LOCUS       NZ_CP036549             5595 bp    DNA     circular CON 25-JUL-2023
DEFINITION  Bacteroides fragilis strain DCMSKEJBY0001B plasmid pBFS01_3,
            complete sequence.
ACCESSION   NZ_CP036549
VERSION     NZ_CP036549.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02730069
            Assembly: GCF_000710365.2
KEYWORDS    RefSeq.
SOURCE      Bacteroides fragilis
  ORGANISM  Bacteroides fragilis
            Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Bacteroidaceae;
            Bacteroides.
REFERENCE   1  (bases 1 to 5595)
  AUTHORS   Sydenham,T.V., Hasman,H., Wang,M., Soki,J., Nagy,E. and
            Justesen,U.S.
  TITLE     Identification of resistance genes in three multidrug-resistant
            Bacteroides fragilis isolates by whole genome sequencing
  JOURNAL   (in) ? (Ed.); THE 24TH EUROPEAN CONGRESS OF CLINICAL MICROBIOLOGY
            AND INFECTIOUS DISEASES; ECCMID 2014, Barcelona, Spain (2014)
REFERENCE   2  (bases 1 to 5595)
  AUTHORS   Sydenham,T.V., Hasman,H. and Justesen,U.S.
  TITLE     Complete genome assembly of MDR B. fragilis
  JOURNAL   Unpublished
REFERENCE   3  (bases 1 to 5595)
  AUTHORS   Sydenham,T.V., Hasman,H. and Justesen,U.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAR-2019) Department of Clinical Microbiology, Odense
            University Hospital, J.B. Winsloews Vej 21,2, Odense C 5000, Denmark
REFERENCE   4  (bases 1 to 5595)
  AUTHORS   Sydenham,T.V., Hasman,H., Wang,M. and Justesen,U.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUL-2014) Department of Clinical Microbiology, Odense
            University Hospital, J.B. Winsloews Vej 21,2, Odense C 5000, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: OUH_S01_3.manual
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/25/2023 04:12:56
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,504
            CDSs (total)                      :: 4,411
            Genes (coding)                    :: 4,347
            CDSs (with protein)               :: 4,347
            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)              :: 64
            CDSs (without protein)            :: 64
            Pseudo Genes (ambiguous residues) :: 0 of 64
            Pseudo Genes (frameshifted)       :: 23 of 64
            Pseudo Genes (incomplete)         :: 41 of 64
            Pseudo Genes (internal stop)      :: 15 of 64
            Pseudo Genes (multiple problems)  :: 13 of 64
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP036549.1.
            Bacteria and source DNA available from Ulrik S. Justesen.
            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..5595
                     /organism="Bacteroides fragilis"
                     /mol_type="genomic DNA"
                     /strain="DCMSKEJBY0001B"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:817"
                     /plasmid="pBFS01_3"
                     /geo_loc_name="Denmark: Aarhus"
                     /lat_lon="56.1917 N 10.1722 E"
                     /collection_date="2013-08-13"
                     /collected_by="Mikala Wang"
     gene            418..1320
                     /locus_tag="EC80_RS23560"
                     /old_locus_tag="EC80_023565"
     CDS             418..1320
