctc actaatagac actctggcca tcagttacca tcctgtaatt catccagtct
      601 cgaggacagt gtacggaaaa gatgctccgc atcatcgtgg agtttctcac aaaggtcggc
      661 ctcaacatcg agatcaagct cgttaagctt ctccagcagg agcagagact gattctggat
      721 gaatttagcc atgttcagcg ctgttttctg ttgtttcgtc ataagaagcc tcagagcgtc
      781 agtgctcagt gtaagaacag tctcttttcc gcttcctcgc tcactcagtc gctacgctcc
      841 tgccgttcgg ctgcggcgag cggcaggagc atgcgtgtaa aagctcgaga aaaccgagcg
      901 gtctcgtgat ggggaaaagg aaaggccgca cagcggccgt ttttccatag gctccgcccc
      961 cctgacgagc atcacggaat ctgacgctca aatcagtggc ggcgaaaccc gacaggacta
     1021 taaagatacc aggcgtttcc ccctgatggc tccctcgtgc gctctcctgt tcctgccatt
     1081 cggtttaccg gtgtcattcc gctgttatgg ccgcgtttgt ctcattccac gcctgacact
     1141 cagttccggg taggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc
     1201 cgactgctgc gtcttatccg gtaactatca tcttgagtcc aacccggtaa gacatgcaaa
     1261 agcaccactg gcagcagcca ccggtaactg atttagagga gttagtcttg aagttatgcg
     1321 ccagttaagg ctaaactgaa agaacaagtt ttggtgactg cgctcctcta agccagttac
     1381 cttggttcat agagccgcaa actctagaac cttaaaaaaa ccgccccgca aaggcggttt
     1441 ttttctttct cgtctcaagg ttaagctctg tataacatca gagtcaacag atcttcattt
     1501 cgagtctggt ggtactggtg gtactggtgg tactggtggt actggtggta ctggcggtac
     1561 tggcggtacg ggcggtacgg gcggtacggg cggtacgggc ggtacgggct gggaagataa
     1621 attaatagtc gaatcagttc tcccgacatg attgccagaa tcaatatttg tgttagttct
     1681 aaaaatatca acgactcgat tttcgaaatc taaatagcta tcaataaact gtatatcaat
     1741 gtgattttta tatttagtgg agtacttttc tgcgttaccg aaactatctt tcctttcatc
     1801 tgtagaaaag aagaattttt gatacctacg aggtgataca ccttcaaagg attcaaatat
     1861 aaccttccca tgctcattca cctcggttat agcatcatca tgcaattcta aagcgaggct
     1921 tttttcatat ggctctatat aaacaacttt tgttattcca acagcgacaa tatgtctcgc
     1981 gcagttatga caaggaaatg tggttgtata taaaacttta tcagaaaaac ctccattacc
     2041 tagtctagct aatgatgtaa tagcatccat ctctgcatga attgagcgag agtactctat
     2101 aatagaagat actggtgttt ttttatatat tacatcagcc agttgctctg cttgatcttc
     2161 tgttaattta acaccaagtt cacaagcgct ttccgacata agtatttgtg aaattttgct
     2221 tttaatcttt agttttctaa cttcattata acatttacca cctttgtata cacaacgatg
     2281 atcattgaca ccatcatccg cactataaag cccaccattg aatttaggta catcattacg
     2341 cccaacggaa atcagattcc cattaacatc caatatagca gcaccaactt gacgagaaag
     2401 gcatgcagat tgcagagatg ctgaatgagc tgcatacata cctttttcat acgtggttgg
     2461 agttaaacca tttagcccat gtatcaagcc aataaaacgc ttaaccttag ccttaaggtg
     2521 cgccctttgt ccttgattat tcttaacaaa ataatcagag tcaagtatag ctttcgcagt
     2581 ctgctgacca taatcgctct ctgattttct atcgtgatga ataactatat cgacttctga
     2641 cttactcagc ccttcatctc taagattacg ctttctttct acttcacttc taattacacc
     2701 tagtaaataa aaattatgtt ggtagaccat ccttaaaagt tcaatttcat cctgatgctt
     2761 caactgatcg accaaaaaag cctttttgtt ttttttactt gaggtgtcaa tgcctttttc
     2821 tatttttatt tcatggatta cagcttcaga tagtatatgt gggtaatatt tatttcttaa
     2881 cgcatcacca aaatcttgca gcttatgata tctatcaaac ggagtaacaa tatcatcacg
     2941 ccattctgaa aaaagttttt gcataagctc gctaactctt atgcgataaa catcatatcc
     3001 tagatcatct agttcttctt cagtcacatc aacaattgac tttattcctg agccaacagc
     3061 accgcaaaat cctataacaa gatccataga ctgtctggag gttatttggt ttatgctatc
     3121 ccctccagag gagtcctcgt tagcactatg aatcggatta cttctttttt ctcttaactt
     3181 tctagccagg ctcataaaag acctcactta ccattttaat gattttgaat cctcaattat
     3241 cttccttata gcgtcctctc ttcttttttt aatcatttca acttcaaaat cgaaaacttt
     3301 cttttccttt cccagctcat gccctctaga atcattaata tatctagaat tcttatcata
     3361 aattttattt agagatagct ctttacccat cacaccctcc tgcaagacgc atggatttta
     3421 ctgttatctt tataacaggc aatagccaag aaacgtaatc gatagagatt tttttttctt
     3481 atcctaaaca ttaggaaatt cggcaagaga aaagcaagag agattacgcc aaactaacca
     3541 ttatttttca atttgttaaa ataaaatcat caatgttaac atttctatcc accacctcat
     3601 ttggtaccta aaatccagag ataaacctct ggtcttgatg cgctcaattc ttgttctttt
     3661 tttttgaatg atatccgcaa attgtttcga ttttaatcaa ctaatggtcg tcctatcatt
     3721 tatcacatca gggcaacaac gccccataca gaacaaaatc acttaaggaa tacgaccatg
     3781 aaatccatca aaactttcgt tgcagttgcc gctctatcca tgatgtcttt cggtgctttt
     3841 gctcagagcg tcagcgctac cgcctccacc ctggatcgtg ctgaagcaaa aattgccgca
     3901 caggccgctg aacaaggtgc gtcatacaaa atcaccagcg ctcagttcaa taaccgtgtc
     3961 cacatgacgg ctgaactgac caaataagat ggtcgcaaag ggagctgccg aacaggccgc
     4021 cgggaggcgg cccgtttcgt cccttagcag gaaaaccttc aggccccttc tggggctttt
     4081 ttgcatctgt tatttaacat aaaggcatga ttgtacgcac cgctaaaacg gcctcagggc
     4141 gtttctgacg gaaaaccggt aaaacaggca acaaaccacc cgaaaacccg ccagaaacgc
     4201 gcaggctctg tttttacggc atgcatgagt atgcacgcaa gtgcatagcg cgaaaattca
     4261 cgccattcag ccagagtaag tcctgtttcc ggcgttcttt ccatccgaaa acggtgaacg
     4321 gggacgcaat ttattgcgtg gccgtgaagc gttgccggcg cagccggaaa accggttttc
     4381 agcacgttca ggaatcgggt tcgtcgacgg ccggcaatca cgttatggca agtcgccgga
     4441 cgactcacca cacgattcac cggcgactct tcactagagt cgtacccaga gtcgccgcgt
     4501 ctaaaaaaca accaaacggg gagtcgtgtc tagagtcggg tcgttattaa cttattgttt
     4561 ttatagtcct gagtcgttac cgactctatg acgactcgcc ggggactcta tgacgagtcg
     4621 tcatagagtc ggatctatat aaataaaatt taaaaaacga
//
