LOCUS NC_015166 6277 bp DNA circular BCT 01-MAR-2011 DEFINITION Bacteroides salanitronis DSM 18170 plasmid pBACSA03, complete sequence. ACCESSION NC_015166 VERSION NC_015166.1 GI:324959701 DBLINK Project: 63269 KEYWORDS . SOURCE Bacteroides salanitronis DSM 18170 ORGANISM Bacteroides salanitronis DSM 18170 Bacteria; Bacteroidetes; Bacteroidia; Bacteroidales; Bacteroidaceae; Bacteroides. REFERENCE 1 (bases 1 to 6277) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Mikhailova,N., Teshima,H., Misra,M., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Gronow,S., Wellnitz,S., Brambilla,E., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE The complete sequence of plasmid3 of Bacteroides salanitronis DSM 18170 JOURNAL Unpublished REFERENCE 2 (bases 1 to 6277) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (28-FEB-2011) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 6277) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Mikhailova,N., Teshima,H., Misra,M., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Gronow,S., Wellnitz,S., Brambilla,E., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE Direct Submission JOURNAL Submitted (17-FEB-2011) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence is identical to CP002533. URL -- http://www.jgi.doe.gov JGI Project ID: 4087335 Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de) Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu) David Bruce (microbe@cuba.jgi-psf.org) Whole genome sequencing and draft assembly at JGI-PGF Finishing done by JGI-LANL Annotation by JGI-ORNL and JGI-PGF The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376). ##MIGS-Data-START## investigation_type :: bacteria_archaea project_name :: Bacteroides salanitronis BL78, DSM 18170 collection_date :: isolated by P. T. N. Lan lat_lon :: Missing depth :: Missing alt_elev :: Missing country :: Japan environment :: Host num_replicons :: 4 ref_biomaterial :: DSM 18170, CCUG 54637, JCM 13657 biotic_relationship :: Free living trophic_level :: Missing rel_to_oxygen :: Anaerobe isol_growth_condt :: 17158987 sequencing_meth :: WGS assembly :: Newbler v. 2.3 (pre-release) finishing_strategy :: Finished GOLD Stamp ID :: Gi04003 Type Strain :: Yes Funding Program :: DOE-GEBA 2009 Gene Calling Method :: Prodigal 1.4, GenePRIMP Isolation Site :: caecum of chicken Host Name :: caecum of healthy chicken Cell Shape :: Rod-shaped Motility :: Nonmotile Sporulation :: Nonsporulating Temperature Range :: Mesophile Temperature Optimum :: 37CC Gram Staining :: Gram- Diseases :: None ##MIGS-Data-END## ##Genome-Assembly-Data-START## Finishing Goal :: Finished Current Finishing Status :: Finished Assembly Method :: Newbler v. 2.3 Genome Coverage :: 30x Sequencing Technology :: 454/Illumina ##Genome-Assembly-Data-END## COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..6277 /organism="Bacteroides salanitronis DSM 18170" /mol_type="genomic DNA" /strain="DSM 18170" /isolation_source="cecum" /host="chicken" /culture_collection="DSMZ:DSM 18170" /db_xref="taxon:667015" /plasmid="pBACSA03" /country="Japan" /collected_by="P.T.N. Lan" gene