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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300034076 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0142001 | Gp0401912 | Ga0373898 |
| Sample Name | Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A5A4.2 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 242215106 |
| Sequencing Scaffolds | 34 |
| Novel Protein Genes | 39 |
| Associated Families | 36 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 2 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium RIFCSPLOWO2_12_FULL_66_21 | 1 |
| Not Available | 11 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 6 |
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Uranium-Contaminated Sediments Microbial Communities After Treatment In Bioreactor, Oak Ridge, Tennessee, United States |
| Type | Engineered |
| Taxonomy | Engineered → Bioremediation → Metal → Unclassified → Unclassified → Sediment Slurry → Uranium-Contaminated Sediments Microbial Communities After Treatment In Bioreactor, Oak Ridge, Tennessee, United States |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | Unclassified |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Oak Ridge, Tennessee | |||||||
| Coordinates | Lat. (o) | 36.0103 | Long. (o) | -84.2696 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001196 | Metagenome / Metatranscriptome | 749 | Y |
| F004285 | Metagenome / Metatranscriptome | 445 | Y |
| F008255 | Metagenome / Metatranscriptome | 336 | Y |
| F015111 | Metagenome / Metatranscriptome | 257 | Y |
| F018530 | Metagenome / Metatranscriptome | 234 | Y |
| F020377 | Metagenome | 224 | Y |
| F021332 | Metagenome | 219 | Y |
| F021565 | Metagenome / Metatranscriptome | 218 | Y |
| F022216 | Metagenome / Metatranscriptome | 215 | Y |
| F022445 | Metagenome | 214 | Y |
| F023631 | Metagenome | 209 | Y |
| F024002 | Metagenome / Metatranscriptome | 208 | Y |
| F026170 | Metagenome | 199 | Y |
| F031140 | Metagenome | 183 | Y |
| F031141 | Metagenome | 183 | Y |
| F032705 | Metagenome | 179 | Y |
| F036304 | Metagenome / Metatranscriptome | 170 | Y |
| F036770 | Metagenome / Metatranscriptome | 169 | Y |
| F042957 | Metagenome | 157 | Y |
| F051241 | Metagenome / Metatranscriptome | 144 | Y |
| F052022 | Metagenome | 143 | Y |
| F052685 | Metagenome / Metatranscriptome | 142 | Y |
| F054646 | Metagenome / Metatranscriptome | 139 | Y |
| F055834 | Metagenome / Metatranscriptome | 138 | Y |
| F061016 | Metagenome | 132 | N |
| F061020 | Metagenome | 132 | Y |
| F061953 | Metagenome / Metatranscriptome | 131 | Y |
| F064436 | Metagenome / Metatranscriptome | 128 | Y |
| F072482 | Metagenome | 121 | Y |
| F076227 | Metagenome | 118 | Y |
| F077451 | Metagenome / Metatranscriptome | 117 | Y |
| F077749 | Metagenome | 117 | Y |
| F080209 | Metagenome / Metatranscriptome | 115 | Y |
| F082883 | Metagenome / Metatranscriptome | 113 | Y |
| F085860 | Metagenome | 111 | Y |
| F097612 | Metagenome | 104 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0373898_000287 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 4157 | Open in IMG/M |
