 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300034074 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0142001 | Gp0401908 | Ga0373894 |
| Sample Name | Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A4A4.1 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 232542089 |
| Sequencing Scaffolds | 32 |
| Novel Protein Genes | 39 |
| Associated Families | 35 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 5 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 2 |
| Not Available | 12 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Rhodocyclales → Rhodocyclaceae → Aromatoleum → unclassified Aromatoleum → Aromatoleum sp. | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria 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? |
|---|---|---|---|
| F002230 | Metagenome / Metatranscriptome | 580 | Y |
| F009478 | Metagenome / Metatranscriptome | 317 | Y |
| F011832 | Metagenome / Metatranscriptome | 286 | Y |
| F013906 | Metagenome / Metatranscriptome | 267 | Y |
| F014467 | Metagenome / Metatranscriptome | 263 | Y |
| F018530 | Metagenome / Metatranscriptome | 234 | Y |
| F018759 | Metagenome | 233 | Y |
| F026596 | Metagenome | 197 | Y |
| F026610 | Metagenome | 197 | Y |
| F030483 | Metagenome / Metatranscriptome | 185 | Y |
| F031059 | Metagenome | 183 | Y |
| F032705 | Metagenome | 179 | Y |
| F033859 | Metagenome / Metatranscriptome | 176 | Y |
| F034234 | Metagenome / Metatranscriptome | 175 | Y |
| F037377 | Metagenome | 168 | Y |
| F038572 | Metagenome / Metatranscriptome | 165 | Y |
| F045184 | Metagenome | 153 | Y |
| F046478 | Metagenome / Metatranscriptome | 151 | N |
| F049530 | Metagenome | 146 | Y |
| F052686 | Metagenome / Metatranscriptome | 142 | Y |
| F055511 | Metagenome | 138 | Y |
| F056768 | Metagenome / Metatranscriptome | 137 | N |
| F059094 | Metagenome | 134 | Y |
| F059098 | Metagenome | 134 | Y |
| F061016 | Metagenome | 132 | N |
| F061329 | Metagenome | 132 | Y |
| F061953 | Metagenome / Metatranscriptome | 131 | Y |
| F069005 | Metagenome | 124 | Y |
| F073720 | Metagenome / Metatranscriptome | 120 | Y |
| F077749 | Metagenome | 117 | Y |
| F080209 | Metagenome / Metatranscriptome | 115 | Y |
| F083228 | Metagenome | 113 | Y |
| F085867 | Metagenome | 111 | Y |
| F087391 | Metagenome / Metatranscriptome | 110 | N |
| F097612 | Metagenome | 104 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0373894_002830 | All Organisms → cellular organisms → Bacteria | 2147 | Open in IMG/M |
| Ga0373894_004541 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1771 | Open in IMG/M |
| Ga0373894_005354 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1652 | Open in IMG/M |
| Ga0373894_010862 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1225 | Open in IMG/M |
| Ga0373894_011413 | All Organisms → cellular organisms → Bacteria | 1201 | Open in IMG/M |
| Ga0373894_014900 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1070 | Open in IMG/M |
| Ga0373894_016707 | Not Available | 1018 | Open in IMG/M |
