 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300034085 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0142001 | Gp0401922 | Ga0373908 |
| Sample Name | Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - B3A4.3 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 331436660 |
| Sequencing Scaffolds | 34 |
| Novel Protein Genes | 36 |
| Associated Families | 36 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 1 |
| Not Available | 14 |
| All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 3 |
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Chthoniobacter → Chthoniobacter flavus → Chthoniobacter flavus Ellin428 | 1 |
| All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium RIFCSPHIGHO2_02_FULL_40_19 | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophobacteraceae → unclassified Syntrophobacteraceae → Syntrophobacteraceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → unclassified Hyphomicrobiaceae → Hyphomicrobiaceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Sulfotelmatomonas → Candidatus Sulfotelmatomonas gaucii | 1 |
| All Organisms → cellular organisms → Bacteria | 2 |
| 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? |
|---|---|---|---|
| F003014 | Metagenome | 513 | Y |
| F006410 | Metagenome | 374 | Y |
| F007586 | Metagenome / Metatranscriptome | 348 | Y |
| F011197 | Metagenome / Metatranscriptome | 294 | Y |
| F012587 | Metagenome | 279 | Y |
| F012756 | Metagenome / Metatranscriptome | 277 | Y |
| F017153 | Metagenome / Metatranscriptome | 242 | Y |
| F020378 | Metagenome / Metatranscriptome | 224 | Y |
| F024002 | Metagenome / Metatranscriptome | 208 | Y |
| F026017 | Metagenome / Metatranscriptome | 199 | Y |
| F026299 | Metagenome / Metatranscriptome | 198 | Y |
| F026359 | Metagenome / Metatranscriptome | 198 | Y |
| F029147 | Metagenome / Metatranscriptome | 189 | Y |
| F031308 | Metagenome | 183 | Y |
| F035821 | Metagenome | 171 | Y |
| F038454 | Metagenome | 166 | Y |
| F040696 | Metagenome | 161 | Y |
| F049077 | Metagenome / Metatranscriptome | 147 | Y |
| F049735 | Metagenome | 146 | Y |
| F055837 | Metagenome | 138 | Y |
| F056382 | Metagenome / Metatranscriptome | 137 | Y |
| F059697 | Metagenome | 133 | Y |
| F061951 | Metagenome / Metatranscriptome | 131 | Y |
| F069139 | Metagenome | 124 | Y |
| F073737 | Metagenome / Metatranscriptome | 120 | Y |
| F078880 | Metagenome | 116 | Y |
| F080204 | Metagenome | 115 | Y |
| F081925 | Metagenome | 114 | Y |
| F083517 | Metagenome | 112 | Y |
| F094479 | Metagenome | 106 | Y |
| F094833 | Metagenome | 105 | N |
| F094956 | Metagenome / Metatranscriptome | 105 | Y |
| F098573 | Metagenome / Metatranscriptome | 103 | Y |
| F102645 | Metagenome | 101 | Y |
| F103508 | Metagenome | 101 | Y |
| F104374 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0373908_022510 | All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 1131 | Open in IMG/M |
| Ga0373908_031787 | Not Available | 968 | Open in IMG/M |
