LOCUS       NZ_AP026374             4983 bp    DNA     circular CON 12-OCT-2023
DEFINITION  Aeromonas caviae strain KAM471 plasmid pKAM471_4, complete sequence.
ACCESSION   NZ_AP026374
VERSION     NZ_AP026374.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00446292
            Assembly: GCF_024347695.1
KEYWORDS    RefSeq.
SOURCE      Aeromonas caviae
  ORGANISM  Aeromonas caviae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Aeromonadales;
            Aeromonadaceae; Aeromonas.
REFERENCE   1
  AUTHORS   Maehana,S., Suzuki,M. and Kitasato,H.
  TITLE     Complete genome sequence of carbapenem-resistant Aeromonas spp. in
            Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4983)
  AUTHORS   Maehana,S., Suzuki,M. and Kitasato,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUL-2022) Contact:Shotaro Maehana Kitasato university,
            Allied Health Sciences; 1-15-1, Kitasato, Minami-ku, Sagamihara,
            Kanagawa 252-0373, Japan URL
            :https://www.kitasato-u.ac.jp/ahs/english/index.html
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 2.1.1
            Genome Coverage                   :: 183x
            Sequencing Technology             :: Illumina HiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/12/2023 02:42:42
            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)                     :: 4,435
            CDSs (total)                      :: 4,275
            Genes (coding)                    :: 4,123
            CDSs (with protein)               :: 4,123
            Genes (RNA)                       :: 160
            rRNAs                             :: 11, 10, 10 (5S, 16S, 23S)
            complete rRNAs                    :: 11, 10, 10 (5S, 16S, 23S)
            tRNAs                             :: 124
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 33 of 152
            Pseudo Genes (incomplete)         :: 116 of 152
            Pseudo Genes (internal stop)      :: 13 of 152
            Pseudo Genes (multiple problems)  :: 7 of 152
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP026374.1.
            Annotated by DFAST https://dfast.ddbj.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..4983
                     /organism="Aeromonas caviae"
                     /mol_type="genomic DNA"
                     /strain="KAM471"
                     /db_xref="taxon:648"
                     /plasmid="pKAM471_4"
                     /geo_loc_name="Japan"
                     /collection_date="2019"
     gene            1..843
                     /locus_tag="OCX46_RS22160"
                     /old_locus_tag="KAM471c_42640"
     CDS             1..843
                     /locus_tag="OCX46_RS22160"
                     /old_locus_tag="KAM471c_42640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helicase RepA family protein"
                     /protein_id="WP_223917430.1"
                     /translation="MATHKPIDILASFTELPPPIDYVLPNMVAGTVGALVSPGGAGKSM
                     LALQLAAQIAGGPDLLEVGELPTGRVIYLPAEDPPVAIHHRLHALGAHLSAEERQAVAD
                     GLLIQPLIGNLPNIMAPEWFDGLKRAAEGRRLMVLDTLRRFHIEEENASGPMAQVIGRM
                     EAIAADTGCSIVFLHHASKGAAMMGAGDQQQASRGSSVLVDNIRWQSYLSGMTTGEAEE
                     WGVDDTQRPYFVRYGVSKANYGAPFKDRWFRRHDGGVLKPAVLEKQRKSKGVSDGYAG"
                     /name="helicase RepA family protein"
     gene            827..1696
                     /gene="repC"
                     /locus_tag="OCX46_RS22165"
                     /old_locus_tag="KAM471c_42650"
     CDS             827..1696
                     /gene="repC"
                     /locus_tag="OCX46_RS22165"
                     /old_locus_tag="KAM471c_42650"
                     /inference="COORDINATES: protein motif:HMM:NF018238.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein C, IncQ-type"
                     /protein_id="WP_223917429.1"
                     /translation="MATLVEHRGGDVDHARHDPALALVSLFRPVCRGRRPGGLTIEHEH
                     NGLRLKFNVWQALDSRDQSVLLGAIGLAGMLAAVGETNGLGAEVEHPRGQQLWLDLKPE
                     ESAVMDKAIVVKTTRYALMQAAGLDDKGRNYDLLEDCLERLSMVGCRARKDGYDWSMRL
                     LSYAETPEGQIHIALNPRFAEALSGHHVHVSLMERRELHSDTAQLAHAWLSAWLRQGNS
                     NSIRLDRLAEKVWGPPSKAAATNRKRRERIGKALDEISKLHGWNVKIEGRGVAAKATIK
                     RPLLLEQS"
                     /name="repC"
     gene            complement(2054..2392)
                     /locus_tag="OCX46_RS22170"
                     /old_locus_tag="KAM471c_42660"
     CDS             complement(2054..2392)
                     /locus_tag="OCX46_RS22170"
                     /old_locus_tag="KAM471c_42660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517562.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="WP_223917427.1"
                     /translation="MGKLEDKLAKLEEQRARINAEIQRVRAREQQQERRDDTRRKIIVG
                     AMLTGMIEAGKLGQFNEVWLRAELDKQLDRDPDRALFGLPPLAKAKPEQVVQEEAPAGL
                     HTAPTAAQ"
                     /name="mobilization protein"
     gene            2662..3042
                     /locus_tag="OCX46_RS22175"
     CDS             2662..3042
                     /locus_tag="OCX46_RS22175"
                     /inference="COORDINATES: protein motif:HMM:NF015354.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_261921580.1"
                     /translation="MPATKTRCCTPRPSWAAGAAEVGNYWDAADLYERANGRLFKEVEF
                     ALPIELTLDQQRVLVDDFAKYLTEVERLPYTLAIHKGGENPHCHLMMSERKNDGVERKK
                     DQWFSRYNPKNPGQGGRRKPRV"
                     /name="MobA/MobL family protein"
     gene            2979..>3152
                     /locus_tag="OCX46_RS22180"
                     /pseudo=""
     CDS             2979..>3152
                     /locus_tag="OCX46_RS22180"
                     /inference="COORDINATES: protein motif:HMM:NF015354.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /name="MobA/MobL family protein"
     gene            3310..3723
                     /locus_tag="OCX46_RS22185"
                     /old_locus_tag="KAM471c_42690"
     CDS             3310..3723
                     /locus_tag="OCX46_RS22185"
                     /old_locus_tag="KAM471c_42690"
                     /inference="COORDINATES: protein motif:HMM:NF036929.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IncQ-type mobilization protein MobB"
                     /protein_id="WP_223917439.1"
                     /translation="MSAIDKVRQARGIDELAGQIEPLAQSLATLADKAVTAIDKTQEAS
                     IKQAGEWEIQQGKAATAWEGTAEALDKAAEALDKAAGKAEGAASQLGWRIFVVTSMGFL
                     LFMLVLLIGLWLWLSPDLRTTKEGAVWLLLRLK"
                     /name="IncQ-type mobilization protein MobB"
     gene            3699..4670
                     /locus_tag="OCX46_RS22190"
                     /old_locus_tag="KAM471c_42700"
     CDS             3699..4670
                     /locus_tag="OCX46_RS22190"
                     /old_locus_tag="KAM471c_42700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001672138.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-primase RepB domain-containing protein"
                     /protein_id="WP_223918796.1"
                     /translation="MATTQAQVKGDRTSQAIARQLKAMGCDLYDIGIRDSATGKMMNRE
                     WTLQEVVENAAWLKRMNAQGNDIYIRPAESARHGLVLVDDLSSFDLDAMKEEGREPAAV
                     IETSPKNYQAWVKVAANAPAEHRGAIARRLAREYDADPASADSHHYGRLAGFTNQKPKH
                     TTKTGYQPWVLCRASSGQAATTGPQMVQEAGQELESKERQQEQARRLEGIETAQPRRYH