| Ga0373898_000403 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 3799 | Open in IMG/M |
| Ga0373898_002413 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 2081 | Open in IMG/M |
| Ga0373898_005837 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1508 | Open in IMG/M |
| Ga0373898_005896 | All Organisms → cellular organisms → Bacteria | 1502 | Open in IMG/M |
| Ga0373898_008904 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium RIFCSPLOWO2_12_FULL_66_21 | 1290 | Open in IMG/M |
| Ga0373898_009736 | Not Available | 1247 | Open in IMG/M |
| Ga0373898_019091 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 960 | Open in IMG/M |
| Ga0373898_019524 | All Organisms → cellular organisms → Bacteria | 951 | Open in IMG/M |
| Ga0373898_022586 | Not Available | 897 | Open in IMG/M |
| Ga0373898_024239 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 871 | Open in IMG/M |
| Ga0373898_026488 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 841 | Open in IMG/M |
| Ga0373898_032039 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 778 | Open in IMG/M |
| Ga0373898_032660 | All Organisms → cellular organisms → Bacteria | 771 | Open in IMG/M |
| Ga0373898_036882 | Not Available | 734 | Open in IMG/M |
| Ga0373898_038531 | Not Available | 721 | Open in IMG/M |
| Ga0373898_045268 | All Organisms → cellular organisms → Bacteria | 675 | Open in IMG/M |
| Ga0373898_047800 | All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium | 660 | Open in IMG/M |
| Ga0373898_048332 | All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium | 657 | Open in IMG/M |
| Ga0373898_048510 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 656 | Open in IMG/M |
| Ga0373898_053787 | Not Available | 629 | Open in IMG/M |
| Ga0373898_055761 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 619 | Open in IMG/M |
| Ga0373898_058973 | Not Available | 606 | Open in IMG/M |
| Ga0373898_062700 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 591 | Open in IMG/M |
| Ga0373898_065146 | Not Available | 582 | Open in IMG/M |
| Ga0373898_066602 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 577 | Open in IMG/M |
| Ga0373898_066844 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 576 | Open in IMG/M |
| Ga0373898_070616 | Not Available | 563 | Open in IMG/M |
| Ga0373898_075905 | Not Available | 547 | Open in IMG/M |
| Ga0373898_076709 | Not Available | 544 | Open in IMG/M |
| Ga0373898_078270 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 540 | Open in IMG/M |
| Ga0373898_090092 | All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium | 510 | Open in IMG/M |
| Ga0373898_090859 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 508 | Open in IMG/M |
| Ga0373898_092114 | Not Available | 505 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0373898_000287 | Ga0373898_000287_1967_2464 | F018530 | VLEGIPGVTETTRRFVQMVRNYIRDYGELNRLISGEETSDRMIAWAVLDAVSTFNGTPHFTHLSLEELLEKEQHFLMLRLTVIAIIESVGVLQTRNHLNYSTGGINVGVNDKTPLLMNWLQYFRGVTDPKLSQVKVAMNIEGILGPSNIGIHSEYWATNQTYLSY |
| Ga0373898_000403 | Ga0373898_000403_3628_3798 | F021565 | LVEQPQPRGLEEFRGVVELDGQPRPGRENREAVRIIARNFGRPAQDVKLLQWARLH |
