LOCUS       NZ_CP012938             6315 bp    DNA     linear   CON 08-JAN-2025
DEFINITION  Bacteroides ovatus strain ATCC 8483 chromosome, complete genome.
ACCESSION   NZ_CP012938 REGION: 781108..787422
VERSION     NZ_CP012938.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03852683
            Assembly: GCF_001314995.1
KEYWORDS    RefSeq.
SOURCE      Bacteroides ovatus
  ORGANISM  Bacteroides ovatus
            Bacteria; Pseudomonadati; Bacteroidota; Bacteroidia; Bacteroidales;
            Bacteroidaceae; Bacteroides.
REFERENCE   1  (bases 1 to 6315)
  AUTHORS   Wu,M., McNulty,N.P., Rodionov,D.A., Khoroshkin,M.S., Griffin,N.W.,
            Cheng,J., Latreille,P., Kerstetter,R.A., Terrapon,N., Henrissat,B.,
            Osterman,A.L. and Gordon,J.I.
  TITLE     Genetic determinants of in vivo fitness and diet responsiveness in
            multiple human gut Bacteroides
  JOURNAL   Science 350 (6256), aac5992 (2015)
   PUBMED   26430127
REFERENCE   2  (bases 1 to 6315)
  AUTHORS   Wu,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-OCT-2015) Center for Genome Sciences and Systems
            Biology, Washington University School of Medicine, 4444 Forest Park
            Ave., Saint Louis, MO 63108, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            CP012938.1.
            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/
            
            ##Genome-Assembly-Data-START##
            Assembly Method       :: HGAP 2.0 and Celera v. AUG-2014
            Genome Coverage       :: 350X
            Sequencing Technology :: PacBio; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001314995.1-RS_2025_01_08
            Annotation Date                   :: 01/08/2025 18:05:31
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.9
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,927
            CDSs (total)                      :: 4,834
            Genes (coding)                    :: 4,763
            CDSs (with protein)               :: 4,763
            Genes (RNA)                       :: 93
            rRNAs                             :: 5, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 5, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 76
            ncRNAs                            :: 2
            Pseudo Genes (total)              :: 71
            CDSs (without protein)            :: 71
            Pseudo Genes (ambiguous residues) :: 0 of 71
            Pseudo Genes (frameshifted)       :: 14 of 71
            Pseudo Genes (incomplete)         :: 53 of 71
            Pseudo Genes (internal stop)      :: 11 of 71
            Pseudo Genes (multiple problems)  :: 7 of 71
            ##Genome-Annotation-Data-END##
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..6315
                     /organism="Bacteroides ovatus"
                     /mol_type="genomic DNA"
                     /strain="ATCC 8483"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /culture_collection="ATCC:8483"
                     /type_material="type strain of Bacteroides ovatus"
                     /db_xref="taxon:28116"
                     /geo_loc_name="USA:Woods Hole"
                     /collection_date="2009-10-11"