                     /locus_tag="EC80_RS23560"
                     /old_locus_tag="EC80_023565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005799258.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_225538865.1"
                     /translation="MKAYMDAHVCSNVYTVQGGKAHSHYCHRAFCPICQRIQTAQNVKK
                     FLPVMKYLASEGREFYFVTLTLQNCVTDDARVLRDFMRRCNRMWADGIRTKHKFRSLGI
                     SGVIKKECTYHVVKKDLFSFHYHFHIIVDSLEAAKYVVAQWKKLHGSTVADARFQKYKK
                     IEDFENAAIEVFKYASKASVSKSKGRDGKKKIQINYKALDMIYTAMHGMQRMSSFGQFR
                     TMIGDEALNDFRDEDLVLNIEGLNVEDGCYTWYMSVKDKVADWYNMETGEALCCYKVTR
                     KDELLQDIYLDEDIFPNSG"
                     /name="protein rep"
     gene            complement(1324..1785)
                     /locus_tag="EC80_RS23565"
                     /old_locus_tag="EC80_023570"
     CDS             complement(1324..1785)
                     /locus_tag="EC80_RS23565"
                     /old_locus_tag="EC80_023570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005812785.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005812785.1"
                     /translation="MNRIIHISLLISTVSLFLISNTGCVEKQGYYNHGEESIISLICDI
                     TWAGKKTTDENGSVWQGTYKFNKNGTYTRTNIEIDKQGNKKEANIYGQWSFGDPSFSTI
                     YFGGEHYWDIDELTKNKFSFYDRSGKFGDPFMNREYIELTPYQENNTTN"
                     /name="hypothetical protein"
     gene            1877..2647
                     /locus_tag="EC80_RS23820"
     CDS             1877..2647
                     /locus_tag="EC80_RS23820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016274503.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005799241.1"
                     /translation="MKKVMFMFISLLTVLGVCSCNDNEVIEPVVSDSVSDMEVLSRFVD
                     VNEITNEYYFNENKKTRALSYVTGSDWQDLEKVSPLSIEKYKNNLQVLNAQVASAISNP
                     NTAYVVFSVNGKTLVKKVKEDANFDFSVFRDVVTETRAVLPSLSINGGSQSTTGVFYDS
                     SRTLKMQVDLNASIQNNYYFFEVLNPNAKPSPDDNITTPESVAFSGTGPLWSNTFTWTS
                     YWDANVPGQGFKWEFKGKGTTPSFGFIANCTFSR"
                     /name="hypothetical protein"
     gene            complement(2717..3967)
                     /locus_tag="EC80_RS23575"
                     /old_locus_tag="EC80_023580"
     CDS             complement(2717..3967)
                     /locus_tag="EC80_RS23575"
                     /old_locus_tag="EC80_023580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005799237.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NBU/pMV158-type mobilization protein"
                     /protein_id="WP_032535836.1"
                     /translation="MAKTCIRVEACNIGSSERHNLRSKELDYIRPELTHRNEQWVECSI
                     AEVHRDITEKYKEATGQGLQKKATPIREGVIVISEETTIQQLQDLAEKLEERFGVHAFQ
                     IYTHKDEGANVWDGKEEAWKPNYHAHMIFDWTDGHTGKTVKLNRHDMAEMQTITAECLN
                     MERGVSSDKKHLSAMQYKNKMETEKAEQLQKDIEQLNRAYTAGTEKITTVQKKLSTAQK
                     ELNSMKTDIHINEAKEAAAKAGKTVFNAVTSVFNVGEVKRQAKEIETLKKENYNLSFKN
                     QNLEGQLRTNNIEMRRVQETTDRQIKAEASKLKPITNLFPEMENAQENIEELQTMGIQN
                     KDIRQLLIGKEIYYTGNLYDKDKRKSYQVKNVKIDISKSQNGITTIWLNNIHFKNFLKE
                     LWNTLQKTLDNGNWLHR"
                     /name="NBU/pMV158-type mobilization protein"
