LOCUS       NZ_AP022881             6558 bp    DNA     circular CON 13-MAR-2024
DEFINITION  Bacillus cereus strain MRY14-0060 plasmid pMRY14-0060_4, complete
            sequence.
ACCESSION   NZ_AP022881
VERSION     NZ_AP022881.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00203324
            Sequence Read Archive: DRR206364, DRR206388
            Assembly: GCF_021654915.1
KEYWORDS    RefSeq.
SOURCE      Bacillus cereus
  ORGANISM  Bacillus cereus
            Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus;
            Bacillus cereus group.
REFERENCE   1
  AUTHORS   Furuta,Y., Miyajima,Y., Maehana,S., Tsujinouchi,M. and Higashi,H.
  TITLE     Genomic sequence of Bacillus cereus isolated from bacteremia
            patients in Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6558)
  AUTHORS   Higashi,H. and Furuta,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAR-2020) Contact:Hideaki Higashi Hokkaido University,
            Research Center for Zoonosis Control; North 20, West 10, Kita-ku,
            Sapporo, Hokkaido 001-0020, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 1.8
            Genome Coverage                   :: 332x
            Sequencing Technology             :: MinION R9.4 Flowcell; MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021654915.1-RS_2024_03_13
            Annotation Date                   :: 03/13/2024 07:10:38
            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)                     :: 5,948
            CDSs (total)                      :: 5,800
            Genes (coding)                    :: 5,583
            CDSs (with protein)               :: 5,583
            Genes (RNA)                       :: 148
            rRNAs                             :: 13, 13, 13 (5S, 16S, 23S)
            complete rRNAs                    :: 13, 13, 13 (5S, 16S, 23S)
            tRNAs                             :: 104
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 120 of 217
            Pseudo Genes (incomplete)         :: 108 of 217
            Pseudo Genes (internal stop)      :: 46 of 217
            Pseudo Genes (multiple problems)  :: 47 of 217
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022881.1.
            Annotated by DFAST v.1.2.5 (https://dfast.nig.ac.jp).
            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..6558
                     /organism="Bacillus cereus"
                     /mol_type="genomic DNA"
                     /strain="MRY14-0060"
                     /isolation_source="human blood of bacteremia patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:1396"
                     /plasmid="pMRY14-0060_4"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2013"
     gene            408..959
                     /locus_tag="L6481_RS29470"
                     /old_locus_tag="BCM0060_p41"
     CDS             408..959
                     /locus_tag="L6481_RS29470"
                     /old_locus_tag="BCM0060_p41"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003466634.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TetR/AcrR family transcriptional regulator"