     gene            1..2097
                     /locus_tag="Bovatus_RS03110"
                     /old_locus_tag="Bovatus_00638"
                     /db_xref="GeneID:29453872"
     CDS             1..2097
                     /locus_tag="Bovatus_RS03110"
                     /old_locus_tag="Bovatus_00638"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004310315.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="glycoside hydrolase family 127 protein"
                     /protein_id="WP_004296073.1"
                     /db_xref="GeneID:29453872"
                     /translation="MKQIKLLLLLASASVTGALAQSNGLTDMSQSRFAKMANTGISAV
                     HWTDGFWGDRFQVFSRTSLQSMWNTWNTPEISHGFRNFEIAAGVCKGEHWGPPFHDGD
                     MYKWMEGVASVYAVNKDPELDKLMDNFIACVVKAQRADGYIHTPVVIEELNKGIDSHA
                     LGDQYKQTVIGTKVGDENEKGAFANRLNFETYNLGHLMMAGIVHRRATGKTTLFDAAV
                     KTTDFLCHFYETASAELARNAICPSHYMGVVEMYRATGNPRYLELSKNLIDIRGMVEN
                     GTDDNQDRIPFRDQYRAMGHAVRANYLYAGVADVYAEIGEQQLMKNLTSIWNDIVTRK
                     MYVTGACGALYDGTSPDGTCYEPDSIQKVHQSYGRPYQLPNSTAHNETCANIGNMLFN
                     WRMLEVTGDAKYADLVETCLYNSVLSGISLDGKKYFYTNPLRISADLPYTLRWPKERT
                     EYISCFCCPPNTLRTLCQAQNYAYTLSPEGIYCNLYGANTLTTTWKDKGELALTQETD
                     YPWEGKVRVTLDRVPRKAGAFSLFLRIPEWCEKATLAVNGQPLQTNAKANSYAEVNRT
                     WKKGDVVELVMDMPVRLLEAHPLAEEIRNQVVVKRGPLVYCLESMDIANGEKIDNVLI
                     PADIKLTPKKITIEGSPIVALEGMARLASATSWEGVLYRPVVQAEKTVNIRLIPYYAW
                     GNRGKGEMTVWMPLAR"
     gene            2133..3989
                     /locus_tag="Bovatus_RS03115"
                     /old_locus_tag="Bovatus_00639"
                     /db_xref="GeneID:29453871"
     CDS             2133..3989
                     /locus_tag="Bovatus_RS03115"
                     /old_locus_tag="Bovatus_00639"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004306181.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="right-handed parallel beta-helix
                     repeat-containing protein"
                     /protein_id="WP_052587808.1"
                     /db_xref="GeneID:29453871"
                     /translation="MKKLFVTAICILCSHWLLAGEIWISPKGSDFNDGTRQSPKATLT
                     SALRQAREWRRTEDNRIQGGITIYMEGGTYAFHEPVFIRPEDSGTKESPTVIRSVGDE
                     KVILSGGISINGWKKQGKVWVADVPAFNGRPLDFRQLWVNGKKAVRARDVEDFEKMNR
                     ICSVDEKNEILYVPAVSIRRLIDNKGNLKAKYAEMVLHQMWCVANLRIRSVEVQGDSA
                     AIRFHQPESRIQFEHPWPRPMVTTNGHNSAFYLTNARELQDVPGEWYHDIDARKVYYY
                     PREGEKMQEAEVIVPAVETLVRVEGTLDRPVCHIRFEKITFSYTTWMRPSEKGHVPLQ
                     AGMYLTDGYRIDPKMQRNYLNHPLDNQGWLGRPAAAVRVVAARQIDFERCRFEHLGST
                     GLDYEEAVQGGVVRGCLFRDIAGNGLLVGSFSPAAHETHLPYDPADRREVCTQQQINN
                     CYFTEIGNEDWGCLAIAAGYVGDVNIEHNEISEVPYSGISLGWGWTQTVNCMRNNRVH
                     ANLIHHYAKHMYDVAGIYTLGSQPKSYVTENCVHSIYKPGYVHDPNHWFYLYTDEGSS
                     FITVRDNWTEGEKYLQNANGPGNVWENNGPKVDNVIRERAGVEAAYKDLLNY"
     gene            4111..6315
                     /locus_tag="Bovatus_RS03120"
                     /old_locus_tag="Bovatus_00640"
                     /db_xref="GeneID:29453870"
     CDS             4111..6315
                     /locus_tag="Bovatus_RS03120"
                     /old_locus_tag="Bovatus_00640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004325987.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="alpha-L-rhamnosidase C-terminal
                     domain-containing protein"
                     /protein_id="WP_004296071.1"
                     /db_xref="GeneID:29453870"
                     /translation="MKKKYMILLSALSLASSTFAQTWIWYPGDYEIWLGNQMNNRRTE
                     RGAFFPPFWKTDSHYVVVEFSKQLNLSEPEEIFIAAEGKYNVKLDGKLQFGMPETMLL
                     PAGKHNLNIKVWNQATPPTIYVKGKTVNSDSSWRVTYEDKEWIDESGKASDTSATIYM
                     DAGCWNFDGATQRPSQFSLMREPQQPVTKSEQSEGGILYDFGKETFGFITLKNLSGKG
                     KIEIYYGESPEEAKDKAYCETLDKLLLEPGQVTDLAIRSTSPLSNSENEYTLENSKAF
                     RYVYVTHEPGVQIGEVSMQYEYLPEEYRGSFRCNDEELNRIWEVGAYTMHLTTREFFI
                     DGIKRDRWVWSGDAIQSYLMNYYLFFDNESVKRTIWLLRGKDPVTSHSNTIMDYTFYW
                     FLSVYDYYMYSGDRHFVNQLYPRMQTMMDYVLGRTNKNGMVEGMTGDWVFVDWADGYL
                     DKKGELSFEQVLFCRSLETMALCAELVGDTNSKQKYEKLAVALKAKLEPTFWNNQKQA
                     FVHNCVNGQQSDAVTRYANMFSVFFQYLNADKQQAIKNSVLLNDSILKITTPYMRFYE
                     LEALCALGEQDAVMKEMKAYWGGMLKEGATSFWEKYNPEEIGTQHLAMYGRPYGKSLC
                     HAWGASPIYLLGKYYLGVKPVKEGYKEFAITPVLGGLKWMEGTVPTPNGNIHVYMNSK
                     TMKVKATEGKGYLTIKSRRPPKANIGTPEKVSEGVWRLWIDSPEERIVTYHL"
ORIGIN      
        1 atgaaacaga taaaactgtt acttctttta gcttccgcct ccgttacggg agcacttgcg
       61 caaagcaatg gattgacgga tatgagtcag agccgttttg cgaagatggc gaataccgga
      121 atcagtgccg tacattggac agatggattc tggggagatc gctttcaggt atttagccgg
      181 acttccctgc aaagtatgtg gaacacttgg aacacgccgg agatctctca cggtttccgt
      241 aattttgaga ttgctgccgg tgtgtgcaag ggtgaacatt ggggacctcc gttccatgac
      301 ggagatatgt ataagtggat ggaaggagtg gcttctgtct atgctgtcaa caaagatccg
      361 gaactggata agttaatgga taactttatt gcttgtgtcg taaaagccca acgtgcagat
      421 ggttatatac atacacctgt tgttatcgaa gaactgaata aagggattga ctcccatgca
      481 ttaggggatc agtataaaca aacggtcatt ggaacgaaag taggtgatga gaatgaaaaa
      541 ggagcttttg ccaatcggtt gaactttgag acatataacc tgggacacct gatgatggcg
      601 ggtattgtgc atcgtcgtgc caccggaaag actactcttt ttgatgctgc cgtaaaaaca
      661 acggattttc tttgccactt ttacgaaacg gcttctgccg aactggctcg taatgccatt
      721 tgcccttcac attatatggg agtggtcgaa atgtatcgtg ccacaggaaa tccccgttat
      781 ctggaacttt cgaagaacct gattgatatt cgcggtatgg tggaaaacgg aacggatgat
      841 aatcaggatc gtattccttt ccgcgaccag tatcgtgcaa tggggcatgc cgtacgtgca
      901 aattatctgt atgcaggagt agcagatgta tatgcagaaa tcggtgagca gcaattaatg
      961 aagaatctga ctagtatctg gaatgatatc gtaacccgga aaatgtacgt gaccggagct
     1021 tgcggtgctc tttatgatgg tacatcgccc gatggaacgt gttatgagcc ggatagtatt
     1081 cagaaagtgc atcagagtta tggacgtcct tatcagttgc cgaatagcac tgcgcataat
     1141 gaaacgtgtg ccaatatcgg aaatatgctt ttcaactggc gtatgctgga agtgacaggg
     1201 gatgcgaaat atgctgatct tgtagagact tgtctttata atagtgtatt gagcggtatc
     1261 agtctggatg gaaagaaata tttctatacc aatccgcttc gtatcagtgc cgatcttcct
     1321 tacacgcttc gttggccgaa ggaacggacg gaatatatca gttgtttctg ctgcccgccg
     1381 aatacattgc gtacattgtg tcaggcacag aattacgcct acacattgag tccggaaggc
     1441 atttactgta acttgtatgg tgcaaacacg ctgactacga cttggaaaga caaaggagag
     1501 ctggcattaa cacaagagac ggattatccc tgggaaggaa aggtacgtgt aacgttggat
     1561 agagttcctc gtaaggcagg tgctttctcg ctcttcttac gtattcctga atggtgcgaa
     1621 aaggctacgc tcgcagtgaa tggacagccg ctgcaaacca atgcaaaggc aaattcgtat
     1681 gcggaagtaa atcgtacatg gaagaagggg gatgtagtgg agctggtgat ggatatgcct
     1741 gtccgtttgc tcgaagctca tccgttagca gaggagattc gtaatcaggt ggtcgtgaag
     1801 cgcgggccgt tggtttactg tctggaaagt atggatattg caaacgggga aaagattgat
     1861 aatgtattga ttcccgctga tataaaacta actccgaaaa aaatcacaat tgaaggcagt
     1921 ccgattgttg cacttgaagg aatggcacgt ctggcatctg caacttcgtg ggaaggagtg
     1981 ctttaccggc cggttgttca ggctgaaaag acagtaaata tccgcttgat tccttattat
     2041 gcctggggaa acagaggaaa gggagaaatg actgtatgga tgcctcttgc cagatagtcc
     2101 ggattgttta gtatacagaa atgaaaaaaa acatgaaaaa gttatttgta acggctatat
     2161 gtatcttgtg cagtcactgg ctattggctg gtgagatatg gatttctccc aagggcagtg
     2221 acttcaacga cggaactcgt caatctccta aagccacgct gacttctgcc ttgcgacaag
     2281 cacgagaatg gcgcaggaca gaggataacc gtattcaagg tggaatcaca atctatatgg
     2341 aaggtggaac gtatgccttc catgaaccgg tttttatccg tccggaagat agcggaacca
     2401 aggaatcgcc cacagtcatt cgttcggtag gcgatgaaaa ggtgatattg agtgggggaa
     2461 tcagcataaa tggctggaag aagcaaggga aagtttgggt agcagatgtc ccggcattta
     2521 atggacgtcc attggatttc cgccagttgt gggtgaatgg aaaaaaggca gttcgtgccc
     2581 gtgatgtgga agatttcgaa aagatgaatc gcatttgcag tgtggatgag aagaatgaaa
     2641 ttctttatgt acctgcagtt tccattcgca gacttattga taataaaggg aatttgaaag
     2701 ctaaatatgc cgagatggta ttacatcaga tgtggtgtgt tgccaatctt cggattcgtt
     2761 cagttgaagt gcagggagat agtgcggcaa tacgttttca tcaaccggaa agccggattc
     2821 agtttgagca tccctggccg cgtccgatgg tgacgacgaa cggacataat tctgctttct
     2881 atctgacaaa tgctcgtgaa ttacaggatg tacctggaga atggtatcat gatatagatg
     2941 cccgtaaagt atattattat ccacgggaag gagagaagat gcaggaggcg gaagtgatcg
     3001 tgcctgctgt tgagacatta gtacgggtgg aaggaacttt ggatcgccct gtgtgtcata
     3061 ttcgttttga gaaaattact ttttcctata ctacgtggat gcgtccgtca gaaaaaggac
     3121 atgtacctct tcaggcaggt atgtatctga cagatggtta ccggattgat ccgaaaatgc
     3181 aacggaacta cttgaatcat ccgttggata accaaggatg gttgggacgt cccgcagctg
     3241 ctgttcgtgt ggttgctgca aggcagattg atttcgagcg gtgccgattc gaacatttag
     3301 gctcaaccgg attggattat gaagaagcgg tgcaaggcgg tgttgttcgt ggctgtctct
     3361 tccgcgatat tgccggaaat ggtctgttag tcggcagttt ttctccggct gctcatgaga
     3421 cgcatttgcc atacgatcct gctgatcgtc gggaagtatg cacacagcaa caaatcaata
     3481 attgctattt cacggaaata ggcaatgaag attggggatg ccttgccatt gctgcgggat
     3541 atgtagggga cgtcaatatc gagcataatg aaatcagcga agtgccttat agtggcatta
     3601 gtcttggttg gggatggacg caaactgtga attgtatgcg taataacaga gtacatgcca
     3661 atctgattca tcattatgcg aaacacatgt atgatgtggc aggtatttac acactcggtt
     3721 cgcagccgaa aagttatgta acggagaatt gcgtgcatag tatttataaa ccggggtatg