     gene            4373..4621
                     /locus_tag="EC80_RS23580"
                     /old_locus_tag="EC80_023585"
     CDS             4373..4621
                     /locus_tag="EC80_RS23580"
                     /old_locus_tag="EC80_023585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008771457.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AbrB/MazE/SpoVT family DNA-binding
                     domain-containing protein"
                     /protein_id="WP_005812783.1"
                     /translation="MVTNIIQIGNSKGIILPSEVLKQLRLSLKSAVSISLDGNNIVIKA
                     QPRQGWAEAAKRAHENGDDELLIPDVFEDEKFEDWTW"
                     /name="AbrB/MazE/SpoVT family DNA-binding domain-containing
                     protein"
     gene            4615..4935
                     /locus_tag="EC80_RS23585"
                     /old_locus_tag="EC80_023590"
     CDS             4615..4935
                     /locus_tag="EC80_RS23585"
                     /old_locus_tag="EC80_023590"
                     /EC_number="3.1.-.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005799262.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003723 - RNA binding [Evidence IEA]; GO:0004521 - RNA
                     endonuclease activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system PemK/MazF family
                     toxin"
                     /protein_id="WP_005799262.1"
                     /translation="MVEQYEVYWVELDPTRGGEMAKTRPCVVVTPSDLNMYLTTVVIVP
                     ITSTIRNYPYRVLCSVAGREGEIATDQIRTVDKSRLKRKIGDLNFSEIKRLREVFQQMF
                     CE"
                     /name="type II toxin-antitoxin system PemK/MazF family
                     toxin"
     gene            4972..5370
                     /locus_tag="EC80_RS23590"
                     /old_locus_tag="EC80_023595"
     CDS             4972..5370
                     /locus_tag="EC80_RS23590"
                     /old_locus_tag="EC80_023595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005799260.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005799260.1"
                     /translation="MKPTDYIEWDNLKDIPFFLCQVVEDREKQDLDIYYLGKRVLHDYD
                     HVGHYLRTAVILFRRVKSRTADWVNLRNLWTLRNCVRENYNHGIGMNDLIFGENFDGDN
                     LDTLTPLTKKRFDFLCKRIKELDPYATI"
                     /name="hypothetical protein"
     Typing          272..1320
                     /name="rep_cluster_870"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.81"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2721..3967)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.76"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttgtgtcag aattgcgcag ccgggggaat gggggcgagc ccccatacta gataaactag
       61 aaagtttcgt ggtaaatgct ttttgacttg ttatatgtag gttttttgaa tgatgtttgg
      121 cggtttggaa tgaattacct acttttgggc tgagaaaaaa cgaaagcccg aaggcagtaa
      181 ccaacgggct ttgtatttta agaattagca atcgtttgtg ttcgttcttg gcggggcgga
      241 taccaaacga aagccacatc aaaatttcat atgtgcaaag atagaacaaa tataaccaac
      301 tgcaaagaaa gtccgttaaa aaacggttct gatagtctta aaaaaaaggc taaagtaaaa
      361 atcatatccc ataattttac tcgaaaactt tcggaaaaga atccggatag taagctgatg
      421 aaagcatata tggatgccca tgtgtgttca aatgtttata ctgtgcaggg aggtaaggcg