| Ga0373898_002413 | Ga0373898_002413_2_151 | F036770 | GWDAYNNWLDRVRQPAQPSRQAVISKSLYSVSSYKNWADKARGAFDKAK |
| Ga0373898_004249 | Ga0373898_004249_1_168 | F082883 | VASRSHFAAPLLLAAVVALILYVSLYPFRFHADAPAVLETLRQMTWARAGRSDMFN |
| Ga0373898_005837 | Ga0373898_005837_2_448 | F061020 | SAIQAKFPGGQWDSDDKGHDRYCVPSTQTLMKLPPPHQSKELCFLIGQDGTLAAATAVLNPTLPSLLAVVNRCRTNFGDFDAMLREEGAIQSSFNAQLWTKDSPYIVVVRSENDSDGAPLRVTFTVADEANLYTQGSKKVDNRPVETK |
| Ga0373898_005896 | Ga0373898_005896_229_1062 | F072482 | MLKPLLRLSLVFVLFALLGGTALAQQAQPDVYVSVTYIKVLPGQEEAYRNYLTTTGKKLFQEMMAANPSFLYWSSAKTMFQGTEHGADYDYIGASIYAGPPPEPGATPDSIFQKAVGMSQAELGKKLAAMRTVVGTEVLRRQAGTTTVPSTLKEGDFRVVARIRIKPGMGNEYYETAQTMTQPVMQARTANGELKSWSVWSRVFPAGAGTSYDALTVSYFKDLASAIKGLDSTKGVETFLKVHAGKNFATYISNLRDYSELQQRFVMQIIAMTERAK |
| Ga0373898_008904 | Ga0373898_008904_2_439 | F021332 | MAKTPAAKKSRTRATSRTPTLRVQVQHDIDKALAQAGIPSAIDSDGWRWMQDPSGKGLIGVVAVTGQREDLSLRVVAPITPLPKGQAALLRALRRIAEMNYEIPGHSRLAIDSHTIWAVVAHSVGDIGADDVPNCIFDCVWLSQAA |
| Ga0373898_009736 | Ga0373898_009736_513_959 | F020377 | MSLSRWWREWQFERSYKQSIRADLARIGKEYEARFELLATGNDFDAAMAAYLRACRLPDLRIETLRSRRIRRAADACGVELPREWWEHDDEHDLWFLTPDGRRQARRRISQERMWAVKQWLQILTPAAALIVGLAGVVIGLLSMWRWP |
| Ga0373898_019091 | Ga0373898_019091_568_825 | F036304 | MSQTISPEQVLALLFPEPAKAGGPGTSVTAFVQDPQGGLMLASVVPNRALLETARVAGRFNSGTPILDPGTREIIGYELAPLAVA |
| Ga0373898_019524 | Ga0373898_019524_479_766 | F077749 | MNADDAMERLLRDAMGAEIPQLSPAFDDRVMRRVRPRRLTTTGRVVMAVYSVVAAAAAVWLVHDLPMNLTLAAVTIGVPVAAGANAYVRRFAAGG |
| Ga0373898_022586 | Ga0373898_022586_367_897 | F008255 | HEFVADQTAAFQGQVEKIAKESVETVRETAVGGAETLKSLKSPVRTIARSTIKVTTVSQTAVASLIDLQSDMLTSAISDAALRLERASRADNIVELVREQFEMLPATRARIVEDAQRAALIFKHAGRDLRGVATHLYERVIETAEENVPEVKVVKRKTKRAVRKTTARARKTVAAA |
| Ga0373898_024239 | Ga0373898_024239_200_676 | F042957 | MGRIVDLCGEVAAAADEGSEGLILPPEAWDRLRQEWPEEDIEDALGFVKDSVLQSELVEASDSLSTRLVEVLGDFGDAKAWAAAVEGHASISIDVIRQLAHRLERLEEILEVYRDQSGPDRRGFDELQRRLLDRGIEDQMRPDWEKQGVDEPEGEDGA |
| Ga0373898_026488 | Ga0373898_026488_174_839 | F061016 | VSRQEKLDRMLPVVSGLACLVSAYTTQQGLATATSDLLVSVGVAVAGGAFLFVFSLFLMWRFPYADRPRQIGYGAITVVVLLLAFGFSTQWSVIAMGGKDALSIHMQRVLDQADDVALRQLRQASVEANLAPQLASLAQQYEDLAGRESRGAFSGLRGEGSVVATLRNMSQMFGNLSRTVRGVDAEKRALYDRYKELTAEARKVAAETEAADVSESDKIRRN |
| Ga0373898_032039 | Ga0373898_032039_2_463 | F031140 | AALGAVLVVRLFFVDSRLLAERWLEANVPRGAAVDLITNHEGYAPRVPEGREGRLVRTLSREMAPPERFEEAARRYPLEAAPWLVLTGAFYERFLDHPDQRPERARFFRDVLEGRGGFEVAARFRQEGWRWPGADEFLDPTIVVLRRSPATSR |
| Ga0373898_032660 | Ga0373898_032660_652_771 | F031141 | MSDPPVEREEEGAWARLRRRKVVQWGVAYAATAWGLLQGL |
| Ga0373898_036882 | Ga0373898_036882_542_733 | F026170 | MARERSEAEQKAVETILRALAHNLQRLQEEAEMQALRGEVDSGVQKGLAMALREVNDMLPRRKR |
| Ga0373898_038531 | Ga0373898_038531_14_631 | F032705 | VKGVDAEKRALYDRYKELTAEARKVAAETEAADVSESDKIRRNNLAFSRILGEINEVVTRMEEATTASYVRVVNQNIGSLTTTARAGDTAEQKDAIERLGGLKDAAVKVVAQISGGRTVEEDRAFQTFTMIPAARAIWVYKWDVFYAWAGGIAIDLIPTIFVILLTLGRAREEEEAWDREAAAAAQPVPGPRGVARAGTWPGGQV |
| Ga0373898_045268 | Ga0373898_045268_140_343 | F076227 | VLQELAAQTGASGWVIGSMIFFVAAWAVIAWRVYRARPEDLDARARLALEGEADDRQGGPPATRTDR |
| Ga0373898_046345 | Ga0373898_046345_38_196 | F054646 | MLLAVSCDDATSGKMPGAYALLRPETRLSSQDVETICTAARQAEPHAARVSR |