     3781 tacacgatcc taatcactgg ttctatcttt atacggatga aggttcttcc tttattactg
     3841 tacgtgataa ttggacagaa ggagagaagt atctgcaaaa tgccaatggc ccgggaaatg
     3901 tatgggagaa caatggcccg aaggtggata atgttattcg tgaacgtgcg ggagtggaag
     3961 cagcgtataa ggatctgctg aattattaat agcagccgat aaataatctt attgtaagat
     4021 atgcttcgtt ccaccatggt ggaactaaac gtcaaccact gtggaacgaa ttatttctta
     4081 tgattcagtt tgttagtaat agaaagaaaa atgaaaaaga aatatatgat attgcttagt
     4141 gccttgtctt tggcaagcag cacatttgcc cagacttgga tatggtatcc gggagactac
     4201 gaaatctggt tgggaaatca aatgaataac cgtcgtacgg aacgaggtgc atttttccct
     4261 cctttttgga aaacggacag tcattatgtt gtcgtagaat tcagcaagca actgaatctt
     4321 tccgagccgg aagaaatctt tattgctgcc gaaggaaagt acaacgtcaa actggatgga
     4381 aagctccagt tcggtatgcc ggaaaccatg ttgcttccgg ccggaaaaca taatctgaac
     4441 atcaaagtct ggaatcaggc aactcctccc actatttatg tgaagggaaa aacggtgaat
     4501 tcagactctt cctggcgtgt gacttacgaa gataaagaat ggattgacga gagcggaaaa
     4561 gccagtgaca catctgccac tatctatatg gatgccggat gctggaactt tgacggagct
     4621 acccaacgtc cttcacaatt cagtctgatg cgtgaaccgc agcaacctgt tacgaagtca
     4681 gaacagtctg aaggaggtat tctttatgat tttggaaaag aaacattcgg attcatcaca
     4741 ttgaagaatc tttccggaaa aggaaaaata gaaatttatt atggtgaaag cccggaagaa
     4801 gcaaaagata aagcatattg cgaaacattg gacaaactct tgctcgaacc gggacaagtg
     4861 accgaccttg ctatccgcag cacttctccc ttgagtaatt ctgaaaacga atatacattg
     4921 gagaacagta aagcctttcg ctatgtctat gtaactcacg agccgggtgt acagattgga
     4981 gaagtctcca tgcaatatga atatcttcct gaagaatacc gcggaagttt ccgttgtaat
     5041 gatgaagaat tgaatcgtat ttgggaagtt ggcgcataca ccatgcatct cactacccgc
     5101 gaattcttca ttgacggtat caaacgtgac cgttgggtat ggagtggcga tgccatccaa
     5161 agttatttga tgaattatta tcttttcttt gataacgagt ctgtcaaacg tacaatttgg
     5221 ttacttcgtg gcaaggatcc tgtaaccagc cacagtaata caatcatgga ctatactttc
     5281 tactggtttc ttagtgtata tgactattat atgtatagtg gcgaccgcca ttttgtcaac
     5341 caactatatc cacgtatgca aacaatgatg gattatgtgt tgggacgtac caataagaat
     5401 ggcatggtag aaggaatgac gggcgactgg gtatttgtgg actgggcaga cggctatctg
     5461 gataagaaag gcgaactctc ttttgagcaa gttttatttt gcagaagtct ggaaacgatg
     5521 gctttgtgtg cagaattggt tggagacact aatagcaaac aaaaatacga aaaattagct
     5581 gtcgctttga aagcaaaact agaacccacc ttttggaata accagaaaca ggcatttgta
     5641 cataactgtg tcaacggtca gcaaagtgat gcagtcaccc gctatgcaaa tatgttttct
     5701 gtattctttc aatatttgaa cgcagataag cagcaagcca tcaagaactc tgttcttctg
     5761 aatgacagta ttctgaaaat aacaactccc tatatgcgtt tttacgaact ggaagcactt
     5821 tgtgctcttg gcgaacagga tgctgtaatg aaagaaatga aagcctattg gggaggaatg
     5881 ttgaaggaag gtgctacctc cttctgggaa aaatataacc cggaagaaat cggaacgcaa
     5941 catcttgcca tgtatggccg tccttatggc aagagtttgt gccatgcctg gggagcgagt
     6001 cctatctacc tgttgggcaa atattatctg ggagtgaaac ctgtaaaaga aggatataaa
     6061 gagtttgcta ttactcctgt gttgggagga ttgaaatgga tggaaggcac tgtccccact
     6121 ccaaatggca atatccatgt ctatatgaac agcaaaacga tgaaagtgaa agcaacagaa
     6181 gggaaaggct atctaaccat caaaagccgt cgtccaccta aagcaaatat cggaacaccg
     6241 gaaaaagtgt cggaaggagt atggcggctc tggattgatt cacccgaaga aagaattgtt
     6301 acctatcatt tataa
//