| Ga0373894_017951 | Not Available | 986 | Open in IMG/M |
| Ga0373894_019753 | All Organisms → cellular organisms → Bacteria | 945 | Open in IMG/M |
| Ga0373894_020994 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium | 920 | Open in IMG/M |
| Ga0373894_021279 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 914 | Open in IMG/M |
| Ga0373894_021730 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 906 | Open in IMG/M |
| Ga0373894_026969 | Not Available | 824 | Open in IMG/M |
| Ga0373894_032193 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Rhodocyclales → Rhodocyclaceae → Aromatoleum → unclassified Aromatoleum → Aromatoleum sp. | 762 | Open in IMG/M |
| Ga0373894_034862 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae | 735 | Open in IMG/M |
| Ga0373894_037811 | Not Available | 709 | Open in IMG/M |
| Ga0373894_039691 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 695 | Open in IMG/M |
| Ga0373894_040562 | Not Available | 688 | Open in IMG/M |
| Ga0373894_044895 | All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes | 659 | Open in IMG/M |
| Ga0373894_051559 | Not Available | 620 | Open in IMG/M |
| Ga0373894_055166 | Not Available | 602 | Open in IMG/M |
| Ga0373894_058543 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 586 | Open in IMG/M |
| Ga0373894_063744 | All Organisms → cellular organisms → Bacteria | 565 | Open in IMG/M |
| Ga0373894_065097 | Not Available | 559 | Open in IMG/M |
| Ga0373894_071708 | Not Available | 537 | Open in IMG/M |
| Ga0373894_072883 | Not Available | 533 | Open in IMG/M |
| Ga0373894_075810 | Not Available | 524 | Open in IMG/M |
| Ga0373894_076042 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi | 523 | Open in IMG/M |
| Ga0373894_077931 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 518 | Open in IMG/M |
| Ga0373894_080292 | Not Available | 511 | Open in IMG/M |
| Ga0373894_080341 | All Organisms → cellular organisms → Bacteria | 511 | Open in IMG/M |
| Ga0373894_082247 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 506 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0373894_002830 | Ga0373894_002830_907_1224 | F026610 | MEGPDELLRALLPSPSQLQHERAAIAFLESLALWLNAKLHVVLSVDAREAGCCLGLTDELGVGVRSLFFDVEVRDRRTRRRRGQRIRGIGNFADLRQLRLVPDGN |
| Ga0373894_004541 | Ga0373894_004541_30_809 | F009478 | VEVFFLMMGLWLVVAVALGMRRPRGLGGAALRARLDAVYGEPHELVRVSPAAFPEADLEFYDRARHELEGRRYRWIADVEDLTMTRIYPQNRTFMRLFVDAGGMVRASAYHLHPRGVVISLLQLVQLFPRHLRVLELVSEIQGTFLVTSNTHGVDRLEPPPEARVERLPLGTPISEIIARHEARITDQVRSHPERAPVSFEGLEEVLASIARAHVAMARHRQKVGGLSRDELERLKGRPLSPTEEAFLREVQGKTEPTS |
| Ga0373894_005354 | Ga0373894_005354_304_654 | F031059 | VIAGATPDEVAAVGTSERIQLRPNRLGTLVTGRPGDLVIDYAAELPGPVYDVMYNASTGWFAVTVYRGLEHTQRWDNRPGTDPGYPRAGDILGATTPLDILGVLDISPGVLGYAEA |
| Ga0373894_010862 | Ga0373894_010862_160_336 | F013906 | MSYAEAKEIALLRLELRACWDRGDRAGARLALARLSQIVGTDHELAAEFRRWTSRFAA |
| Ga0373894_011413 | Ga0373894_011413_269_517 | F061953 | MSGPVWKLLKMPGTCDSCGESASELLSVGTVVDYAFRPEYRFCRSCYDRYGGRHDELHQKAVDEQQLPPVLSRPDSVEDVPE |
| Ga0373894_014900 | Ga0373894_014900_3_434 | F018759 | MSTAPPLARAYEALRPKILRRLIELRSTIDSSLARLDEATAQAQVAAVLEHIGNFIATGDLRLHRSFLQTFLAMRAAESQSPASVLATLVAIGDTAAQVAQEEGAGRTEGDGLTVTLTRVTASTARALNDLIAEELESRRRSWQ |
| Ga0373894_016707 | Ga0373894_016707_467_721 | F014467 | MKKTTTAIVATLAALALGSSALATMEIQKEYKAKDAKANCASCHVEKMPKKEKADLNDLGKKVKEAKGADGKIDWTKVPAPAAK |
| Ga0373894_017951 | Ga0373894_017951_439_984 | F032705 | VAAETEAADVSESDKIRRNNLAFSRILGEINEVVTRMEEATTASYVRVVNQNIGSLTTTARAGDTAEQKDAIERLGGLKDAAVKVVAQISGGRAVEEQRTFQTFTMIPAARAIWVYKWDVFYAWAGGIAIDLIPTIFVILLTLGRAREEEEAWDREAAAAAQPVPGPRGVARAGTWPGGQ |
| Ga0373894_019753 | Ga0373894_019753_101_325 | F045184 | MPTTAAYVNAPELAVRTLACAVIKQALTDALDPTTPPDVRRDAEQFLAGDAWFRRWCVAAGMPPVRMITRRHAA |
| Ga0373894_020994 | Ga0373894_020994_764_919 | F061329 | MGERALKLLVILLCSVNAAMWLVYTESPFMATLWGGTALGFAFWIGDDMRR |
| Ga0373894_021279 | Ga0373894_021279_10_456 | F018530 | MVRNYIRDYGELNRLISGEETSDRMIAWAVLDAVSTFNGTPHFTHLSLEELLEKEQHFLMLRLTVIAIIESVGVLQTRNHLNYSTGGINVGVNDKTPLLMNWLQYFRGVTDPKLSQVKVAMNIEGILGPSNIGIHSEYWATNQTYLSY |
| Ga0373894_021730 | Ga0373894_021730_3_266 | F059098 | MSEPHVLVNFRLDRDTPARVRWFATDGVPGDGYKAQITAILLADGTRLAMHGSSILEQTAPDPAGGIGGYLLTFNGMVGYASDHADRP |
| Ga0373894_024209 | Ga0373894_024209_2_862 | F032705 | AFGFSTQWSVIAMGGKDALSIHMQRVLQDADAQALGLLRQAATEANLAPQLDSLARQYEGLASRETRGAFSGLQGEGSVVSTLQNMSQMFANLGRTVKGVDAEKKALYDRYKELSAEARKVASETEQADVGEGEKIRRNNLAFSRVLGEINEVMTRMREASSASYVRVVNQNLGSLTTTVRASDTAEQRDALVRLEGLKDAAVKVVAQISAGSRPEDQVQIQAFTMLPAARAVWVYAGDVFYAWAGGIAIDAIPTIFVILLTLGRPVEDDERDEERRRAALRTPAGA |
| Ga0373894_026041 | Ga0373894_026041_3_824 | F032705 | ADDLALGQLRQASVEANLAPQLASLSEQYEDLASRETRGAFSGLRGEGSVVATLRNMSQMFGNLSRTVKGVDTEKRALYDRYKELTAEARKVAAETEAADVSESDRIRRNNLSFSRILGEINEVVTRMNEATSAAYVRVVNQNLGSLTTTARADDTTEQKQALERLEGLKDAAVKVVGQISGSRVAEEERRFQTFTMIPAARAIWVYKWDVFYAWAAGIAIDLIPTIFVILLTLGRSREAEEELERQAHAAAQPVPMPRSVARGGTWPGPSAP |
| Ga0373894_026969 | Ga0373894_026969_710_823 | F083228 | HADYGVANALCLASLVLAAAGAWFYLRHAVERAEDSG |
| Ga0373894_032193 | Ga0373894_032193_3_404 | F002230 | VSDWVLGVVRRLNKVSSEDVEAGVSIVAERVVPVVLHAKRDPKENLGFVVNGIDMSTIGARFEGLYLPPPSRPDKPLAVKTLIVPTAEYSEGRKLILTTGRSVYTVALRHLVEQRAEWSWAAIQIVDKHARAA |
| Ga0373894_034862 | Ga0373894_034862_389_577 | F055511 | VNHTAIDDAFMIEMRRHFTDAELVELGLITGAFIMLGRLHRTFGVAPMGPRSHAVLERGYDP |
| Ga0373894_037811 | Ga0373894_037811_52_219 | F037377 | MRSALTWFLALAAACIVGPYALGVRPRTRRHWVYLTVTLAFLAWVLAFMISLRSR |
| Ga0373894_039691 | Ga0373894_039691_243_500 | F034234 | MQSEVIALLFPASSSPSEGATPLVTALLRDAEGIMELRHLRPDKALLRKARVAGRLNCGTPIVDPLTREVIGYEIDPITLPAVCA |
| Ga0373894_040408 | Ga0373894_040408_173_688 | F073720 | MLKPLSRLSLALVLVFVFTALFGANALAQQAQPDRYVVVSYIKVVPGQEAAYRAYLTTTAKKVYQELMAGNANLLTWSSAQTMYQGMEHGSDFDFVGATVYAGTPPEPGTNVDAAIMKAAGLSQADLGKKLATMRTVVGTEVLRYRAGTMAPGVMKEGDVRVVGRVKIKPGM |
| Ga0373894_040562 | Ga0373894_040562_482_688 | F059094 | METIAEALRLLKRQAEIQNDLRRSRDNPLLAERELFLIRNRLAQFPAAVQAITLTANELHRPVDTLSAG |
| Ga0373894_041188 | Ga0373894_041188_3_509 | F080209 | VPVQAVSRRWLALAAAAMLTAGRNLPAQSEPSWTFEQNGPTYVYTLRLTSGLPADMLLDVLFQPRHVAVFSKSAGRLVVLKEDGAVNDIRFDTRRLIFKCSSTFRRTLDREARTIDIEMIGFKAGWGKLAPHARSSRARYTVTDLGSLREVVYRQDAETDSPVSGYSLR |