| Ga0373908_032017 | Not Available | 965 | Open in IMG/M |
| Ga0373908_032495 | Not Available | 958 | Open in IMG/M |
| Ga0373908_037954 | Not Available | 892 | Open in IMG/M |
| Ga0373908_040707 | All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 863 | Open in IMG/M |
| Ga0373908_045529 | Not Available | 820 | Open in IMG/M |
| Ga0373908_052817 | All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium | 765 | Open in IMG/M |
| Ga0373908_055848 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Chthoniobacter → Chthoniobacter flavus → Chthoniobacter flavus Ellin428 | 746 | Open in IMG/M |
| Ga0373908_059132 | All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium RIFCSPHIGHO2_02_FULL_40_19 | 727 | Open in IMG/M |
| Ga0373908_059364 | Not Available | 725 | Open in IMG/M |
| Ga0373908_064550 | Not Available | 698 | Open in IMG/M |
| Ga0373908_064878 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium | 697 | Open in IMG/M |
| Ga0373908_065273 | Not Available | 695 | Open in IMG/M |
| Ga0373908_070073 | Not Available | 673 | Open in IMG/M |
| Ga0373908_075962 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophobacteraceae → unclassified Syntrophobacteraceae → Syntrophobacteraceae bacterium | 648 | Open in IMG/M |
| Ga0373908_083861 | Not Available | 620 | Open in IMG/M |
| Ga0373908_086163 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → unclassified Hyphomicrobiaceae → Hyphomicrobiaceae bacterium | 613 | Open in IMG/M |
| Ga0373908_087082 | All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium | 610 | Open in IMG/M |
| Ga0373908_090073 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 601 | Open in IMG/M |
| Ga0373908_092277 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 594 | Open in IMG/M |
| Ga0373908_092456 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 594 | Open in IMG/M |
| Ga0373908_092795 | All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 593 | Open in IMG/M |
| Ga0373908_095545 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 585 | Open in IMG/M |
| Ga0373908_100006 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 573 | Open in IMG/M |
| Ga0373908_103401 | Not Available | 565 | Open in IMG/M |
| Ga0373908_106167 | All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon | 558 | Open in IMG/M |
| Ga0373908_108999 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Sulfotelmatomonas → Candidatus Sulfotelmatomonas gaucii | 552 | Open in IMG/M |
| Ga0373908_114082 | Not Available | 541 | Open in IMG/M |
| Ga0373908_118666 | All Organisms → cellular organisms → Bacteria | 531 | Open in IMG/M |
| Ga0373908_119536 | Not Available | 530 | Open in IMG/M |
| Ga0373908_120041 | Not Available | 529 | Open in IMG/M |
| Ga0373908_128761 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 513 | Open in IMG/M |
| Ga0373908_132186 | All Organisms → cellular organisms → Bacteria | 507 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0373908_007715 | Ga0373908_007715_334_819 | F083517 | MPPEYLAALKAFALQSGVPLAEYVRGMVHDHILQSGAAFRESGAAFRAFINAGKAWVIAYHGEVVVAGALPAKQRRAELEKLTWEAVKKAHEFIQTEEAAKNAKHRMLAIQTIALITRAEEEILSDMDQAEVDQIVQRIEAALNVMGKIVQSVPAKSTRCK |
| Ga0373908_022510 | Ga0373908_022510_2_202 | F094833 | MKLMTKEEKILNDGLEKVSEKKDNMNWISSLAFLNSIGCSPFWAKVKLALSLAYYRITAFLIPISKS |
| Ga0373908_031787 | Ga0373908_031787_395_967 | F049735 | MKKALIACTVISIALVSFDCTSVRRRFIVEGYTKNPGQMIKRIVIISELSPQNKDLAGLISAMTRDLIRTNRNYLVYGIVSTEREVAEACKIRDGVLKMSVDRADAAGEHIDLEITGELRRCSDKSVVWSATARASGKSRNRSLKNLVQNYVEEHGNQAEVYAAPAFKVIENIVEAMPNPDLTEDELMEKI |
| Ga0373908_032017 | Ga0373908_032017_493_855 | F078880 | MGAAIGRQAVVRGLTTFFANVTETIGTFFGRSRADVQEDLGAYWAALNILVMRGDLDGSTPISVGDRRGGGFAGIMSLRAVLRAVQDGWGRWDRKTEARWCQILEDASRTLLYEDATLRS |
| Ga0373908_032495 | Ga0373908_032495_185_445 | F006410 | MSEKPKVSPERQKEMQERARERNVIIKGLKDQGPATLDELSKTTGIEKEKLFKHMIAMRQFGKIAIAGERDNQLVYGLPEGESPTN |
| Ga0373908_037954 | Ga0373908_037954_85_612 | F012587 | MMTFFVRVIVLTLAISFVYGCAKEDKDLAKLQEENRVLKERITSLESQMKPGIASKSEMKEEFLALARKLKASPNDFVGQQIKLHCRFGGFENKFLNDTNGPKFLSPYYIGLIAQSGKEINEPLFDHLFISKKEAKEQGVYRLSVNDLITVYGIVNNAYNKVPWIEVYVVKKGWE |
| Ga0373908_040707 | Ga0373908_040707_372_581 | F031308 | VTIPIYRPYVFLRCRKCGKKTDHVLMTVTNTGRKGEIQEVFECQECGETKTIYELTSVTQLHDQLEAEA |
| Ga0373908_045529 | Ga0373908_045529_560_766 | F094956 | MLVGDILMSPSVALLAVRQREPNSMAPEVPELAAKCMPQYVLSVAKNAKCPLSLERASQYIVVTATAR |
| Ga0373908_052817 | Ga0373908_052817_42_524 | F102645 | LYIIKKDGLVFSGDALGSGFGQAFPTVEKLKQVAEDSQKFVDYIKNNYSPYERYGLRVYTGHWWQNAYGGFLHPNKSQVDVGFLDWRFIQDVATCSNGILQGKWLVDGSGVKYMGNMAYTDAWTSAVGRAIMVSGIGTIIIPLAQAYEAAGLKMPENNEK |
| Ga0373908_055848 | Ga0373908_055848_193_438 | F061951 | MEQTMAQALQRKGRQLRNAAIALVVIVAAQVVALEVVLRGWQGRNALAVFTGIGASALLCAVAVIIFRGTRKPDPKEVDSQ |
| Ga0373908_059132 | Ga0373908_059132_26_205 | F103508 | VWVSLPSWIKPTIKEEKSLKEGLEKTSEKQDNSFWTSCFAFFLFIGCSPFWAKIRSRFF |
| Ga0373908_059364 | Ga0373908_059364_122_409 | F026299 | MIGMFIVAWEGTPPPDKADWIRILRDVLAGELGSYRVVFRKARRGWRFTLEWREDEGAPDEALVANSPESVAYNIYAGLASGGKPIDLTWKPGEG |
| Ga0373908_064550 | Ga0373908_064550_2_355 | F035821 | MTIDQAECGAWAAQAKAAWELLPLIEMERGEEVQVGFELSLYARVPGGVASSLERDAVVEGIWDRLREIAESLVPLMGADGRLEVDPFDDAARLRPETDFEPEVLLSARLFHGSDPLA |
| Ga0373908_064878 | Ga0373908_064878_217_390 | F017153 | MTIAEGERLKNKSTQDLFRIKRIENEKVVILEDEKGLVRIWFPREQLGSFFEKVKGV |
| Ga0373908_065273 | Ga0373908_065273_76_420 | F055837 | MKKCIEKFGGFEIVWVSVSKTEDTSSQGQGPNSPFANDHNNVIVFIDGSGWSRGKTNRVRVHVLSPSGEEWGRQLVDSKQFLGDLRACVRSILKDSDGKLEMEVKNITYGWAHA |
| Ga0373908_070073 | Ga0373908_070073_201_425 | F026017 | MIAVVIDDQKRSAVMKTSLAIVLATIALTFGAMLSFTSGVAAHDYGNLSGKSMGASHFQVPLPSPPGPGPYRNR |
| Ga0373908_075962 | Ga0373908_075962_1_528 | F049077 | MNFSPLFPGMVDTMGALFPALISLAIVVARRARTGLGLDDQLFLVVVSVVLSAVLSRVTITPDETTLHFVPGAMLLLCYLVWCGHYISPGFAFALTYATSLPVDVLLAKLLIGADFNPEFIGGGGWRDGLLILPALTALAVMYANWRMLHAGGARLIGFGQRIMRAGRHRTSAQAA |
| Ga0373908_083861 | Ga0373908_083861_112_411 | F012756 | MRIRPAKIEELAPPQRALSARQLAAMQREEEICAALDTLTADDQILALELDPSEKVPTIRLAVKRAIARHRPGTSMAVRGRTIYISTGPLPARGGPASS |
| Ga0373908_086163 | Ga0373908_086163_266_505 | F026359 | MVMRLEELPKMYGPETLSLMDRALEQAWRELKRRGNVVDANAARSRLTTTIVALASVGETDSAKLERFALKASHGASGL |
| Ga0373908_087082 | Ga0373908_087082_33_389 | F024002 | MTTMVALIFMAPKDRGSAYLDGTHDPQLIARQPMGFSIGRAMLTEDIRHLKATRGSHPLWGLRNRLVCSIEGTDDLGQVQPTDMQIDGGRGGGSVAQKPLDMMETCSRFNQVGGEAVP |
| Ga0373908_090073 | Ga0373908_090073_1_243 | F011197 | FLVESRRFGSGVSAVAPYDSTGYASPDWVGFQYDSGDPWARAYPRLPGLWEGTPYDFVKGGGGLEIPGLPAEVVGCFSGT |
| Ga0373908_092277 | Ga0373908_092277_271_594 | F007586 | MRRTSEKGEGRTGGFILLAAMLAVGLAAWNVAPAYYDFYDFKDKINEICRTPKYKVRNSDEGIMKMLMDEVTRRRLNKWIGPENFTVSTTDTSRQIRLYYEQEVEVLP |
| Ga0373908_092456 | Ga0373908_092456_457_594 | F073737 | MEADEHTHRLLEEIRDAQREHLAEYRRVTRQSLELQQRAVARQEQI |
| Ga0373908_092795 | Ga0373908_092795_205_510 | F038454 | LENETDENRRTAYKDGYNEGYKKGYEKGYDEGTEKAKHKTHHTQVQFLRIECECGTTNFHPIFENKLIINDDEERRCYGCGKIIARDDILGYYSKLQSNRT |
| Ga0373908_095545 | Ga0373908_095545_3_218 | F056382 | PLGADIVHVREDRRNGAGLAGRFGSPGGRVKMFDKNLVHAIIGGKDLDCGSAELSVNLVLTRGHGSLLLDL |
| Ga0373908_100006 | Ga0373908_100006_309_446 | F080204 | MKGIDGMGGTHPKKKISSFSISYRSLCTMFPHLWINEIKDKEGKN |
| Ga0373908_103401 | Ga0373908_103401_147_350 | F020378 | MRKYLIAAALTAVFVTPALAEQFYVVFDPASHKCEAMHDIPEGKKSMGTYGSMEEATKAMHGMKECG |
| Ga0373908_106167 | Ga0373908_106167_1_423 | F104374 | MLTLLELSGRELGMIKLMTDFFVEKPELTAKIESYSTAHYALVTTYSENFGIPEADAWKTFEELQKKIDETEYIQIEAPRPINRWLQMSKEEINMLRTIIDYFSANPKMSPAGSSTTKRSESIIDAYVWFFGSTNGNGEVA |
| Ga0373908_108999 | Ga0373908_108999_1_297 | F069139 | MSVKTLSWVLLAAAALGAVLLFNYWASYQLLSTLVYAGVAAALFGLANLALPFRFLGIGKRVVGAIVLAGGVGLAIAALLWPVSTVRVAQSRTRLDDIM |
| Ga0373908_114082 | Ga0373908_114082_2_262 | F003014 | YKPKVEYKYTIKDIAELAGMTRNALGVAKIHGKIEPGDFKSVVSFLTRRIIDNRLTGDLFAPAARTAKRMKGSKSRAPVSVKKPKR |
| Ga0373908_118666 | Ga0373908_118666_3_158 | F029147 | MGRIANLCGEVVAAAEEGPEGLQLSTEARERLRGEWSDADIEDALALVNAPL |
| Ga0373908_119536 | Ga0373908_119536_2_457 | F040696 | MDHHAGGIDIGDFEMETFVESQAAGIDGGEIGVILEGMDLSKNTSDFFTAENGRKSSFGLGTEDSEDVPVTLEDVFEEEANAAIADAHGIGGPVIEVLSVEEIILEFLFGDQIWGFGVELGEHADGAGVGLLSPFPLAVELKSLDRFVIPLC |
| Ga0373908_120041 | Ga0373908_120041_5_256 | F081925 | VSKTYGKVSIAVGFLLLFAGALDVRQHFGIWAAFSILLGLFLIIFGASFFVSGERQKARRRVSYGFLGAALVVLAIALALFRS |
| Ga0373908_128761 | Ga0373908_128761_1_474 | F059697 | MFESTARLREDVHRLLAALRELAEGPYAALFDSKGVLLESPDDAGEGGWRLRRLVQNRAEALFHVPAALHGGEEMSDLFEDLEGDEFFLAFLNGRVGILVACPDAKRLEEASGKLLKVLADRLLRLNPAWRLDERGRGLFFGSPRLDTVVIGRPNPID |
| Ga0373908_130444 | Ga0373908_130444_1_498 | F098573 | MTLLFITEDSYRMAGVSQALGMDTQQVGTWAALETAGCDAISPMALWGLVQWLGQLSPAQLNLALGAEPPTHIIEDEKHVTECGEKAYVPIVYAPKEALIWWIDYVQSVSEDALRASLERFKAISERLTHILGATVDGWDPAQNALQGAFPGLTLAECHLHAMLKF |
| Ga0373908_132186 | Ga0373908_132186_3_188 | F094479 | MANRELDILRDALREHVNALAVDIGPRTPSIPDSLVRAANYIHSVFEDAGLTVSEQDYDYYD |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |