LOCUS       CP103357                4125 bp    DNA     circular BCT 31-AUG-2022
DEFINITION  Bacteroides fragilis strain BFG-612 plasmid unnamed1, complete
            sequence.
ACCESSION   CP103357
VERSION     CP103357.1
DBLINK      BioProject: PRJNA646575
            BioSample: SAMN30323488
KEYWORDS    .
SOURCE      Bacteroides fragilis
  ORGANISM  Bacteroides fragilis
            Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Bacteroidaceae;
            Bacteroides.
REFERENCE   1  (bases 1 to 4125)
  AUTHORS   Tisza,M.J., Smith,D. and Dekker,J.P.
  TITLE     Genome Sequencing of Bacteroides fragilis Group Isolates with
            Nanopore Technology
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4125)
  AUTHORS   Tisza,M.J., Smith,D. and Dekker,J.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-AUG-2022) LCIM, National Institute of Allergy and
            Infectious Diseases, 9000 Rockville Pike, Bethesda, MD 20892, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 146x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 08/22/2022 22:15:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,528
            CDSs (total)                      :: 4,435
            Genes (coding)                    :: 2,373
            CDSs (with protein)               :: 2,373
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 73
            ncRNAs                            :: 2
            Pseudo Genes (total)              :: 2,062
            CDSs (without protein)            :: 2,062
            Pseudo Genes (ambiguous residues) :: 0 of 2,062
            Pseudo Genes (frameshifted)       :: 1,976 of 2,062
            Pseudo Genes (incomplete)         :: 82 of 2,062
            Pseudo Genes (internal stop)      :: 114 of 2,062
            Pseudo Genes (multiple problems)  :: 105 of 2,062
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            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/
            NCBI analysis of this genome has determined that >30% of the
            predicted CDS features contain frameshifts, which is well above the
            usually observed value of <10%.
FEATURES             Location/Qualifiers
     source          1..4125
                     /organism="Bacteroides fragilis"
                     /mol_type="genomic DNA"
                     /strain="BFG-612"
                     /host="Homo sapiens"
                     /db_xref="taxon:817"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA: Bethesda"
                     /collection_date="2016-11-01"
     gene            1..252
                     /locus_tag="NXW60_22500"
     CDS             1..252
                     /locus_tag="NXW60_22500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004295507.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UVV57577.1"
                     /translation="MEALSVREYRNNLAASFTKADNGEQVLIRRKNEIYALVKVGREDL
                     MITPELQARIDKAREEIKSGKCVTLKSSEDIDAYFDSL"
                     /name="hypothetical protein"
     gene            249..524
                     /locus_tag="NXW60_22505"
     CDS             249..524
                     /locus_tag="NXW60_22505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004327436.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0004519 - endonuclease activity [Evidence IEA];
                     GO_process: GO:0006401 - RNA catabolic process [Evidence
                     IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system YoeB family toxin"
                     /protein_id="UVV57578.1"
                     /translation="MMYTIRVSDGVDKVIAKWKKSNPNLFKKYKKIYKELLEHPKTGLG
                     HPEALRGGGDITWSRHITAHDRIIYDIYEEVVEVYILEVEGHYNDK"
                     /name="type II toxin-antitoxin system YoeB family toxin"
     gene            535..732
                     /locus_tag="NXW60_22510"
     CDS             535..732
                     /locus_tag="NXW60_22510"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007209655.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UVV57579.1"
                     /translation="MVEYCVYWLENGEPMHEVFSSLAAAEMYSCAIRGKENIEWVEVSE
                     EETIDLDELEDMFPDDFCGV"
                     /name="hypothetical protein"
     gene            1220..2014
                     /locus_tag="NXW60_22515"
     CDS             1220..2014
                     /locus_tag="NXW60_22515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007560590.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="UVV57580.1"
                     /translation="MIGKGKSISHGVAALEYDLAKEINGQAVATEIARHELYGCTGAEM
                     VQEMKPYHIDFPNVKNNCLRFEVSPSIEESATFTDADWAELGNDFMQRMGLANHQYIII
                     RHSGTESKKEQAHLHILANRVSLSGELYRDNWIGKKATEAANAIAKERNFVQSQDIGKV
                     NKAEIKEAMDGVLKKMQGFDFTKFKEELGKRGFKVREARASTGKLNGYYVTARSGTEYK
                     ASEIGKGYTLAHIERTQSKLKCNSMNISHGNKLTPGSGSFQR"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1971..2401
                     /locus_tag="NXW60_22520"
                     /pseudo=""
     CDS             1971..2401
                     /locus_tag="NXW60_22520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004295511.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            2421..2651
                     /locus_tag="NXW60_22525"
     CDS             2421..2651
                     /locus_tag="NXW60_22525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005683050.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="charged multivesicular body protein 2b-B"
                     /protein_id="UVV57575.1"
                     /translation="MGTTEHEEPRFFFILNKGAKSGGEITHAVLNGSIVSKPAGWDAFH
                     GLALAREKLSSEEIQQQMKELGVEMEIVPLI"
                     /name="charged multivesicular body protein 2b-B"
     gene            complement(2688..3713)
                     /locus_tag="NXW60_22530"
     CDS             complement(2688..3713)
                     /locus_tag="NXW60_22530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008657007.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UVV57576.1"
                     /translation="MKKKLPITKNKDVVVSWVYTWSKQQDMSIHEQRIVLRILEACQAE
                     LKGVKLKDYAGTKRKFEHGLWDVDAQMHVSDVIFSGRDYNEIIAALDSLAGRFFTYEDD
                     EEWWKCGFISNPKYKKRTGIITFRVSNDLWDVFTKFAKGYREFELNKALALPTGYSLRF
                     YMLMSGQVYPLDISLENLKDRLGIPADKYKDKNGKDRIDHFEERVLKPAKAALDESCPY
                     TFNYVKVRENPNNKRSKVTGFRFYPVYQPQFRDEELEGKELQAKVTARYQIDSHVYEYL
                     RYSCGFTSEEINRNKETFITAQEKITDLIGELALLNGKSREKNNPKGWIINALKGKIKD
                     K"
                     /name="replication initiation protein"
ORIGIN
        1 atggaagcat tatcagtaag agaataccgt aacaacctcg cagcgtcttt caccaaagct
       61 gacaatggcg agcaggtact aattcgcagg aaaaacgaga tttacgcttt ggtaaaagtt
      121 ggtcgtgaag atttgatgat aaccccggag ctgcaagcaa ggattgacaa ggcaagggaa
      181 gaaatcaaat ccggaaagtg tgttaccctc aaaagcagtg aggatattga cgcttatttc
      241 gatagtctat gatgtacaca attagggttt ccgacggggt ggataaggtg attgccaaat
      301 ggaagaaatc aaaccccaat ttgttcaaga agtataagaa aatctacaaa gaattgttag
      361 agcaccctaa gactgggctt gggcatcccg aagcgttaag gggcggtggg gatattacat
      421 ggtctcgaca cattaccgcc catgaccgga taatctatga catttacgag gaagtggtag
      481 aggtctacat cttggaggta gaggggcatt acaacgataa atgataaaac tgttatggtc
      541 gaatattgtg tttactggtt agagaacggc gagcctatgc acgaggtgtt ctcttctctt
      601 gccgccgccg agatgtactc atgtgcgata agagggaaag aaaacattga atgggtggag
      661 gtgtccgaag aagaaaccat tgatttggac gaactggaag acatgttccc ggatgacttc
      721 tgcggcgtgt aatccccttg ggtagaaatg gggtagaatt tgttaggctg tgggggattt
      781 tctaacacgc cggggctttt tgctgggcgg ttggcgtgga tgtattccca tgcggcatgt
      841 gtatatatag caagaagtgt ccttgtcgga caattcttgc ttttctcgct ttgctcaaaa
      901 agattttaag attacctttg tggcatggaa ctaagacgga acgaaaagat tacattccgg
      961 tgtaccgaac ttgaaaagga cgcacttgcg gagcaggcag cccggtgcag tctaagcgta
     1021 tcggaatact gccggagttt gtcccttggg ggcgcccaag ggagaggtac accgaggagg
     1081 aacggcagct tctccgggac atagcccagt tgaaaggaac gctccaacgg ctgaacaact
     1141 acttcggtgg tcgccagtac cgggaagtgt tcgaggagaa ccgggcacta attacagagc
     1201 tcaaaaaaat actctcacga tgatagggaa agggaaaagc atatcacatg gtgtggcggc
     1261 attggagtac gacctcgcca aagagataaa cgggcaggca gtagccaccg agatagcccg
     1321 gcatgaactt tatgggtgta ctggtgcgga aatggtgcag gaaatgaaac cgtatcacat
     1381 tgattttccg aacgtaaaaa acaactgcct acgtttcgag gtcagcccct cgatagagga
     1441 aagcgccacc tttacggatg cggactgggc ggaacttggt aacgacttca tgcagcgcat
     1501 ggggttggcg aaccaccagt acatcatcat ccggcacagc ggtacggaga gcaagaaaga
     1561 gcaagcccac ctgcacatac tggcaaaccg ggtttccctt tccggggaac tgtaccggga
     1621 caactggata gggaaaaagg caacggaagc cgccaatgcc atagccaagg aacggaactt
     1681 tgtacagtcg caggacattg gcaaagtcaa caaagcggaa atcaaggaag ccatggacgg
     1741 cgtattgaag aagatgcagg gctttgactt taccaaattc aaggaagaac ttggtaagag
     1801 aggttttaaa gtccgggaag ccagggcaag caccgggaaa cttaacggct actatgtcac
     1861 agcccgaagc ggtacggagt ataaggcaag cgagataggg aaaggctaca ctctcgccca
     1921 tatcgagcgg acacaaagca aactgaagtg caactcaatg aacatatctc atggaaacaa
     1981 actcacaccc ggaagcggca gcttccaacg ttaagcaggg acagtacagc ccccggaaaa
     2041 gaaaagatac aacgcggtag aactggtgta tcaagaacta aagcgtgttg aagtctatac
     2101 gaagcgcata gaggacgcaa cagcccgaaa ggtacaaata gacgggaaaa gccttgaaag
     2161 tgccgaaaat cgcctaaaaa acgtgttggc ggactttgaa cggcaggggt acagaatgaa
     2221 aaacggcggt tatgtggaca aacgaatttc gttctactca atcctttgtg ctgttatctc
     2281 cctattgttc gcttgtttca tgtgctatct ttggacggat gcagccaaag accgggacaa
     2341 ctacaagcag tattatgaat actaccaaga gcaggcaagg gaacaaaagg ggaataaata
     2401 aacatctaac tttacgaatt atgggaacaa cggaacacga agaaccccgg ttcttcttca
     2461 tactgaacaa gggtgcgaag tccggcggcg aaatcaccca tgccgtccta aacggtagta
     2521 tcgtttcgaa gccggcaggc tgggacgcct ttcatgggct tgcactggcg agagagaaac
     2581 taagcagcga ggaaatacaa cagcagatga aagaacttgg tgtagaaatg gaaatcgttc
     2641 ctctgatttg acaagattac ccggagtgtt tcagccgggt aatcttgtta cttatccttg
     2701 attttccctt taagggcgtt tataatccac cctttcggat tgttcttttc tcgtgatttt
     2761 ccgtttagga gagccagttc tccgataagg tcggttatct tttcttgtgc cgttatgaat
     2821 gtctctttgt tccggtttat ctcttccgat gtgaagccgc aggaataacg gaggtactcg
     2881 tacacatggc tgtctatctg atatcgtgct gtaacctttg cttgcaattc tttcccttcc
     2941 agttcttcat ctctgaactg tggttgatag accgggtaga acctaaaccc ggtcaccttg
     3001 ctacgtttgt tgtttgggtt ttcacgcact ttcacgtagt tgaaagtgta tgggcagctc
     3061 tcatcaagcg cagcctttgc tggtttcaaa actctttcct caaaatgatc tattctgtct
     3121 tttccgttct tgtccttgta tttgtccgca ggtatgccaa gacggtcttt caagttttca
     3181 agggatatat ccaaagggta cacctgccca ctcattaaca tgtaaaacct aagggaatac
     3241 ccagtaggta gcgcaagagc cttgtttaac tcaaattctc tgtacccctt ggcgaacttg
     3301 gtaaacacat cccaaaggtc gttagacaca cgaaaggtta taatgccagt gcgtttttta
     3361 tattttgggt tagatataaa tccgcacttc caccattcct cgtcatcttc gtaagtaaaa
     3421 aaacgtcctg ccaaagaatc gagtgcggct atgatttcat tgtaatcacg tccggaaaaa
     3481 ataacgtcag atacatgcat ttgtgcatca acatcccaaa gtccatgctc aaacttgcgt
     3541 ttcgtgcctg cataatcttt cagttttact ccctttagtt cagcttggca cgcttccagt
     3601 atgcgaagaa ctattctttg ttcgtgtatg gacatgtctt gctgttttga ccatgtatat
     3661 acccatgaaa caacaacatc tttattcttg gtaataggta gtttcttttt cataaacgat
     3721 tgatttgctg caaatataca caatccccac attaaaacaa aaaaagaggg gtaaaactcc
     3781 caaagtgtgg ggactaattt acttttaaac tcccaaagtg tggggactaa actcccaaag
     3841 tgtggggaaa cacatgttct aatcccttta tttatgggcg tttgcgaaga agtgatagag
     3901 catattacag acgatgctta taacagacaa ggggaattta tagagctaag tggttgattt
     3961 actgtcggaa aaagaaaaac gatagggaaa aagagcaaag caaaaccaac caacgggcgg
     4021 taggattgga aacgggtttt tatggcgtgt acacgtttgt gtacaaaatg tttgtatttt
     4081 attgaaatat agctatcttt gtgctgaatt taaaagcaaa cagat
//