| Ga0373898_046503 | Ga0373898_046503_3_389 | F097612 | MAAAVAAAQGQSAYEPNLEIRISRIPHAGNGVFTKVAIPKGAYLGAYTGEFITEAEYWRRAKDNRWQYMMGLLDCAIPNTGGIATIDGIRGNVFTRMNYAPAEFQNVKFEKICDAPFVRIMALRDIAAG |
| Ga0373898_047800 | Ga0373898_047800_55_237 | F064436 | LVGVAVKVTEVPAQIVVAVALMLTLTGRFGFTVMVTAFDIAGLPVAQVALLVRRQVTTSL |
| Ga0373898_048332 | Ga0373898_048332_223_417 | F064436 | LTGVGVKVTDVPAQTGFAEAAMVTEAARLVLTVMVTVFEVAGLPVAQVAVEVITTYTASPLTGT |
| Ga0373898_048510 | Ga0373898_048510_185_325 | F022216 | VSEPRTSADAGDAQRRRIRRTAILLGLVALGIYVAFIASGVMQARG |
| Ga0373898_053787 | Ga0373898_053787_1_204 | F055834 | MNTERMPWTCRWSEFRPTSPAPMWMDEWMAQWVCLAERQRTGAGDLDRCVDCQKYDVRDERAGQPPRD |
| Ga0373898_055761 | Ga0373898_055761_443_619 | F051241 | KTPPPPPLVFDLEREINDEDKTQRLREQVAWADRNNLLHRVQMFFEAMPASGWARSED |
| Ga0373898_058973 | Ga0373898_058973_202_450 | F061953 | MSGPVWKLLRTPGACDSCGESANELLSVGSVVDYAFRPDFRFCRTCYDRYEGRRDELHPKAVAEQQLPPLVSRPDSTEDVPG |
| Ga0373898_062700 | Ga0373898_062700_8_247 | F022445 | MDMENGEYYTVAETEEDFNIPRLILGYILHGKRVEIYKSKESYIVVNTQTEKYLTCIGYEHAHYVFKECVRVLAPEGRA |
| Ga0373898_065146 | Ga0373898_065146_2_532 | F080209 | VTAAAARPAGSEPAWTLDQIGRTYTYTLTLSSTLTQATLLDVLFDPRHVAAFSKSAGRLVVLKEDGPVNEVRFDTRRLIFKCATTFRRTLVRESGAIDIEMTDFKAGWGKLAPHAQSSRARYTVTDRGTHREIVYRQEVETDKPVSGYSLRVLRKSMGEFARDLEQYLRRPDLVRDT |
| Ga0373898_066602 | Ga0373898_066602_1_537 | F061016 | MATATSDLLVSVGVAVAGGFFLFVFSLFLMWRFPYADLNRQLGYGAVTLVVLALAFGFSTQWSVIAMGGKDALAIHMQRVLDQADDLALRQLRQAATEANLAPQLDSLAQQYENLASRETRGAFSGLRGEGSVVATLRNMSQMFGNLSRTVKGVDTEKRALYDRYKTLTAEARKVAAET |
| Ga0373898_066844 | Ga0373898_066844_213_575 | F052685 | VKRTQTARVRKALEYVKRRLKLDLEFVVQPGEVHDQFGLLDIERSGRGTEDRKVWIVSYDAELVSQESLAALRRHAFHEVLHALTWPLFDEAEAAIRRVPDSTLRKELMDRSIDARENVV |
| Ga0373898_070616 | Ga0373898_070616_201_386 | F036770 | VRRIKFGAASEGWEAYSSWLDRVRQQPGQASRQAVIAKALYSVSSYKNWADKARGAFDDK |
| Ga0373898_075757 | Ga0373898_075757_357_545 | F077451 | GGLGSLLGGRSSPGRWAGLAASFTELGVDLTTAKKFGPIVIDYVAHHGGEDLVDKIKAALKL |
| Ga0373898_075905 | Ga0373898_075905_152_406 | F023631 | MRLAYFRAVMKLLHHRATRHFIALLIECRCGKKFLHRLDRPVLACLRCGRVDDLGRIIEKLREAREAERRRAPKAARRARVRAA |
| Ga0373898_076709 | Ga0373898_076709_306_542 | F015111 | VLRRVAFVVALLLLFAAAVLFTALNQQRFQIDVGLTRFDVSSGLALVITFAAGLLAGALWRSSWIARLLAERGRLRNAL |
| Ga0373898_078270 | Ga0373898_078270_296_538 | F085860 | QLAELQAAAPGQAPEALARHLASCERCQARALFGGERPSGAKKPVPEFPSVRRAVFLAVLVLFAMAAFFWSLAKLVGRLE |
| Ga0373898_084837 | Ga0373898_084837_294_521 | F052022 | ATRDRIVEDAQRAVQIFKHAGRDVRGVVKHVYERVVEPVEDKIPEVKVKVQKRKPAAAKRASAKTRARKTAAAAA |
| Ga0373898_090092 | Ga0373898_090092_36_386 | F024002 | MTAMVALIFMTAQDRGSAYFDGAHDPQMIAGQPMGFSIGRAVLTEDLRNLKATGGSHPFPGLWVGCSVEGTDDLGQVQPADVQIDGGRCGRSVSKKQLDMMEARSRFNQVGREAVP |
| Ga0373898_090859 | Ga0373898_090859_184_375 | F004285 | MSLSWVSNRSLKVSPRARLVDDGEAEALLRKLEQIEWRPENGFLKDQVIEKTPLAGSRVSRAA |
| Ga0373898_092114 | Ga0373898_092114_2_505 | F001196 | ATAGAVADQFRTGAFGLPWSAGKGAIEAKYPGGKWDTDDKGRARYCAPSKQVLLKLPAQHVTKELCFLIGSDGTLAAAMAQMNASLPALLAVVNRSRTMFGDFDAVVRDDAAIQSRSTSMLWTKDRPYLVRVSSTNDADGAPQEVSFAVADEAALYTEGADAVSNKPT |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |