LOCUS       NZ_AP024946             4998 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Aeromonas caviae strain KAM339 plasmid pKAM339_6, complete sequence.
ACCESSION   NZ_AP024946
VERSION     NZ_AP024946.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00294556
            Assembly: GCF_019973835.1
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     Draft genome sequence of carbapenem-resistant Aeromonas spp. in
            Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4998)
  AUTHORS   Maehana,S., Suzuki,M. and Kitasato,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JUL-2021) 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                   :: Unicycler v. 0.4.8.0
            Genome Coverage                   :: 323x
            Sequencing Technology             :: Illumina HiSeq X; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 10:20:37
            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)                     :: 4,780
            CDSs (total)                      :: 4,625
            Genes (coding)                    :: 4,536
            CDSs (with protein)               :: 4,536
            Genes (RNA)                       :: 155
            rRNAs                             :: 11, 10, 10 (5S, 16S, 23S)
            complete rRNAs                    :: 11, 10, 10 (5S, 16S, 23S)
            tRNAs                             :: 118
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 89
            CDSs (without protein)            :: 89
            Pseudo Genes (ambiguous residues) :: 0 of 89
            Pseudo Genes (frameshifted)       :: 29 of 89
            Pseudo Genes (incomplete)         :: 71 of 89
            Pseudo Genes (internal stop)      :: 9 of 89
            Pseudo Genes (multiple problems)  :: 16 of 89
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP024946.1.
            Annotated at DFAST 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..4998
                     /organism="Aeromonas caviae"
                     /mol_type="genomic DNA"
                     /strain="KAM339"
                     /db_xref="taxon:648"
                     /plasmid="pKAM339_6"
                     /geo_loc_name="Japan:Kanagawa"
                     /collection_date="2018"
     gene            1..339
                     /locus_tag="LDN97_RS23815"
                     /old_locus_tag="KAM339_046160"
     CDS             1..339
                     /locus_tag="LDN97_RS23815"
                     /old_locus_tag="KAM339_046160"
                     /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            complement(697..1566)
                     /gene="repC"
                     /locus_tag="LDN97_RS23820"
                     /old_locus_tag="KAM339_046170"
     CDS             complement(697..1566)
                     /gene="repC"
                     /locus_tag="LDN97_RS23820"
                     /old_locus_tag="KAM339_046170"
                     /inference="COORDINATES: protein motif:HMM:NF018238.4"
                     /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(1550..2392)
                     /locus_tag="LDN97_RS23825"
                     /old_locus_tag="KAM339_046180"
     CDS             complement(1550..2392)
                     /locus_tag="LDN97_RS23825"
                     /old_locus_tag="KAM339_046180"
                     /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            complement(2423..2629)
                     /gene="urfF"
                     /locus_tag="LDN97_RS23830"
                     /old_locus_tag="KAM339_046190"
     CDS             complement(2423..2629)
                     /gene="urfF"
                     /locus_tag="LDN97_RS23830"
                     /old_locus_tag="KAM339_046190"
                     /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"
     gene            complement(2706..3608)
                     /locus_tag="LDN97_RS23835"
     CDS             complement(2706..3608)
                     /locus_tag="LDN97_RS23835"
                     /inference="COORDINATES: protein motif:HMM:NF028103.4"
                     /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_223956767.1"
                     /translation="MGCDLYDIGIRDSATGKMMNREWTLQEVVENAAWLKRMNAQGNDI
                     YIRPAESARHGLVLVDDLSSFDLDAMKEEGREPAAVIETSPKNYQAWVKVAANAPAEHR
                     GAIARRLAREYDADPASADSHHYGRLAGFTNQKPKHTTKTGYQPWVLCRASSGQAATTG
                     PQMVQEAGQELESKERQQEQARRLEGIETAQPRRYHRTALDEYRSEMAGLVKRFGDDLS
                     KCDYIAAMKLAMKGIDPDEIAKAMAEASPGLMDRKAGQEADYIERTIKKVMALPEVQKI
                     RAELEQTQKTKRVYPTLKM"
                     /name="DNA-primase RepB domain-containing protein"
     gene            complement(3653..4066)
                     /locus_tag="LDN97_RS23840"
     CDS             complement(3653..4066)
                     /locus_tag="LDN97_RS23840"
                     /inference="COORDINATES: protein motif:HMM:NF036929.4"
                     /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            complement(<4173..4922)
                     /locus_tag="LDN97_RS23845"
                     /pseudo=""
     CDS             complement(<4173..4922)
                     /locus_tag="LDN97_RS23845"
                     /inference="COORDINATES: protein motif:HMM:NF015354.4"
                     /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"
     Typing          complement(1572..2392)
                     /name="IncQ1"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.148"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(2710..4823)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.73"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgggaaagt tagaggataa actcgccaag ctcgaagaac agagggcgcg gatcaatgcc
       61 gagatccagc gagtgagggc aagggaacag cagcaggaac ggcgggatga tactcggcgc
      121 aagatcatag ttggggcaat gctcacgggt atgatagagg cgggaaagct ggggcagttc
      181 aatgaggtct ggctacgggc tgagctggac aagcagcttg accgtgatcc agaccgagcc
      241 ctgtttggtc tgccaccact ggcaaaggct aagccagagc aggtggtgca ggaagaggcc
      301 cctgcggggc tacacaccgc ccccactgct gcgcagtagg ggaaaggccg ctgtcgcggc
      361 aaaacagctc tacgggcctc ctgtggcgtc tcagacaggc accagcgggc aaagcccgcc
      421 tttcacccta ccgcgtagcg gtggggggtg tgtagcctag cgcagcggat agatcagtta
      481 tccggcctct ggccgggcat tttgggcagg gttgaaggcc catctagggg ccttcggccc
      541 tagatattct tagtaatatc ttagtacgga tttttggcga atcgctgtag gccagtggtg
      601 gcgcggctta cagcgatttt tgagaagcgc aaacgtgacc gtttggccgg tagagcgtga
      661 ccgtttggcc ggtagaacgt gactgtttgg ccggtactag ctttgttcga gcagcagcgg
      721 gcgtttaatc gtcgctttgg cagcaactcc ccgcccttcg atcttcacat tccagccgtg
      781 cagcttgctg atctcatcca gtgctttacc gatgcgctcc cggcgtttcc ggttggtggc
      841 tgcggccttg ctgggcggcc cccaaacctt ctcagccagc cggtcaagcc gaatgctgtt
      901 actgttccct tgccgcaacc atgccgatag ccaggcatgg gcaagctgag cggtgtcgct
      961 gtgcagttcg cggcgttcca ttagtgacac atgcacatgg tgcccggaca acgcctcagc
     1021 aaagcggggg ttcaaggcaa tgtgaatctg tccttcgggg gtttcggcgt aggacagcag
     1081 gcgcattgac cagtcatagc catcttttcg ggcacggcag ccgaccatgc taaggcgctc
     1141 taaacagtcc tctagcaagt cgtaattccg gcccttatca tccaatcccg cagcctgcat
     1201 cagtgcatag cgggttgttt tgacgacaat ggctttatcc attacagcgc tttcttctgg
     1261 cttgagatca agccataact gctgccctcg tgggtgttca acctcggccc ctaaaccgtt
     1321 ggtttcgccc actgcggcca gcatgccagc cagtccaata gcaccgagca aaacagactg
     1381 atcgcgactg tcgagcgcct gccagacgtt gaacttgagg cgcaacccgt tatgttcatg
     1441 ctcgattgtc agaccgcccg gacggcggcc acggcacacg ggccggaaca gcgacaccag
     1501 cgctaaagcg gggtcgtggc gggcatgatc aacgtccccg cccctgtgct caaccagcgt
     1561 agccatcaga cacccccttg ctcttgcgtt gcttttccag cacagcgggc ttgagcaccc
     1621 cgccgtcatg ccgcctgaac cagcggtctt tgaacggtgc cccatagttg gccttgctta
     1681 cgccgtagcg cacgaaatag ggccgctgtg tgtcgtctac gccccattcc tcagcctcgc
     1741 cggtggtcat gccggacagg taggactgcc agcggatgtt atccaccagc acggacgatc
     1801 ccctgctggc ctgctgctgg tcgcccgcgc ccatcatggc cgcgcccttg ctggcatggt
     1861 gcaggaacac gatagagcac ccggtatcgg cggcgatggc ctccatgcgg ccaatcacct
     1921 gcgccatggg gccgctggcg ttctcttctt cgatgtggaa ccggcgcagc gtgtccagca
     1981 ccatcaggcg gcggccctcg gcggcgcgct tgaggccgtc gaaccactcc ggggccatga
     2041 tgttgggcag gttgccgatc agcggctgga tcagcaggcc gtcagccacg gcttgccgtt
     2101 cctcggcact gaggtgcgcc ccaagggcgt gcaggcggtg atggatggca actggtgggt
     2161 cttctgcggg caggtagatc actcggcctg tcggcagctc gcccacctcc agcagatccg
     2221 gcccgcccgc aatctgtgcg gccagttgca gggccagcat ggacttacca gctccaccgg
     2281 gggacaccag cgcccccacg gtgccggcca ccatgttggg cagtacgtag tcaatcggcg
     2341 gcggtagctc tgtgaagctc gccagaatgt cgataggctt atgggtagcc attgatttgc
     2401 ctcctttgca ggcggttgat ggtcaggcgc tggcggggcc gctatccccg tcctgcgccg
     2461 ctctgatctt gtccagataa agcctcaaag tctcggcctc atcgtctgtg gcccatatct
     2521 tacgcgcctt gcgccccagt tcacgctggg tctcggcaaa ccgagcctgc ctgatcgcgt
     2581 tatcgctggc caacaggttg ccagtcaatt tatcccgctt gtccttcata ccagacctca
     2641 ttagagctaa tgcaaaatac atggttagag ctaacaccat aacatgggtt agctctaact
     2701 aaaagtcaca ttttcagcgt ggggtatacc cgcttggttt tttgcgtctg ctcaagctcg
     2761 gcgcggatct tctgcacctc cggcagcgcc atcacttttt tgatggtgcg ctcgatgtag
     2821 tcggcctcct ggcctgcctt gcgatccatg aggccggggc tggcctcggc catggccttg
     2881 gcgatctcgt cgggatctat gcccttcatg gccaacttca tggcggcgat gtaatcgcac
     2941 ttgctcaggt cgtccccgaa ccgcttcacc agccccgcca tttcgctgcg gtactcgtcc
     3001 aaggcagtcc tgtgataacg gcgcggctgg gctgtctcta tgccctccag cctgcgggcc
     3061 tgctcctgct ggcgctcctt gctctcaagc tcctgcccgg cctcctgcac catctggggg
     3121 cctgtggtgg cggcttggcc gctggacgct cggcacagca cccacggctg ataccccgtc
     3181 ttggttgtgt gcttgggctt ctggttggta aagcccgcca gacggccata gtggtggcta
     3241 tcagcgcttg cggggtcggc gtcatactct cgggccagcc tgcgggcaat cgcgcccctg
     3301 tgctctgctg gcgcgtttgc cgctaccttc acccacgcct gatagttctt cgggctggtc
     3361 tcgataacgg cggcaggctc ccgcccttcc tccttcatcg cgtccaggtc aaagctgctc
     3421 aagtcgtcta ccaggacaag cccgtgcctg gctgattcgg ctggccggat atagatatcg
     3481 ttgccctgag cgttcatccg cttgagccat gcggcgttct cgaccacctc ttgcagcgtc
     3541 cattcccgat tcatcatctt gcctgtggcg gagtccctga tgccaatatc gtacaggtcg
     3601 cagcccatag ccttgagctg gcgggcgatg gcctgagagg tgcgatcccc cttcacttga
     3661 gcctgagtag tagccacact gccccctcct ttgtcgtcct gagatccggg gacagccaga
     3721 gccacaatcc gatcagcagc actagcataa acagcagaaa acccatcgag gtgactacga
     3781 aaatcctcca tcccaactga ctcgctgcgc cctcggcctt cccggctgcc ttgtccagtg
     3841 cctcggctgc cttgtccagt gcctcggctg tgccttccca cgccgtcgcg gctttgccct
     3901 gctggatctc ccactctcca gcctgcttta tgctggcctc ttgagtcttg tctatcgccg
     3961 tcacggcctt gtctgcgaga gtcgccaagc tctgcgccag cggctcgatc tgccccgcca
     4021 gctcgtcgat ccctctggcc tgcctcactt tgtctatcgc gctcatggtc gatgctctct
     4081 ctgtatgcct gtaggtcgat gatctcggtg ttggccgtct cgatggacag ggccgtatcc
     4141 gcccgcccgg tgcggatgcc ccgcccctcc atctccacca cgttggggcc aaggtggatg
     4201 gtcggcaggc gctcgatccc ctgcgcctct agcgtccggt ggtcgatgcg ggcttcgtgg
     4261 cctgccatct ccagcgcccg gttggcatgg tctgcccatg ctgctcgggt cttctcaagc
     4321 cacgccttgg gcttcaaact ctcggttttc tgcgcccccc cctgccccgg atttttcggg
     4381 ttgtacctgc tgaaccactg atctttcttg cgctcgacgc catcgttttt gcgctcggac
     4441 atcatcatgt ggcaatgcgg gttctcaccc ccccccttat gaatcgccag cgtatacggc
     4501 aggcgctcga cctcggtcag gtacttggcg aagtcgtcca cgagcacccg ctgctgatcg
     4561 agcgtcagct cgattggcag ggcaaattca acctctttga ataggcggcc attggcccgt
     4621 tcgtacaggt cggcggcatc ccagtagttg ccgacctctg cggctcctgc cgcccatgat
     4681 ggcatgttgc cagactgggt gtgcagcacc tcgtctttgt cgcgggcata cttgccctcg
     4741 cgctgaatgt agtcggcctt ggccttagcc gactggccgc cgccacggct gccagtcttg
     4801 gccgcgagat gaaatatcgc catgtgtaag ctccacgcta gtggccctcg gagagcgcac
     4861 cgccccgaag gggggccgga ggcagtttct cgcagagaaa ccggtaagtg cgccctcctc
     4921 atgttccatg agtcgggttt gcggcatcag taacctgatg atactctaca acgggcacat
     4981 aacaacaggg ctgtcaac
//