| Ga0373894_044895 | Ga0373894_044895_3_314 | F049530 | MNGCLKGLFRLGCAVVILGAIALIYWFREPIMRTGARWFGKSQALPSVADTSVGAPTPTAIASGNEKLRSLGAGGGPDSVILTPNEMASLIGAGIDWNVRKMYD |
| Ga0373894_051559 | Ga0373894_051559_47_619 | F026596 | RVLGLYAQGEAAAVEKQAAVLDETWSSLTVERPDRYPVTSWKAQNASLGLPPSWRETRRFSGGGTLVTSYVSPPLTVEKGGHAVHASLSVTFEAVPEGGGLAEYYEATRRRLGDNFQVTSHAAFRGGFVDVMRTETPVTVTYVKRFYFARDGRGCSLSFEAREDIFPRASRWADFIASTLAFAGAGDAVP |
| Ga0373894_051675 | Ga0373894_051675_154_618 | F069005 | MDLDVIKSVQPNGDFHARIAGRQDVLVLIRTGNRLRVTRAGQTAVLLLDSGDEDGLDFAQTVLAGSRAARAFRWVQRSLSQESRESAPGVALDNLDLLLAILQGEAGAALRRGPPRRDAGGRVCRVGYTASPSCYSEYEGEVIAAWDDFSQCVDD |
| Ga0373894_053367 | Ga0373894_053367_372_608 | F077749 | MNADDAMERLLRDAMGAEIPQLSPAFDDRVMRRVRPRRLTTTGRVVMAVYSVVAAAAAVWLVHDLPMNLTLAAVTIGVP |
| Ga0373894_055166 | Ga0373894_055166_1_126 | F038572 | GIAVLIQTFGDVEAAVTVLFALTVIVPVAFTVPQPPVSGIE |
| Ga0373894_058543 | Ga0373894_058543_3_275 | F052686 | MTEKPGGKPPAPKGGDPGHLGLDDRGNVTWEWQDEGDLLADDTLGGAERLRALVDPKLQVKDDDEDPLNPIRSNPKGLKSGYNPYNSGALG |
| Ga0373894_063744 | Ga0373894_063744_379_564 | F056768 | FQALILLGAMAVAFLGGMLLERLQFHAERDAMLRRYDQAIREHRARVMEAEKRGEEITRK |
| Ga0373894_065097 | Ga0373894_065097_377_559 | F045184 | MSMPAGYLHAPELAVRTLACAVIKQALADALDPTTPREVRRDAEQFLAGTAWFRRWCVAA |
| Ga0373894_071708 | Ga0373894_071708_163_447 | F085867 | MTERKPVSPAGTRVPPNDVASPERPLSAREAASRRGTPKFGAGTDGWDAYNNWLDRVRQPAQPSRQAVISKSLYSVSSYKNWADKARGAFDKAK |
| Ga0373894_072883 | Ga0373894_072883_101_532 | F032705 | EATSAAYVRVVNQNLGSLTTTARADDTIEQKQALERLDGLKDAAVKVVAQISGSRVTEEERTFQTFTMIPAARAVWVYRWDVFYAWAGGIAIDLIPTIFVILLTLGRVREDEDLQREAHAAAQPVPMPRTVARGGTWPGPAGS |
| Ga0373894_073478 | Ga0373894_073478_215_529 | F097612 | MRSRLRHLFPVIVVAAAATVSHGQSAYEPSLEIRTSKIPHAGKGVFTNVAIPKGAYLGAYTGEFITEEEYWRRAKEDRWQYMMGLLDCAKPATGGIITIDGIRGN |
| Ga0373894_075810 | Ga0373894_075810_210_524 | F087391 | MTFKKFAVLAVAAGCTFATQGVMAQAMEVVTVEAVREIVVGKSPIGAPIKEMTIRSRVSYADLDLTTAAGLETLTKRIKDTANSTCKEIKVDVPVDGWTVDRCIK |
| Ga0373894_076042 | Ga0373894_076042_166_522 | F046478 | MLAADVNCFWALEQDQESYNREVYLPDAYIEVIINVGAPLVLESEHGMLELPRAFVNPLQNKPLRIRAAGFCQMISMQLYPWAVKPILNIDADPSTVHVIGLDAGWQRFADDLTQIVAH |
| Ga0373894_077931 | Ga0373894_077931_16_489 | F033859 | MLRGSKLLLPLLTLFAFAAPARAASQDVSPPASEWRGYCSAYVAALDGKSEVSDLDVTYCLGMTKGLLNGLRIGAQIGALSFGSRLAVGYKLDADEVFKLFQQQDPSRILGICSPPTLNAADYVRAVLAHLEKNPGNLQRPIAEVFYEGLQASFPCD |
| Ga0373894_080292 | Ga0373894_080292_224_511 | F030483 | MERKRIICLYLFAVLILVFSSCHPRRVSDIKPNMTKEEVASLWGKTSLITSKTVNEKTIETWEYHFLNSNSACWITFSQDRVVSTQCHPLRGERYW |
| Ga0373894_080341 | Ga0373894_080341_163_408 | F011832 | LNRRRRIQPRAPVELETVSLRLPVPLVRAVEQYAKYLGGSTDRTYVITQALEIALTQDAEFQKALGARSAAPVAAPERDAS |
| Ga0373894_082247 | Ga0373894_082247_2_505 | F061016 | LACVVSAYTTQQGLATATSDLIVSAGVAVTGGFFLFVFSLFLMWRFPYAETNRQIGYGVVAIVVLALAFGFSTQWSVISMGGKDALSIHMQRTLEQADAQAIGLLRQAAVESNLAPQLDSLSRQYESLASRETRGAFSGLQGEGSVVSTLRNMSQMFANLSRTVQGVG |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |