LOCUS       NZ_AP025244             2784 bp    DNA     circular CON 28-MAR-2024
DEFINITION  Phocaeicola vulgatus strain MG01-10 plasmid pMG01-10_4, complete
            sequence.
ACCESSION   NZ_AP025244
VERSION     NZ_AP025244.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00405045
            Assembly: GCF_020885855.1
KEYWORDS    RefSeq.
SOURCE      Phocaeicola vulgatus
  ORGANISM  Phocaeicola vulgatus
            Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Bacteroidaceae;
            Phocaeicola.
REFERENCE   1
  AUTHORS   Tanaka,K., Noguchi,H., Vu,H., Muto,Y., Hayashi,M. and Yamamoto,Y.
  TITLE     Complete genome sequences of three Phocaeicola vulgatus isolated
            from a healthy Japanese individual
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2784)
  AUTHORS   Tanaka,K., Noguchi,H., Vu,H., Muto,Y., Hayashi,M. and Yamamoto,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-OCT-2021) Contact:Kaori Tanaka Gifu University;
            Yanagido, Gifu 501-1194, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Illumina Miseq; Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_020885855.1-RS_2024_03_28
            Annotation Date                   :: 03/28/2024 07:11:59
            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)                     :: 4,157
            CDSs (total)                      :: 4,047
            Genes (coding)                    :: 3,927
            CDSs (with protein)               :: 3,927
            Genes (RNA)                       :: 110
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 2
            Pseudo Genes (total)              :: 120
            CDSs (without protein)            :: 120
            Pseudo Genes (ambiguous residues) :: 0 of 120
            Pseudo Genes (frameshifted)       :: 45 of 120
            Pseudo Genes (incomplete)         :: 87 of 120
            Pseudo Genes (internal stop)      :: 28 of 120
            Pseudo Genes (multiple problems)  :: 30 of 120
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP025244.1.
            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..2784
                     /organism="Phocaeicola vulgatus"
                     /mol_type="genomic DNA"
                     /strain="MG01-10"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:821"
                     /plasmid="pMG01-10_4"
                     /geo_loc_name="Japan"
                     /lat_lon="35.4234 N 136.7606 E"
                     /collection_date="2020-09-20"
     gene            join(2423..2784,1..742)
                     /locus_tag="GAIMETA21_RS20725"
                     /db_xref="GeneID:69842492"
     CDS             join(2423..2784,1..742)
                     /locus_tag="GAIMETA21_RS20725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004295514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="WP_005783389.1"
                     /db_xref="GeneID:69842492"
                     /translation="MGATSIHVQAVKPGSEIHNFREKELDYVRPELSHLNESWVGDSIS
                     HRLESAKQRYFDTVGQKMQTKAAPIREGVIVIKQETTMQELQQFAAVCKERFGIEAFQI
                     HIHKDEGYMNAKQWTPNLHAHVVFDWTQPNGKSVRLSRDDMAELQTIASEALGMERGVS
                     SDRKHLSAMQYKTECAKEQLQELSNDISSALDKHKDVQNQLLQLQKELRSIETKKNVQK
                     LISKASEKFYGLIGKTVNDREKDTLKAKIKALEGENEQLSDRLGKAILEKERNGTKVFK
                     AENDKEYYRQQMDNARTTSNRLRTENQELKTETKELKKELGKMKDLFNSEQLEALRHHF
                     PNISKAMEEGKDLLKQITRSRGFGMGM"
                     /name="plasmid recombination protein"
     gene            1214..1804
                     /locus_tag="GAIMETA21_RS20730"
                     /old_locus_tag="GAIMETA21S10_39990"
                     /db_xref="GeneID:69842493"
     CDS             1214..1804
                     /locus_tag="GAIMETA21_RS20730"
                     /old_locus_tag="GAIMETA21S10_39990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008670455.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_008670455.1"
                     /db_xref="GeneID:69842493"
                     /translation="MENKKVLKLTDFQKNEENPFMKQAIEGIENHVVKKYKSSTGSDKK
                     AVVAVADTDTGEVFKTSFIRQIEVDEEQFAKLYLANFAAFFNLSQSAIRVFGYILTCMK
                     PKNDMIIFDRRKCLEYTQYKSDKAIYKGLAELVQSEIIARGPNEYNWFINPLIVFNGDR
                     VSFTKTYVRKKTLAAQKKEEAEKRQLSLGFDEL"
                     /name="hypothetical protein"
     Typing          1215..1794
                     /name="rep_cluster_1868"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.479"
                     /coverage="95.0"
                     /evalue="2.71e-121"
     Typing          3..739
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="99.0"
                     /evalue="3.98e-146"
     Typing          2424..2782
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.667"
                     /coverage="99.0"
                     /evalue="6.41e-73"
ORIGIN
        1 ccttcacgcc catgtagttt tcgattggac gcagccgaac gggaagagtg tgcgtttatc
       61 gcgtgatgac atggcagaac tccaaaccat agcatctgaa gcactgggca tggaacgtgg
      121 tgtttcttct gatcgcaaac acttatcggc tatgcagtac aagaccgaat gtgcgaaaga
      181 acagcttcag gaactatcca acgatatatc cagtgcgtta gacaagcaca aggacgtgca
      241 aaaccagctt cttcagcttc agaaagaact acgttccatt gaaacaaaga aaaacgtcca
      301 aaaactcatt tctaaggctt cagagaagtt ttacggcttg atagggaaaa cggttaacga
      361 tagggaaaaa gataccttaa aagccaaaat aaaggcttta gagggggaaa atgaacagct
      421 atccgataga ctgggaaagg ctatacttga aaaagagcga aacggcacaa aggtattcaa
      481 agccgagaac gacaaggagt attatagaca gcaaatggac aatgcaagga caaccagtaa
      541 ccgactaaga acggagaacc aagaactaaa gaccgaaacc aaggaattga aaaaagaact
      601 tggtaagatg aaagacttgt tcaattccga acaactggag gctttaaggc atcatttccc
      661 aaacatatca aaagctatgg aagaggggaa agacctactc aagcaaatca ccagaagcag
      721 aggtttcggt atgggtatgt aacccccccc gcccccaaag ggggagcgac caaacggcag
      781 cttcactcaa tggagtgtta cgccgttcgg gttcggaaga aattttgcag ggttcgaaaa
      841 acggttgtgt gcttattcga aaaaaagttt atggtgtggg cgctcgtcgg gacgggtggt
      901 cccgcccctt gccgctgggc gctccccgac cgatgatttt ttaagtagtt gattatatgc
      961 cgtttttagg gtataataag aacttaagaa atagaataag ttaagtagtt gatactcaat
     1021 atagggtatt ttccatattg gaaaatcaga ttttccatat tagaaagtca ctctttccta
     1081 ttagatgtta aaaaggaaaa tatattttgc ttttttattg tattaatgga aatttaaata
     1141 ttcctttgtg gaaaatcaaa ttatactttt tcaccgatat atagaaagtc aaatttgcct
     1201 aaatagaatg tttatggaaa ataagaaagt actcaaatta accgattttc aaaaaaacga
     1261 agaaaacccc tttatgaaac aagcaattga agggattgaa aatcacgttg ttaagaaata
     1321 caaaagtagt acgggaagtg ataaaaaagc tgtagttgct gttgctgata cagatacagg
     1381 agaagtattc aaaacctcgt ttatccgaca aatagaagta gatgaagagc aatttgcaaa
     1441 actatacctt gcgaattttg ccgctttttt caatctatca caatcagcta ttcgggtttt
     1501 cgggtatatt ctaacttgca tgaagcctaa gaatgatatg ataattttcg ataggcgaaa
     1561 atgcttagaa tacacccaat acaaatcaga caaagccata tacaaaggat tggcagagct
     1621 cgtacaaagt gaaatcatag caagaggtcc aaacgaatat aattggttca ttaatccgtt
     1681 gattgtcttt aatggggata gggtttcatt tacaaaaaca tacgttcgga aaaagacttt
     1741 agctgcccaa aagaaagaag aagcagagaa acgacagtta tcacttggtt ttgatgaact
     1801 gtaacactcc attgagtgaa gctgccgttt ggtcgctccc cctttggggg cggggggggg
     1861 atagataaag ttcctctatg taaagttata atgggggatg aaaggcaagg ttcgctaacc
     1921 ttaccccgat tgtttatgct tcccagcatt caatctatcc ccgtttatgg gtttctcttt
     1981 caccctacaa agataacctc atgggggaaa aatgtccaag aatatggggt aaaaactatc
     2041 aagtcggtag aaaataagta tctttgaagt acatttttag tagaggtact ggtatgccta
     2101 gacgaagcag ataggcaaaa ataaagccgc tggggatgtc ggatgtccgt caattaactc
     2161 cagcggcttg tattttggta actctcccgt atcggtcagc taccgtttgg tcagcaacaa
     2221 aggtagtact ttattgtcgc aaatccaaat gttttcccct ttatttgtgc atttacaaaa
     2281 cattcactaa cttcgcacct atgcagtatg gtgatagcac actagcaccc taaagggtac
     2341 gtgtgtaagg ggacaagccc ccttaacccc ctgtcagccg gctgtcaccg gctgttatcg
     2401 attgtcacaa aaatgttaac ttatgggagc aacaagtatt catgtacaag cagtgaagcc
     2461 ggggagcgag attcacaact ttagggaaaa agagttggac tatgttcgtc cggaacttag
     2521 tcatttgaat gaaagctggg ttggagatag catctcccat cggctggaga gtgcgaaaca
     2581 gagatatttc gatacggttg ggcagaagat gcagactaaa gcagcaccca tacgggaggg
     2641 ggtaatagta atcaagcaag aaaccaccat gcaggaactc cagcaattcg ctgcggtctg
     2701 caaggaacgt ttcggtattg aagcgtttca aatccatata cacaaggacg aaggatacat
     2761 gaacgcaaag caatggacac ctaa
//