                     RTALDEYRSEMAGLVKRFGDDLSKCDYIAAMKLAMKGIDPDEIAKAMAEASPGLMDRKA
                     GHEADYIERTIKKVMALPEVQKIRAELEQTQKTKRVYPTLKM"
                     /name="DNA-primase RepB domain-containing protein"
     gene            4747..4953
                     /gene="urfF"
                     /locus_tag="OCX46_RS22195"
                     /old_locus_tag="KAM471c_42710"
     CDS             4747..4953
                     /gene="urfF"
                     /locus_tag="OCX46_RS22195"
                     /old_locus_tag="KAM471c_42710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007857788.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid repression protein F"
                     /protein_id="WP_223917435.1"
                     /translation="MKDKRDKLTGNLLASDNAIRQARFAETQRELGRKARKIWATDDEA
                     ETLRLYLDKIRAAQDGDSGPASA"
                     /name="urfF"
     Typing          2..822
                     /name="IncQ1"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.148"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          2998..4667
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.768"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atggctaccc ataagcctat cgacattctg gcgagcttca cagagctacc gccgccgatt
       61 gactacgtac tgcccaacat ggtggccggc accgtggggg cgctggtgtc ccccggtgga
      121 gctggtaagt ccatgctggc cctgcaactg gccgcacaga ttgcgggcgg gccggatctg
      181 ctggaggtgg gcgagctgcc gacaggccga gtgatctacc tgcccgcaga agacccacca
      241 gttgccatcc atcaccgcct gcacgccctt ggggcgcacc tcagtgccga ggaacggcaa
      301 gccgtggctg acggcctgct gatccagccg ctgatcggca acctgcccaa catcatggcc
      361 ccggagtggt tcgacggcct caagcgcgcc gccgagggcc gccgcctgat ggtgctggac
      421 acgctgcgcc ggttccacat cgaagaagag aacgccagcg gccccatggc gcaggtgatt
      481 ggccgcatgg aggccatcgc cgccgatacc gggtgctcta tcgtgttcct gcaccatgcc
      541 agcaagggcg cggccatgat gggcgcgggc gaccagcagc aggccagcag gggatcgtcc
      601 gtgctggtgg ataacatccg ctggcagtcc tacctgtccg gcatgaccac cggcgaggct
      661 gaggaatggg gcgtagacga cacacagcgg ccctatttcg tgcgctacgg cgtaagcaag
      721 gccaactatg gggcaccgtt caaagaccgc tggttcaggc ggcatgacgg cggggtgctc
      781 aagcccgctg tgctggaaaa gcaacgcaag agcaaggggg tgtctgatgg ctacgctggt
      841 tgagcacagg ggcggggacg ttgatcatgc ccgccacgac cccgctttag cgctggtgtc
      901 gctgttccgg cccgtgtgcc gtggccgccg tccgggcggt ctgacaatcg agcatgaaca
      961 taacgggttg cgcctcaagt tcaacgtctg gcaggcgctc gacagtcgcg atcagtctgt
     1021 tttgctcggt gctattggac tggctggcat gctggccgca gtgggcgaaa ccaacggttt
     1081 aggggccgag gttgaacacc cacgagggca gcagttatgg cttgatctca agccagaaga
     1141 aagcgctgta atggataaag ccattgtcgt caaaacaacc cgctatgcac tgatgcaggc
     1201 tgcgggattg gatgataagg gccggaatta cgacttgcta gaggactgtt tagagcgcct
     1261 tagcatggtc ggctgccgtg cccgaaaaga tggctatgac tggtcaatgc gcctgctgtc
     1321 ctacgccgaa acccccgaag gacagattca cattgccttg aacccccgct ttgctgaggc
     1381 gttgtccggg caccatgtgc atgtgtcact aatggaacgc cgcgaactgc acagcgacac
     1441 cgctcagctt gcccatgcct ggctatcggc atggttgcgg caagggaaca gtaacagcat
     1501 tcggcttgac cggctggctg agaaggtttg ggggccgccc agcaaggccg cagccaccaa
     1561 ccggaaacgc cgggagcgca tcggtaaagc actggatgag atcagcaagc tgcacggctg
     1621 gaatgtgaag atcgaagggc ggggagttgc tgccaaagcg acgattaaac gcccgctgct
     1681 gctcgaacaa agctagtacc ggccaaacag tcacgttcta ccggccaaac ggtcacgctc
     1741 taccggccaa acggtcacgt ttgcgcttct caaaaatcgc tgtaagccgc gccaccactg
     1801 gcctacagcg attcgccaaa aatccgtact aagatattac taagaatatc tagggccgaa
     1861 ggcccctaga tgggccttca accctgccca aaatgcccgg ccagaggccg gataactgat
     1921 ctatccgctg cgctaggcta cacacccccc accgctacgc ggtagggtga aaggcgggct
     1981 ttgcccgctg gtgcctgtct gagacgccac aggaggcccg tagagctgtt ttgccgcgac
     2041 agcggccttt cccctactgc gcagcagtgg gggcggtgtg tagccccgca ggggcctctt
     2101 cctgcaccac ctgctctggc ttagcctttg ccagtggtgg cagaccaaac agggctcggt
     2161 ctggatcacg gtcaagctgc ttgtccagct cagcccgtag ccagacctca ttgaactgcc
     2221 ccagctttcc cgcctctatc atacccgtga gcattgcccc aactatgatc ttgcgccgag
     2281 tatcatcccg ccgttcctgc tgctgttccc ttgccctcac tcgctggatc tcggcattga
     2341 tccgcgccct ctgttcttcg agcttggcga gtttatcctc taactttccc atgttgacag
     2401 ccctgttgtt atgtgcccgt tgtagagtat catcaggtta ctgatgccgc aaacccgact
     2461 catggaacat gaggagggcg cacttaccgg tttctctgcg agaaactgcc tccggccccc
     2521 cttcggggcg gtgcgctctc cgagggccac tagcgtggag cttacacatg gcgatatttc
     2581 atctcgcggc caagactggc agccgtggcg gcggccagtc ggctaaggcc aaggccgact
     2641 acattcagcg cgagggcaag tatgcccgcg acaaagacga ggtgctgcac acccaggcca
     2701 tcatgggcgg caggagccgc agaggtcggc aactactggg atgccgccga cctgtacgaa
     2761 cgggccaatg gccgcctatt caaagaggtt gaatttgccc tgccaatcga gctgacgctc
     2821 gatcagcagc gggtgctcgt ggacgacttc gccaagtacc tgaccgaggt cgagcgcctg
     2881 ccgtatacgc tggcgattca taaggggggt gagaacccgc attgccacct gatgatgtcc
     2941 gagcgcaaaa acgatggcgt cgagcgcaag aaagatcagt ggttcagcag gtacaacccg
     3001 aaaaatccgg ggcagggggg gcgcagaaaa ccgagagttt gaagcccaag gcgtggcttg
     3061 agaagacccg agcagcatgg gcagaccatg ccaaccgggc gctggagatg gcaggccacg
     3121 aagcccgcat cgaccaccgg acgctagagg cgcaggggat cgagcgcctg ccgaccatcc
     3181 accttggccc caacgtggtg gagatggagg ggcggggcat ccgcaccggg cgggcggata
     3241 cggccctgtc catcgagacg gccaacaccg agatcatcga cctacaggca tacagagaga
     3301 gcatcgacca tgagcgcgat agacaaagtg aggcaggcca gagggatcga cgagctggcg
     3361 gggcagatcg agccgctggc gcagagcttg gcgactctcg cagacaaggc cgtgacggcg
     3421 atagacaaga ctcaagaggc cagcataaag caggctggag agtgggagat ccagcagggc
     3481 aaagccgcga cggcgtggga aggcacagcc gaggcactgg acaaggcagc cgaggcactg
     3541 gacaaggcag ccgggaaggc cgagggcgca gcgagtcagt tgggatggag gattttcgta
     3601 gtcacctcga tgggttttct gctgtttatg ctagtgctgc tgatcggatt gtggctctgg
     3661 ctgtccccgg atctcaggac gacaaaggag ggggcagtgt ggctactact caggctcaag
     3721 tgaaggggga tcgcacctct caggccatcg cccgccagct caaggctatg ggctgcgacc
     3781 tgtacgatat tggcatcagg gactccgcca caggcaagat gatgaatcgg gaatggacgc
     3841 tgcaagaggt ggtcgagaac gccgcatggc tcaagcggat gaacgctcag ggcaacgata
     3901 tctatatccg gccagccgaa tcagccaggc acgggcttgt cctggtagac gacttgagca
     3961 gctttgacct ggacgcgatg aaggaggaag ggcgggagcc tgccgccgtt atcgagacca
     4021 gcccgaagaa ctatcaggcg tgggtgaagg tagcggcaaa cgcgccagca gagcacaggg
     4081 gcgcgattgc ccgcaggctg gcccgagagt atgacgccga ccccgcaagc gctgatagcc
     4141 accactatgg ccgtctggcg ggctttacca accagaagcc caagcacaca accaagacgg
     4201 ggtatcagcc gtgggtgctg tgccgagcgt ccagcggcca agccgccacc acaggccccc
     4261 agatggtgca ggaggccggg caggagcttg agagcaagga gcgccagcag gagcaggccc
     4321 gcaggctgga gggcatagag acagcccagc cgcgccgtta tcacaggact gccttggacg
     4381 agtaccgcag cgaaatggcg gggctggtga agcggttcgg ggacgacctg agcaagtgcg
     4441 attacatcgc cgccatgaag ttggccatga agggcataga tcccgacgag atcgccaagg
     4501 ccatggccga ggccagcccc ggcctcatgg atcgcaaggc aggccatgag gccgactaca
     4561 tcgagcgcac catcaaaaaa gtgatggcgc tgccggaggt gcagaagatc cgcgccgagc
     4621 ttgagcagac gcaaaaaacc aagcgggtat accccacgct gaaaatgtga cttttagtta
     4681 gagctaaccc atgttatggt gttagctcta accatgtatt ttgcattagc tctaatgagg
     4741 tctggtatga aggacaagcg ggataaattg actggcaacc tgttggccag cgataacgcg
     4801 atcaggcagg ctcggtttgc cgagacccag cgtgaactgg ggcgcaaggc gcgtaagata
     4861 tgggccacag acgatgaggc cgagactttg aggctttatc tggacaagat cagagcggcg
     4921 caggacgggg atagcggccc cgccagcgcc tgaccatcaa ccgcctgcaa aggaggcaaa
     4981 tca
//