      481 cattcccatt attgtcatcg ggctttttgt cctatctgtc agcgtattca aacggcacaa
      541 aatgtaaaga agttccttcc ggttatgaag tatttggctt cggaaggcag agagttttat
      601 tttgtgacgc ttaccttgca aaattgtgta accgatgatg caagggtatt gcgagatttc
      661 atgcgtagat gtaaccggat gtgggctgat ggtataagga cgaaacacaa gtttcgttca
      721 cttggtattt cgggggtgat taagaaggag tgtacctatc atgtagtaaa aaaggatttg
      781 ttttcgttcc attatcattt tcatattatt gttgattcat tggaagctgc aaaatatgta
      841 gtagcccaat ggaagaaatt gcatggtagt acggttgctg atgcccgttt tcagaaatat
      901 aagaagatag aggattttga aaatgcagcg atagaggttt ttaagtatgc ttcaaaggct
      961 tctgtctcaa aatcgaaagg tcgtgacggt aaaaaaaaga ttcagataaa ttataaggct
     1021 ttggatatga tttatactgc catgcatggg atgcagcgca tgagtagttt cggacagttc
     1081 cgcaccatga tcggagatga agcgttgaat gattttagag atgaggattt ggttcttaat
     1141 attgagggat tgaatgttga agatggttgt tatacttggt atatgtctgt gaaagataag
     1201 gtggctgatt ggtataatat ggaaactggg gaggcattgt gttgttataa ggtcacccgg
     1261 aaggatgaac ttttgcagga tatttattta gatgaggata tttttcctaa tagtgggtag
     1321 ttgttagttt gttgtattgt tttcttggta tggtgtgagt tctatgtatt ctctattcat
     1381 gaaaggatcg ccaaattttc cacttctgtc atagaaggaa aatttgtttt tagtaagctc
     1441 gtctatgtcc cagtaatgtt ctccaccaaa ataaatggta ctgaaacttg gatcaccgaa
     1501 tgaccattgt ccgtagatat tggcttcttt tttatttcct tgtttgtcga tttctatatt
     1561 tgtacgggta tatgttccgt ttttattgaa tttgtatgta ccttgccaga cactgccgtt
     1621 ttcgtctgtt gtttttttac cagcccatgt aatatcacaa attaatgaga ttatgctttc
     1681 ttctccatgg ttgtagtatc cttgtttttc aacacatccg gtgtttgaaa taagaaaaag
     1741 tgatactgtt gaaataagta aagagatatg tattattcta ttcatagtta aatatttaat
     1801 attcaatgca aaaataggag aaattttata tttttgggcg aaacctttat ttattaactt
     1861 taaaaaagga ggatttatga aaaaagtaat gtttatgttc atcagtctac tgactgtttt
     1921 gggtgtttgt tcgtgtaatg ataatgaagt aatagaacct gtggttagtg attctgtatc
     1981 tgatatggag gtcttatctc gttttgttga tgtaaatgag attacaaatg aatactattt
     2041 caatgagaat aagaaaacga gggcgttgtc ttatgtaaca ggttcggatt ggcaggattt
     2101 agaaaaagtt agtcctttga gtattgagaa atataagaat aacctgcagg ttttaaatgc
     2161 tcaagtggca agtgctattt caaatcctaa taccgcttat gttgtttttt ctgtaaatgg
     2221 aaagactttg gttaaaaagg tgaaggagga tgctaatttt gatttttcag tatttaggga
     2281 tgttgtaacg gaaacgaggg ctgttctccc ttctttgagt attaatggag gttctcaaag
     2341 cactaccgga gttttttacg attccagtcg tactttaaag atgcaagttg atttgaatgc
     2401 ttcaatacag aataattatt atttctttga agtattaaat cctaatgcta aaccaagtcc
     2461 ggatgataat ataacgacac ctgaaagtgt tgcttttagt ggaactggac cgttatggag
     2521 taacactttc acttggactt cgtattggga tgcaaatgta cctggtcaag gttttaaatg
     2581 ggagtttaaa ggaaaaggta ctactccttc ttttggtttt atagctaatt gcacctttag
     2641 tcgttaaaaa atgaacggga tttaatttga attgcacttc tcaaaaaaga gaagtgcaat
     2701 tctttttagt gtctttctat cggtgtagcc agttaccgtt atctaaagtc ttttgtagtg
     2761 tattccaaag ttctttaaga aagtttttaa agtggatgtt atttagccaa attgtagtaa
     2821 taccattctg acttttggag atatctattt tcacgttttt aacttggtat gattttctct
     2881 tgtctttatc gtaaaggttt ccagtgtagt atatttcctt tccaataaga agttgtcgga
     2941 tatctttatt ttgtattccc atagtttgga gttcctctat attttcctgt gcattttcca
     3001 tttccggaaa aaggttagtt atgggtttta gtttggatgc ttctgccttt atctgtctgt
     3061 cggttgtttc ctgtaccctt cgcatctcga tgttgttggt tcttaattgt ccttctaaat
     3121 tttgattctt gaatgagagg ttataatttt cttttttgag ggtttcaatt tctttggctt
     3181 gtcgttttac ttcccctaca ttaaagacgc ttgtaacggc attaaatacg gtttttccgg
     3241 cttttgcggc agcttctttg gcttcgttga tgtgtatgtc ggttttcatg ctgtttagct
     3301 ctttttgtgc cgtactaagt ttcttttgga ctgtggtgat tttctcggtt ccggcagtgt
     3361 atgccctgtt tagttgctcg atgtcttttt gaagttgttc agctttctct gtttccattt
     3421 tgtttttgta ttgcatggcc gacaagtgtt tcttgtctga agaaactcca cgttccatgt
     3481 tgagacactc tgctgttata gtctgcatct ccgccatgtc gtgtctgttc agctttacag
     3541 tttttcctgt atggccgtcc gtccagtcaa agatcatgtg cgcatgatag ttcggtttcc
     3601 atgcttcttc ctttccgtcc catacgtttg cgccttcatc cttatgggtg tagatttgga
     3661 aggcgtgcac tccaaagcgt tcttccagtt tttcggccaa gtcttgaagc tgctggattg
     3721 tggtttcctc gctgattact attacccctt cccggattgg ggtagctttc ttctgtaatc
     3781 cttgtccggt ggcttccttg tatttttccg ttatgtcccg gtgtacttcg gcaatggaac
     3841 attctaccca ctgttcgttg cggtgtgtga gttccggacg gatgtagtcg agctccttgc
     3901 ttcttaagtt gtgacgttcc gagctgccta tattgcaggc ttccactctg atacatgtct
     3961 ttgccatatc tttaggtttt aggtgtgtat gtatgtttag aagatgtggc gtgaaacgtc
     4021 acatcgcacg gggtcgaggg gacacccctc gcacacaacc cctttagggg ttatagtgtg
     4081 ctataacctt ttgcaaaggt aagccttccg gacgggattt gcaagcgctc tgccatgtgt
     4141 tccggatgtg cttgggaaca gaagccggac aaaagggaaa aggacacaag gcacaataaa
     4201 aaatcatcgg tcggggagcg ctgcacggca agggggtgca ccaacactcc cgacgagtgc
     4261 agccattgac agggttctcg gtgaaaatgg aaaaaagttg tttttccttt tgttattgtt
     4321 ataactttac atatatttgt atcgtgataa tcaattataa agttataaca ttatggtaac
     4381 gaatattatt cagattggaa acagcaaggg gataatactt ccttccgaag tattgaaaca
     4441 gttgcgtttg tccttgaaat cggctgtgag catttctttg gacgggaaca atattgtgat
     4501 aaaggcacaa ccacggcagg gatgggcgga agctgccaaa cgtgcccatg agaatgggga
     4561 tgatgagttg cttatccctg atgtgtttga ggatgaaaag tttgaggatt ggacatggta
     4621 gaacagtatg aagtgtattg ggtagagtta gaccctaccc gtgggggtga aatggcaaag
     4681 acacggccat gtgtagttgt cactccttca gatttgaata tgtaccttac aacagtagtc
     4741 attgttccga taacctcaac gataagaaat tatccttacc gggttctgtg ttctgtagcc
     4801 gggcgtgaag gagagatagc cactgatcaa attcgcacgg tggataaaag ccggctgaaa
     4861 agaaagattg gagatttgaa tttcagtgag ataaaaaggt tacgtgaagt gtttcagcaa
     4921 atgttctgtg aataatggaa agtacggaaa gaaaaatgca aataagacat tatgaaacca
     4981 actgactaca tcgaatggga taacctgaag gatattccat tcttcctctg tcaagtagtc
     5041 gaggacagag aaaaacaaga tttggatatt tactatttgg gcaaacgtgt cttgcacgat
     5101 tacgaccatg tggggcacta tttgcggact gccgttatct tgttccgcag ggtaaagagc
     5161 cgcacagcag actgggtaaa cctgcgtaac ctttggacgc tgcgcaactg tgtgcgtgag
     5221 aactacaatc acggcatagg aatgaacgac cttatttttg gggagaattt cgatggagat
     5281 aatctcgata cgcttacacc acttacaaag aaacgctttg attttttgtg taagcggatt
     5341 aaggaacttg acccatatgc aactatttaa cactccattg agtgaaggca gggcttgtct
     5401 ttgtgtgctc cccctttggg ggacgggagg gggataagaa aaaaaatacc accggagatg
     5461 tcggatatcc gtcaattcac tccggtgttt tttttgcaac tctcccgtat cgctcggcaa
     5521 gggttgtctt tgtgtacggc aaagatagtt tttttttccg gaagtatctt tgtctgttgt
     5581 ggatttagta gtgta
//