                     /protein_id="WP_000028030.1"
                     /translation="MSISKHANKKKNILIAASEIVKEEGVVKLTLEAVAQRAGVSKGGL
                     LYHFPSKEALIKGMVEDWTNNYFECINTLVNNDDDNAIGKWNRAYLKSTFSDLENNNLN
                     SALMATMFINPDLLDEFRQRYDILHTKLITDGIDPVKITITRLSIDGLWFSEIFGMAPL
                     NEELKTQVFDELINMIQEDE"
                     /name="TetR/AcrR family transcriptional regulator"
     gene            959..1336
                     /gene="qacH"
                     /locus_tag="L6481_RS29475"
                     /old_locus_tag="BCM0060_p42"
     ARG             960..1333
                     /name="qacH"
                     /gene="qacH"
                     /gene_name="quaternary ammonium compound efflux SMR
                     transporter QacH"
                     /tool="amrfinderplus"
                     /drug_class="QUATERNARY AMMONIUM"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(2118..2738)
                     /locus_tag="L6481_RS29480"
                     /old_locus_tag="BCM0060_p43"
     CDS             complement(2118..2738)
                     /locus_tag="L6481_RS29480"
                     /old_locus_tag="BCM0060_p43"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000013733.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000963189.1"
                     /translation="MAIDFSQADRNARKRDLEKEKFFSDEEWELANDLQSRANARGMKL
                     VPERKIKNRAKFAQMLQDNVDYLEEIDYLDDKEIIFLWKISRKVGFLSNCLVDDIHKKS
                     PVPLTQTDIATLLKRTKNNVNPIVKSLVAKGILAVSKTGVQGNNSRANVYFMNPNILYA
                     GSKDDVNLTLQAMFSKVPKALKDMPVKLFELSCHSEEEEEKTN"
                     /name="hypothetical protein"
     gene            complement(2989..3426)
                     /locus_tag="L6481_RS29485"
                     /old_locus_tag="BCM0060_p44"
     CDS             complement(2989..3426)
                     /locus_tag="L6481_RS29485"
                     /old_locus_tag="BCM0060_p44"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000094076.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000094076.1"
                     /translation="MSSFRWYEENEVIGKTIIEEDDLTLLEAGKIYIDAIFCERIRFPV
                     QKNEQPIGFNFVYEYNVKKYFGLYDRSFMKIIKQEDLEEYHMRMIDFHVHRLSLGEELD
                     DCPIIGICYGSGPLITPRLEQVYDVSKTKAYRKYRLEKLFD"
                     /name="hypothetical protein"
     gene            complement(3440..3847)
                     /locus_tag="L6481_RS29490"
                     /old_locus_tag="BCM0060_p45"
     CDS             complement(3440..3847)
                     /locus_tag="L6481_RS29490"
                     /old_locus_tag="BCM0060_p45"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000037919.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000037919.1"
                     /translation="MSKKISIEEMTQEMKEKFTISLEDAHKILLDHGVTKSTNTQVTMR
                     WIRDGKIDALLIGKGRVETRKWLINKESLMEFVAFERLTLGDFKAMKEELEMLRAFKFE
                     VEKKPKRATGTRQKKDAATNTSKEKKEVPTK"
                     /name="hypothetical protein"
     gene            complement(4659..5771)
                     /locus_tag="L6481_RS29495"
                     /old_locus_tag="BCM0060_p46"
     CDS             complement(4659..5771)
                     /locus_tag="L6481_RS29495"
                     /old_locus_tag="BCM0060_p46"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002019875.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0015074 - DNA integration [Evidence IEA];
                     GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="tyrosine-type recombinase/integrase"
                     /protein_id="WP_000036645.1"
                     /translation="MSKITNDIDLKIDEVYEKVKDMKITFDENNTTKKQLTDSTINTYC
                     GIVKSYNNWLIQTHGISVDRAKPRHAMEYLETKIQAFEKGNASAFSMRQMAHAFHSFRV
                     ASAETGTFKHTCKVADKRDMLNTLTERGIFRKSADSTVLKANHSDYEKVQKELNVATTS
                     KHLREDIKTVHELQRYAGMRVHEAVKLKVSDIDFKSGTVYIKGKGGHERTVKIESKELL
                     EKLKNLCTGKSERSQVIIARKRDKNQLTNEEFGKRAKEEIRGAAVNAGVDRNGKRYTTH
                     SGRKAYAQAQMDKYKSYSKNQLKKEVAKRCQDKKTKQKYDAVIKNIRKKITEGSKNEGR
                     KLTNKEMCQFLVSLDLGHYRLDVVRYYADY"
                     /name="tyrosine-type recombinase/integrase"
     ARG             960..1336
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="60.75"
                     /coverage="116.82"
ORIGIN
        1 atatttgctt aaccgcaagc gtttaaacaa ataagtaatt ggttttaaaa ttactatgaa
       61 tatatacaaa ttttaccatt aatcaactga ttttgatgaa aaaaccttat ttttttatgc
      121 ttttgaaaag gtcttacgac cttaaatgtt tttctttccg gggtagagtc ctgaaaatgc
      181 ggatttacaa cggtaatgta attttcaccc ataaataaag ccgattttaa gaaatcgact
      241 gttgaactaa agctcccttt actttaagta catttcttca caatctttag attaatttat
      301 tggattattt ttatgtgaaa gagtgatatt aaataagagc tttaattcga ttgacaaaaa
      361 aaccgtccag acggtatatt atatgtatct aagttatgga ggttattatg tctatttcaa
      421 agcatgctaa taagaaaaaa aatatattga ttgctgcatc tgaaattgta aaagaagaag
      481 gagttgtcaa actcacatta gaggcagtcg cccaaagagc tggcgtgagt aaaggtggat
      541 tattatacca ttttcctagc aaggaagcat taattaaagg aatggtggaa gattggacaa
      601 ataattattt cgaatgcatt aatacgttag ttaataacga cgatgataac gcaataggaa
      661 aatggaatag ggcttatctt aaatctacat tttccgattt agaaaacaat aatctaaatt
      721 ccgcactaat ggctactatg tttattaatc cagatttatt agatgaattc cggcagagat
      781 acgatatttt gcatacaaag ttaataactg atggaattga tcctgtcaaa ataacaatta
      841 caagattatc catagatggt ctttggtttt cagaaatatt tggaatggca ccattaaatg
      901 aagaactaaa aacacaagtt tttgatgaac taataaacat gattcaggag gacgaataat
      961 gtcatatcta tatttagcac ttgcaatagt gggggagatt attggctctt ccctattaaa
     1021 agcatctgaa ggcttttcaa aactctatcc tacaataggg gtaataatag ctttcgttgg
     1081 ttgttttttc tttttatcct tgtcgctaaa aacaatcccc ttaaacactg catatgcatt
     1141 atgggcaggt ttaggacttg ttttgactac agtaatttca gttttagttt ggaaggaaaa
     1201 acttaacatg gctagcattg caggaataac actgattctt gtaggagttg taatattgaa
     1261 tttgtttgga ccaggacatg gagaatctgg tcatgaagca agcgaaacta ttacaatgaa
     1321 tgagacaatg gaataacaca taaaaaagtc cttcttaata aagagaagga ctttttagct
     1381 taattaaggg tattttttga agtccttatt caacaaacct gcgtacgtta gtttaagtgt
     1441 atcacttcac aattccaata gagtagagtt tattgagaca taatgaaatt agcgttttaa
     1501 atgacttctg actgtctcat aagacttgta tcaaatgctt accgttgtaa atccgcattt
     1561 ccctgacgct acccctttcc taagcaaaaa tgtttttaag tcttttattc ttttaccgta
     1621 ttaaatttga tacggttttc atatgctttt ttgggttgag ctggctgggg tttggggcta
     1681 gccccaaggg tttttattac acaaaatatt gatagaacgg aaatgtacgc actaagcgac
     1741 ggagcaatta aaatggattg ttcaagtgat aatccgaaaa agtgataact tttttggttt
     1801 atcgcttggc acaagccatg ccaattgcgg agaattttga gtcaagataa agagtggaga
     1861 ttttttgcgg tttttgcaaa aaatactact cgtttcttta ctcaaaatta gcgttaatag
     1921 agagtgagat agaacaacat tgttaatgta ttaaaaagtc aataatatca atggtttgtt
     1981 gcacttttcg tagttcttga atttaagaac catagttctt gaatttaaga acaccggatt
     2041 ttttacattt tttacattat tttacataat tgaaagataa aaaatacatg tattaaaaat
     2101 acatgtatta attattatta atttgttttc tcttcttctt cttctgaatg acatgatagt
     2161 tcgaataatt ttacaggcat atcctttaat gctttaggaa cttttgaaaa catcgcttgt
     2221 aatgttaaat tgacatcatc tttgctaccg gcgtacaaaa tgttcggatt cataaaatac
     2281 acatttgctc tcgaattatt accttgaaca cctgtttttg aaacagccag tatgcctttt
     2341 gctactaaag atttaacaat aggattgaca ttatttttag ttcttttcaa caaagttgcg
     2401 atatctgttt gtgttaaagg aactggactt tttttatgaa tatcatccac aagacaattt
     2461 gataaaaaac caactttacg actgattttc cataaaaata taatctcttt atcatctaaa
     2521 taatcaatct cttcgagata atcaacgtta tcctgaagca tttgagcaaa ttttgctcga
     2581 ttcttgattt tacgctctgg aacaagtttc attcctcgcg cgttagctct tgattgcaaa
     2641 tcatttgcta attcccattc ttcatctgaa aaaaactttt ctttttctaa gtctcttttt
     2701 ctagcgtttc gatccgcttg actaaaatca attgccattg attttgctcc tctcctgaag
     2761 aaaatgcaac aagcattcta ggagattcac cgttattttt ttattatccg taaagggttt
     2821 tacccttgat ttttaaatga aaattcatta aaattaaaac tagaaatcaa cgttttggtg
     2881 ataaattacg atgaatcacc caaagtcgag tgctccaaca ctcggctttt ttttatgctt
     2941 gtctattcaa ttctagctta aaaactcaaa ttttgtaaga tgctttacct aatcgaataa
     3001 tttttctaat cgatactttc tgtatgcttt tgttttcgaa acatcataaa cttgttccaa
     3061 cctcggtgtt atcaaaggtc cacttccata acaaatacca atgattggac aatcatctaa
     3121 ttcttcccct aaagataatc tgtgcacatg aaaatctatc attctcatgt gatattcttc
     3181 taaatcttct tgtttaatta tcttcatgaa acttctgtca tataatccga aatatttttt
     3241 tacattatat tcataaacaa aattaaatcc aattggctgt tcgttttttt gaactggaaa
     3301 ccttattctc tcacaaaata ttgcatcaat atatattttc ccagcttcta gcaaagtcaa
     3361 atcatcttct tctattatag tttttccaat cacttcattt tcttcatacc atctaaaaga
     3421 tgacatgcaa ttcacctctt tattttgttg gcacttcttt cttttctttt gaagtatttg
     3481 ttgctgcatc tttcttttga cgtgtaccag tagcacgctt tggctttttc tctacttcga
     3541 atttaaaagc acgtaacatt tctaattctt ctttcattgc tttgaaatca cctaacgtta
     3601 aacgctcgaa tgcaacgaat tccattagac tttccttgtt aataagccat tttcgagtct
     3661 ccacacgacc ttttccaatc aataatgcat caattttccc atcacgaatc caacgcattg
     3721 taacttgtgt attcgtactt ttcgttacgc catgatccaa aaggatttta tgtgcatctt
     3781 ccagtgaaat cgtgaatttt tccttcattt cttgcgtcat ttcttcaatt gagatttttt
     3841 ttgacattgt tttttcctcc taattacaat taagtacatg tatttttaat taaatgtatc
     3901 catctatatt tttaatatac agtaaatgta ttgaaaagta aatataattt taaataaatt
     3961 tattaaaaaa tatatttaat ctattttaca tttactatta attatattta ctcaaaatta
     4021 tatatatcct tctttaaatt tattatacat taaatttatt tttatgtaaa tccattttag
     4081 gtcattactt ttacttttgt gtaaatctat ttattgccat gactttacta ttttgtacat
     4141 gtattttata tctcttaaac gttgttaaat caacgatttt ttgcgattac taaaaataaa
     4201 ttgcggagac aatacatgta tttttatcta tatttttact tttgtgtaaa tctaatttag
     4261 gtatataaat ttactattgt gtaaaactat taaaattact ttaaaatact tttactcaaa
     4321 ataaatttac tatacaataa atgtatttta aaatactttt actgtatagt aaatttaata
     4381 ggcgtttcat ttttttttga ttttcgaaaa aaagcgagaa atggcgagga tttggaaaac
     4441 tctcgtgtat cttcttagtt catcgacccg ttttttggcg atttcctcga atccgcacaa
     4501 ggtactggca ttgccatgag aggctaacac aaggctttct cattgtaaag ccgggaaaga
     4561 tggcttgaca acgaggctct agcccttgtg tttctaagcc agtgcgccag taccaactgt
     4621 gctccgcact cgtcttcccg attttccgtc aaaacctatc aataatcagc ataatatcgt
     4681 acaacatcta aacgatagtg acccaaatcc aagctaacta gaaactggca catctcttta
     4741 tttgtaagtt tacgcccttc gttcttcgaa ccttcggtta tttttttacg gatatttttt
     4801 ataactgcat catatttttg ctttgttttc ttgtcctgac aacgttttgc aacttctttt
     4861 tttaattgat tcttactgta acttttgtat ttatccattt gcgcttgtgc atatgctttg
     4921 cgacctgaat gtgttgtgta tctttttccg ttacgatcca ccccagcatt gacggctgca
     4981 cctcgtattt cttcttttgc acgttttcca aattcctcat ttgttaattg atttttatca
     5041 cgttttcgag caataattac ctggcttctt tcactttttc cagtgcataa atttttcaac
     5101 ttctctagta attctttact ttcaatttta accgttctct cgtgcccgcc tttgcctttt
     5161 atatagacag tgccactctt aaagtctata tcactcactt ttagttttac ggcttcgtga
     5221 acacgcattc cagcgtaccg ctgtaattcg tgtactgttt ttatatcttc tctcaaatgt
     5281 ttacttgtcg ttgctacatt tagttctttt tgaacttttt catagtctga atgatttgcc
     5341 tttaataccg tcgaatcagc cgatttacgg aagattccac gctctgtgag tgtatttaac
     5401 atatctcgtt tatcagcgac cttacatgta tgtttaaacg ttcctgtttc agcactcgca
     5461 acacgaaaag aatgaaacgc atgcgccatt tggcgcatag aaaatgcgga agcatttcct
     5521 ttttcaaagg cttgaatttt tgtttcgaga tattccattg cgtggcgagg tttcgcccta
     5581 tccacgctaa ttccatgcgt ttgtattaac caattgttat atgatttcac gattccgcaa
     5641 tatgtgttta ttgttgaatc agttaattgt tttttggttg tattattttc atcaaaagtt
     5701 attttcatat ctttaacttt ttcatagact tcatcaattt ttaaatcaat atcatttgta
     5761 attttgctca tttcgtcacc ccctatatac aaaatcaaga gcaagaaccc aacccccgtg
     5821 aaccttacaa tatcaaggca caacaaaaac gaggtctcat ttgggtgggt tcgatctatt
     5881 ttttttaaag accaaaaaaa atagaccgaa ccacccaaat taaacacaca aaagcaatcg
     5941 cgaaatctcc cttcgggcga tttaagctca ctagagtcaa agtcaaaatc aaaagaccaa
     6001 aagcaaaaat caaggtcaaa agattaaaag acaaaggctc aagatagcta cgccatcttg
     6061 ttgcgattgg cgtctataaa tagactccaa ggctctccca tacattttgc accaaaatgt
     6121 atagtcaaat gagcgtacaa cggtattgcg gtctggaatt tttgagtaac ccagaaatta
     6181 ctgttcttgc gatttgtttt gtggttaaaa acctttgtta cagatttaca tttattcagt
     6241 tgtaaaaata tttaattgta aaacttgttc ccttcgtatt ttttgatttg tcatctcctt
     6301 aaatttttat tttttataat atttttttcc attcttgcaa gcaagaattc tattttcttt
     6361 taaagctatt tataaaacta cttgggaaag ctttatattg ctcctttctt agattatttt
     6421 ttcccacgtc ttaaaaacat tttgctttgc tattgtaatg atcccctttc atttttatga
     6481 cgtgaatttt ttagttttgt aaaatacacg attacttgaa tcacgtccca agattcatag
     6541 tataaaattt cgtatttc
//