complement(108..1007) /locus_tag="Bacsa_3730" /db_xref="GeneID:10228987" CDS complement(108..1007) /locus_tag="Bacsa_3730" /note="KEGG: bfr:BF0643 clindamycin resistance transfer factor BtgB; SPTR: MobB" /codon_start=1 /transl_table=11 /product="clindamycin resistance transfer factor BtgB" /protein_id="YP_004260699.1" /db_xref="GI:324959702" /db_xref="GeneID:10228987" /translation="MNIKIQGGGSGTYANTGSCTEVTTYLQHEDLERMKNGREVQPFF NNSRDYISAQEVTFKIDNNKAKLSRNDAKFYVITVSPSSRELEKMGKTEKEQAEAMRR YVRDDVMQHYAEGFGKGLNKEDIEYYGKIHFERKGADRYDMHAHIIVSRKDRSNTRKL SPKTNHTGKKNCGNVKGGFDRTDFFRKCETSFDKRTGYDRAPEQTFDYLNTMKNGTPK EIFQKKEWAERVNHERLEKMKAEWSRDLQEQHQEQGREEIQQQGNNISQVPEINQASQ RKKQQEEELNQPRKRSRGFGMGM" gene complement(1004..1606) /locus_tag="Bacsa_3731" /db_xref="GeneID:10228980" CDS complement(1004..1606) /locus_tag="Bacsa_3731" /note="KEGG: bfr:BF0644 clindamycin resistance transfer factor BtgA; SPTR: MobA" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004260700.1" /db_xref="GI:324959703" /db_xref="GeneID:10228980" /translation="MEKDSKTTVAVERTTFAKLDRLAKANSVSKMEYITHAINYFEKY GINPVEHESPAQEMQRLIKRMDQVFAFLKKQETDLVRPACEALAGASTQITISLSSLL SEEKFRRFLKDNKELLAGIINSSDNNGRAIGRAEKAVRDADSTIRKNQDIIFKRIEAS ETAQLKAMQHIVSFLDAKGKTGLLDDINKVYKKEKERRGL" gene complement(2097..2318) /locus_tag="Bacsa_3732" /db_xref="GeneID:10228981" CDS complement(2097..2318) /locus_tag="Bacsa_3732" /note="InterPro IPR009614; KEGG: cli:Clim_0726 addiction module toxin, Txe/YoeB family; PFAM: Addiction module toxin, Txe/YoeB; SPTR: Predicted protein; TIGRFAM: Addiction module toxin, Txe/YoeB; PFAM: Plasmid encoded toxin Txe; TIGRFAM: toxin-antitoxin system, toxin component, Txe/YoeB family" /codon_start=1 /transl_table=11 /product="addiction module toxin, Txe/YoeB family" /protein_id="YP_004260701.1" /db_xref="GI:324959704" /db_xref="GeneID:10228981" /translation="MRKSSPQLFRKLEKLLDELREHPYTGTGHPEQLRYLEGVWSRQL DKKNRIRYMVNETTVIVFIISAWGHYDDK" misc_feature complement(2109..>2252) /locus_tag="Bacsa_3732" /note="Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422" /db_xref="CDD:196226" gene complement(2359..2625) /locus_tag="Bacsa_3733" /db_xref="GeneID:10228982" CDS complement(2359..2625) /locus_tag="Bacsa_3733" /note="KEGG: slp:Slip_0182 prevent-host-death family protein; SPTR: Predicted protein" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004260702.1" /db_xref="GI:324959705" /db_xref="GeneID:10228982" /translation="MQIVTTREFRANQKKYFEMAETETILVSRRNAAPIMVCAVREGD FPSKEELAAIQRGIEDIRNGNTFRMAKNESLDDFLNRIEGEGNV" gene 3078..4058 /locus_tag="Bacsa_3734" /db_xref="GeneID:10228983" CDS 3078..4058 /locus_tag="Bacsa_3734" /note="COGs: COG5527 Protein involved in initiation of plasmid replication; InterPro IPR000525; KEGG: aps:CFPG_P1-1 replication protein A; PFAM: Initiator Rep protein; SPTR: RepA protein; PFAM: Initiator Replication protein" /codon_start=1 /transl_table=11 /product="initiator RepB protein" /protein_id="YP_004260703.1" /db_xref="GI:324959706" /db_xref="GeneID:10228983" /translation="MAIVNKDLIQSYIMTTAKYDFNVYEKRIIYRLVEMAQGELQGIK FADNCQKIEHDLFSCVNITMPIACLLNGEDDKNYARVKEALQSLQRKIFEYEDDEIWQ SISIIALPYIRKRSSVLSFQVHPRVWDCILDFSKGFRKYELKAAMSFKSQFSMRFYEL LSNQKTPLIYSIEQLKEMFCVTDKYERINDFIRYVVDAAKKELDEISPYTFEYTPLKT GRKITAIKFYPVYQPEHRDSDLEKHDLQKQTALSWSLAPEIRSYLKNSIEFSDKEIKN NLDLFISAQTLLPDFLNELAILKGKSREKKNPKGYIINAIKGKIKDRKKL" misc_feature 3102..3761 /locus_tag="Bacsa_3734" /note="Initiator Replication protein; Region: Rep_3; cl03080" /db_xref="CDD:186548" gene 4088..4288 /locus_tag="Bacsa_3735" /db_xref="GeneID:10228984" CDS 4088..4288 /locus_tag="Bacsa_3735" /note="KEGG: hvo:HVO_A0463 ribonuclease H I; SPTR: Predicted protein" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004260704.1" /db_xref="GI:324959707" /db_xref="GeneID:10228984" /translation="MKEGDLILVSAEATGLGKPMEAIIDKIETFMGQTLVTVTYTQPD ALSGFGGCFVDSHITLSEKKAK" gene 4402..4944 /locus_tag="Bacsa_3736" /db_xref="GeneID:10228985" CDS 4402..4944 /locus_tag="Bacsa_3736" /note="KEGG: hmg:100200897 similar to predicted protein; SPTR: Predicted protein" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004260705.1" /db_xref="GI:324959708" /db_xref="GeneID:10228985" /translation="MTDKATIQPKSKPEKTTISISGETSERLEIYCRANGILRKEFVS LALEYFERTGFDLKSNALDYSPLEKIIGELNEVKATMQTSNEGTEAIRQLLQAVREQT AKQLPAPELIAQATEAKAKAESLATERAKDLQLLQEENNRLRNEIKVLQEYKEKAHRE LCRVRDEQKTFGKIKVNTEL" gene complement(5220..6206) /locus_tag="Bacsa_3737" /db_xref="GeneID:10228986" CDS complement(5220..6206) /locus_tag="Bacsa_3737" /note="KEGG: dal:Dalk_2441 hypothetical protein; SPTR: Putative uncharacterized protein" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004260706.1" /db_xref="GI:324959709" /db_xref="GeneID:10228986" /translation="MKKLFYSLMLCSFFVACSNEDDIVMQDDQSFSNEEVLTRSASMR RSLTPQEADMLKKAFPNLKTDNVTVTGEATYTYNCIAYSMGITSKWINPEELYNDFIN QYKNAKSLYGASSNYEQTSTQGSGADVDGWGLNTYKMTHGSVIYSGNTWESKLGPNIR ITHGRTELNGSEYGSILVSFVKQNSKISDLKEVAEEVSKEDIVLSDLEKNKVLERSKK VDSEIVSKFESLIAAWKNEINTNPKTMFSSSTLDYKQLPQFKSLQEMGSVIIPLIMEK LLDEENFFMLPLYDTLQLDSNLKIVYNKNDRKCLEGEQNRARRTVRMWVNSL" sig_peptide complement(6153..6206) /locus_tag="Bacsa_3737" /note="Signal predicted by SignalP 3.0 HMM" ORIGIN 1 ttaactattc cggtgggctt ttttcttctt caaggtagat ttcctgaaga agttcatctt 61 tactcgttac ctcataacga cacaaaaact atactctcag aataaaatca catacccatt 121 ccaaaacccc ggcttctttt cctgggctgg ttgagttctt cctcctgttg ttttttcctt 181 tgcgatgcct ggttgatttc cggaacctgg gaaatattgt ttccctgttg ttggatttct 241 tcccgacctt gttcctggtg ctgttcctga agatcccggc tccattcggc tttcatcttc 301 tcaagccgtt catggttcac acgttccgcc cactcctttt tctggaagat ttctttcgga 361 gttccgttct tcatggtatt gagatagtcg aaggtctgtt ccggtgcccg gtcataccct 421 gtgcgcttgt caaatgaggt ttcacacttt cggaaaaaat ctgttctgtc aaaaccgcct 481 ttcacgtttc cgcagttctt cttcccggtg tggttggtct ttgggcttag cttcctggtg 541 ttgctcctgt ccttccggct gacgatgata tgtgcgtgca tgtcgtaccg gtcggctccc 601 ttcctctcga aatggatctt tccgtaatac tcgatatcct ctttgttcag gccttttccg 661 aacccttccg catagtgctg catcacatca tcacggacat accttctcat ggcttcagcc 721 tgttccttct ctgtcttgcc cattttctcc agctcccggc tggaagggct taccgtgatc 781 acatagaact tcgcatcgtt ccggcttaat tttgccttgt tgttgtctat cttgaaggtt 841 acttcctgtg cgcttatgta gtcacgtgag ttattgaaaa acggctgcac ttcccggccg 901 ttcttcatgc gctccagatc ctcatgctgg agataggtcg ttacttctgt gcagctccct 961 gtattggcat aagttccgga accgccaccc tgaattttta tattcatagc cccctccttt 1021 ccttttcctt cttatagacc ttgtttatgt catcgagcag cccggtcttt ccttttgcat 1081 cgaggaagga aacgatatgt tgcatggcct tgagttgtgc cgtttcgctg gcttctatcc 1141 gcttgaagat aatatcctgg ttcttcctga tagttgaatc tgcatcccgc accgcttttt 1201 ctgccctgcc tatggccctg ccgttgttgt cggaactgtt gattatcccg gcaagcagtt 1261 ccttgttgtc cttcaggaac cgcctgaact tttcttccga aagtaaggat gaaaggctta 1321 tggttatctg tgtgctggct ccggccagag cttcacaagc cggacgcaca agatccgttt 1381 cctgtttctt caggaatgcg aacacctggt ccatgcgctt gataagtctc tgcatttcct 1441 gtgccggact ttcatgctcg accgggttta taccgtactt ctcaaagtag tttatggcat 1501 gagtaatata ctccattttt gacacactgt ttgccttggc cagacggtca agtttagcaa 1561 aagtagtacg ttctaccgct accgttgttt tactgtcttt ttccatataa ttataaggct 1621 tattataacg aattaatata ctaactagtt ggtttacaag atagtatatt tattcattat 1681 aaccaaatta tattggtata attttctaaa tagctgattt tcagctaaag accccgtatg 1741 gcaagaggaa aaaacagggc ttgcccggtt tcctcttgct gttctatcga acaccctccc 1801 cagcgcgaaa ttagcaaagg ggacggggag agatagaacc tatcccacac acgtaaacac 1861 ccacgaaaac cgcacgcccg gtacacaaca gaaataccca acaaaaccgc acaacagaac 1921 gtgtccggaa caccacaaaa aactcatcgg tcggggagcg ccgcacggca agggggtgta 1981 ccaacactcc cgacgagtgc agccgtttgc ttggatatat gatataagtt attttgattc 2041 tgtcacaaat tcaaaaggat tgcagtatgt gccgtttcgg aacttactgc aatccttcat 2101 ttgtcgtcat aatgccccca ggctgaaatg ataaacacaa ttacggtagt ctcgttgacc 2161 atatacctga tacggttctt cttgtccagc tgccttgacc agacaccctc caggtatctc 2221 aactgttccg gatgccctgt acccgtgtac gggtgttccc ggagttcatc aagcagcttc 2281 tccagcttcc tgaaaagctg cggagaggat ttcctcatca acaggacatg ttttaccgct 2341 tctttggaaa attctatctc atacattgcc ttcgccctct atacggttaa gaaaatcatc 2401 cagagactcg tttttagcca ttctgaaggt atttccgttc cggatatctt caatacctct 2461 ctggatggcc gcaagttctt cctttgaagg gaaatcacct tctctgactg cacacaccat 2521 aataggggct gcattgcgtc tggagaccag gatcgtttcc gtctctgcca tttcgaagta 2581 tttcttctga ttggcacgaa attcgcgtgt tgtaacaatc tgcatagttc taatatattg 2641 gttttcaccg caaaaatagg gataaaaatc aataaaacaa aagttttgtg tacttatttg 2701 tgtacacgcg cggaaaattc gttcctcaaa gaacgctgcg ctggcttttg ctttgctttc 2761 acaaacattc aaaaactcgt ttttcacgga tttggaggtc tggaagccac attcaggcta 2821 aaattttatg acttgttttt aagcattact tgttatatgc ttatcaactt ttaaaaaatg 2881 cactttaaca atctgacaaa cagaatatta caatcatcag cagcgatcta actacgagtt 2941 tttgaatact aactgcgagt ttttgaatac tatttcaaag tttaactacg agtttttgaa 3001 tactaatcac acaatctacg agttttattt gtaaaactcg tttttaatac ttatatttgc 3061 gcaaaacact gataattatg gcaatagtaa acaaagacct tatccaaagt tatattatga 3121 ctactgcaaa atatgacttt aatgtgtacg aaaagcgtat catttatcgt ctcgtagaaa 3181 tggctcaagg agagctgcaa ggtataaagt tcgctgataa ctgtcagaag atagagcatg 3241 atcttttcag ttgcgtaaat ataaccatgc ctatcgcctg cctgcttaat ggagaggacg 3301 acaagaatta tgcgagagta aaagaagccc tacagtcgct tcagcgaaag atctttgagt 3361 atgaagatga tgagatctgg caaagtatct ctatcatagc cttgccttat atacggaagc 3421 gttcttcagt attatccttt caggtacacc cacgtgtatg ggactgcata cttgatttct 3481 caaagggttt taggaaatac gaactgaaag cagccatgag ctttaagagc cagttttcaa 3541 tgcgctttta tgagttgttg agcaaccaga aaactcctct gatatactct atagaacagc 3601 taaaggaaat gttttgcgta acagacaaat acgagcgcat caacgatttt atacgttatg 3661 ttgtggatgc tgcaaaaaaa gagcttgatg aaatcagccc atataccttt gagtacacac 3721 cgctcaaaac agggcgaaag ataacggcca taaagtttta tccggtatat caaccggaac 3781 accgtgacag tgatttggaa aaacatgacc ttcaaaaaca gactgcttta agctggtcgt 3841 tagctccgga aataagaagt tatcttaaaa actcgattga gttttcagat aaagagatta 3901 aaaacaatct agatctgttt atatcagcac aaaccttact tccagacttc cttaatgaac 3961 tcgccattct aaaagggaaa tcaagggaaa agaagaaccc aaaaggttat ataatcaatg 4021 ctatcaaggg aaaaattaaa gacagaaaga aactttgatt ttgtcacaca atcaaaaaaa 4081 caaagacatg aaagaaggag atttgatatt ggtatcagct gaagctacag gcttaggaaa 4141 gccaatggaa gccattatag acaagattga gacattcatg ggacaaaccc ttgtaacagt 4201 cacttacacg caaccagacg ccttatccgg cttcggaggg tgctttgtgg attctcatat 4261 cactttaagc gaaaaaaagg ccaagtaacc tgaatatatt tcaggaatat tcggtatatt 4321 tacagcatat tcaattaaaa agaagcataa aaccagcata tcaagcatat tataagcata 4381 tttatatcaa tcggttaagg tatgacagat aaagcaacca tacaacccaa aagcaagccg 4441 gaaaagacta caatctcaat aagcggagaa acatctgaac ggctggagat atactgccgg 4501 gcaaacggca tattacggaa agagttcgtt tctctcgccc tggaatactt tgaacgcaca 4561 ggtttcgacc tgaagagtaa cgcacttgat tactccccct tggaaaagat catcggagaa 4621 ttgaatgaag taaaagcgac catgcagaca agcaatgagg gaacagaagc gattcgccaa 4681 ctactacagg cagtccggga acagaccgca aaacagcttc cagctccaga acttatagcc 4741 caagcaacag aagcaaaggc gaaggcagaa agtctggcta cagaacgtgc caaagacctt 4801 cagctccttc aggaagagaa caaccgattg cgtaacgaaa tcaaagttct tcaggagtat 4861 aaggaaaaag cacaccggga actttgccgg gtacgtgatg aacagaaaac attcgggaaa 4921 ataaaagtaa atacagaact gtagtttggg tatatgctta tatcatagga tgaacggcac 4981 atttcaaaac attcttccgg gaactatgga acaagttaca gagagcatta ggacttaata 5041 acggcagggg atttcattta tagcataggg aactgcgagt gagtattgta ataaaagcgg 5101 taaaacatga aaaaacagct ataatacttc aaataaaact catgccttaa tataaaaaag 5161 aggagagaac aataagtcct ctcctctttt ttatattaag gcatgaactg tattcagcac 5221 tacaaactat ttacccacat acgaacagtt cttcttgctc tattttgttc accttctaaa 5281 catttacgat cattcttatt ataaactatt tttagattac tatccaattg caatgtatca 5341 tacaaaggaa gcataaagaa gttttcttca tcaagcagtt tttccattat taatggtata 5401 atcacacttc ccatttcttg taaagatttg aattgaggta actgtttgta atccaaagta 5461 gatgaactaa acattgtttt gggatttgta ttaatttcat ttttccatgc agcaattaaa 5521 gactcgaatt tgctaacaat ttcgctatct acttttttac ttctttctaa tactttattc 5581 ttctctaagt cggataaaac aatatcttct ttagagacct cttctgctac ttcttttaaa 5641 tcagatattt tactgttctg ttttacaaaa gaaactaaaa tactaccata ttcagaacca 5701 tttaattcag ttcttccatg agtgatgcga atatttggtc ctaattttga ctcccatgta 5761 tttccactat aaataacact tccatgagtc attttataag tgttaagccc ccatccatca 5821 acatctgcac cacttccttg agtcgatgtt tgttcataat ttgaactcgc tccgtataaa 5881 gatttcgcat ttttatactg attaataaaa tcattataaa gctcttcagg attaatccac 5941 ttactcgtta tacccataga atacgctata caattatatg tatacgtagc ttcaccagta 6001 actgtaacat tatcggtctt taaattagga aatgcttttt tcaacatatc agcttcttgt 6061 ggagtcaagc ttctcctcat tgaagcagaa cgagttaata cctcttcatt cgaaaatgat 6121 tggtcatctt gcataacaat gtcatcttca ttagaacatg ctacaaagaa agaacataac 6181 atcaatgaat aaaataactt tttcataact ttcaattttc aattaacaac cataaaatta 6241 caagaaatta tgattcattg ttctcaaaat ctaatat //