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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 | 3300034080 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0142001 | Gp0401911 | Ga0373897 |
| Sample Name | Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A5A4.1 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 329719079 |
| Sequencing Scaffolds | 39 |
| Novel Protein Genes | 42 |
| Associated Families | 35 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 2 |
| Not Available | 13 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → Holophagales → Holophagaceae → Geothrix → unclassified Geothrix → Geothrix sp. SG10 | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium SCN 69-37 | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 8 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 5 |
| All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 1 |
| All Organisms → cellular organisms → Bacteria | 5 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 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? |
|---|---|---|---|
| F000982 | Metagenome / Metatranscriptome | 814 | Y |
| F003544 | Metagenome / Metatranscriptome | 480 | Y |
| F004285 | Metagenome / Metatranscriptome | 445 | Y |
| F007132 | Metagenome / Metatranscriptome | 357 | Y |
| F008255 | Metagenome / Metatranscriptome | 336 | Y |
| F014467 | Metagenome / Metatranscriptome | 263 | Y |
| F022009 | Metagenome | 216 | Y |
| F022216 | Metagenome / Metatranscriptome | 215 | Y |
| F025295 | Metagenome / Metatranscriptome | 202 | Y |
| F027557 | Metagenome | 194 | Y |
| F031143 | Metagenome | 183 | Y |
| F034983 | Metagenome | 173 | Y |
| F045184 | Metagenome | 153 | Y |
| F052022 | Metagenome | 143 | Y |
| F054984 | Metagenome | 139 | Y |
| F057478 | Metagenome | 136 | Y |
| F058255 | Metagenome | 135 | Y |
| F060098 | Metagenome / Metatranscriptome | 133 | Y |
| F061953 | Metagenome / Metatranscriptome | 131 | Y |
| F068280 | Metagenome / Metatranscriptome | 125 | Y |
| F073717 | Metagenome | 120 | Y |
| F073720 | Metagenome / Metatranscriptome | 120 | Y |
| F073723 | Metagenome | 120 | Y |
| F075045 | Metagenome / Metatranscriptome | 119 | Y |
| F076227 | Metagenome | 118 | Y |
| F077461 | Metagenome | 117 | Y |
| F080210 | Metagenome / Metatranscriptome | 115 | Y |
| F081019 | Metagenome | 114 | Y |
| F085790 | Metagenome / Metatranscriptome | 111 | Y |
| F090575 | Metagenome | 108 | Y |
| F090579 | Metagenome | 108 | N |
| F093935 | Metagenome / Metatranscriptome | 106 | N |
| F094833 | Metagenome | 105 | N |
| F096139 | Metagenome | 105 | Y |
| F101198 | Metagenome / Metatranscriptome | 102 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0373897_009001 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales | 1614 | Open in IMG/M |
| Ga0373897_009980 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1553 | Open in IMG/M |
| Ga0373897_013412 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1381 | Open in IMG/M |
| Ga0373897_019489 | Not Available | 1184 | Open in IMG/M |
| Ga0373897_028044 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → Holophagales → Holophagaceae → Geothrix → unclassified Geothrix → Geothrix sp. SG10 | 1013 | Open in IMG/M |
| Ga0373897_029480 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium SCN 69-37 | 991 | Open in IMG/M |
| Ga0373897_041917 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 849 | Open in IMG/M |
| Ga0373897_042210 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 847 | Open in IMG/M |
| Ga0373897_045652 | All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 818 | Open in IMG/M |
| Ga0373897_048780 | Not Available | 795 | Open in IMG/M |
| Ga0373897_058937 | All Organisms → cellular organisms → Bacteria | 730 | Open in IMG/M |
| Ga0373897_063752 | Not Available | 705 | Open in IMG/M |
| Ga0373897_065933 | Not Available | 694 | Open in IMG/M |
| Ga0373897_067675 | All Organisms → cellular organisms → Bacteria | 687 | Open in IMG/M |
| Ga0373897_068385 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 683 | Open in IMG/M |
| Ga0373897_070924 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 672 | Open in IMG/M |
| Ga0373897_071746 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 668 | Open in IMG/M |
| Ga0373897_074467 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 657 | Open in IMG/M |
| Ga0373897_075649 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 652 | Open in IMG/M |
| Ga0373897_079118 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 639 | Open in IMG/M |
| Ga0373897_083467 | All Organisms → cellular organisms → Bacteria | 624 | Open in IMG/M |
| Ga0373897_087749 | Not Available | 610 | Open in IMG/M |
| Ga0373897_088123 | Not Available | 609 | Open in IMG/M |
| Ga0373897_090028 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 603 | Open in IMG/M |
| Ga0373897_092360 | All Organisms → cellular organisms → Bacteria | 596 | Open in IMG/M |
| Ga0373897_092854 | All Organisms → cellular organisms → Bacteria | 595 | Open in IMG/M |
| Ga0373897_096572 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 584 | Open in IMG/M |
| Ga0373897_097960 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 580 | Open in IMG/M |
| Ga0373897_098492 | Not Available | 579 | Open in IMG/M |
| Ga0373897_101536 | Not Available | 571 | Open in IMG/M |
| Ga0373897_102781 | Not Available | 568 | Open in IMG/M |
| Ga0373897_108191 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 555 | Open in IMG/M |
| Ga0373897_110653 | Not Available | 549 | Open in IMG/M |
| Ga0373897_116548 | Not Available | 537 | Open in IMG/M |
| Ga0373897_122579 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 525 | Open in IMG/M |
| Ga0373897_126724 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 517 | Open in IMG/M |
| Ga0373897_127442 | Not Available | 516 | Open in IMG/M |
| Ga0373897_129082 | Not Available | 513 | Open in IMG/M |
| Ga0373897_132564 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 507 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0373897_009001 | Ga0373897_009001_2_361 | F090575 | GASVEASDGKGLIQDNRALPAILQGIDQMFGAGSAAALIVESVLLHQSLTVVPEWPNPGGLNDAEIPCCIRQALLPLLQGVMLVDSDAWQLFDPASKAKFRQGTLAVFADVRRRLPADR |
| Ga0373897_009980 | Ga0373897_009980_675_1064 | F031143 | MVKKAWAAYAAALTAIVVLGETSNLVQGGTLDTRTFANWFVTAVLLLGTWGYALQRRIGAQYYWRAACWVVLGATLITLVPAVLAGGAAAFMVVVLLPLLVPAFAAVFLFAYRSPQLWASNGDDASLSR |
| Ga0373897_013412 | Ga0373897_013412_682_1338 | F075045 | MTTDGRVWHGDVPLSGDHFDATFSGHLYEGVHFPDGTNHGTATMHVDHHSSAATDGRYSGHGDTGTFRMTLSPMWDRPASLGAIAGVYTRSTSSGYTITMTVAAGGQWTGSDSKGCLFNGTVSVPDPLHNLYHLDAQVSSCGSLDGHYQGTGTLLDADAMRDWMTTMHPLEQGGHSHGGSMMGGMHGAAHNTVPTGQGNLFMFSMFNERNAIMDALGR |
| Ga0373897_019489 | Ga0373897_019489_365_835 | F093935 | MAVHTEHPQGQHTFLLREGVWEAEGTGYVAADAAEARISGRTEVRHPAPDRITNEGWMKVHTPTTFEIWQRYDFRPGTRPHTWTFVSHNDRVGELTGEVLFWGAHAFIHYASAKSRFRGSELLTRVSDTEYTSVGKFIADGRAETVWTVRLKRVAD |
| Ga0373897_028044 | Ga0373897_028044_3_155 | F085790 | AGILAIYFLMQSNVRPNPPLKSDPACIAFRSLSTSRYLGSARRLGAGAAA |
| Ga0373897_029480 | Ga0373897_029480_614_859 | F101198 | VAQQQRDGDQPWELADGHAGDGTDESIEFVSDVEFVEEGVDEAARPPETVGTIGEFLQNVAAVVLSPVLDLDALRRPGARL |
| Ga0373897_041917 | Ga0373897_041917_48_440 | F031143 | VIKKAWTAYAALLTVAIVAGEVANLRAGGTVDFRTLANWVVTAVLLIATWGYALQRPFGSRRYWSGASWVVLGASLITIVPAVLAGSTALIMVAVLLPLVVPALYAMFRYAYRSPQVWAARTRDDVSLKD |
| Ga0373897_042210 | Ga0373897_042210_576_824 | F014467 | VKKSTSAVLAALAALALGSSALATMEIHKEYKSKDAKANCASCHVDKMPKKEKHDLNDFGKKVFGAKGKDGKIDWAKVPAHP |
| Ga0373897_045652 | Ga0373897_045652_54_266 | F094833 | MKLMTKEEKILNDGLEKVSEKKDNMNWISSLAFLNSIGCSPFWAKVKLALSLAYYRTTAFFIPISKSARL |
| Ga0373897_048780 | Ga0373897_048780_115_393 | F045184 | LLAWSSCAPPDRGAIEVDMSTAAAYSNVPNSSVKPLACAVIKQALSDALDPTTPLEVRRDAEQFLAGDAWFRRWSAAAGMRPTHLITRRHAA |
| Ga0373897_058937 | Ga0373897_058937_141_389 | F061953 | MSGPVWKLLKMPGTCDSCGESASELLSVGTVVDYAFRPEYRFCRSCYDRYGGRHDELHQKAVDEQQLPPVVSRPDSVEDVPE |
| Ga0373897_061023 | Ga0373897_061023_389_667 | F034983 | VAQAVARKNERVTLPAVLDGLDEDARRVMSQIAVEGVPTEGLSAEECVRELRRQPLKARMAEIQKRLAGASGEAQEALLAEKTRLVRQMTGL |
| Ga0373897_063752 | Ga0373897_063752_180_704 | F008255 | FVAEQTAVLQGQVEKIAKESVETVRESVVGGAETLKSFKSPVRTIARSTIKVTTVSQTAVASLIDLQSDMLTSAISDAALRLERASRADNIVELVREQFEMLPATRARIVEDAQRAALIFKHAGRDLRGVATHLYERVIETAEENVPEVKVVKRKTKRAVRKTTARARKTVAAA |
| Ga0373897_065933 | Ga0373897_065933_1_156 | F054984 | MERLLKWLDDCDDLLDMFRLLAPAVMVTALLALVFVTGVAALLLLGPPDLLA |
| Ga0373897_067675 | Ga0373897_067675_1_156 | F073723 | MSGFTALERLMLPLVRRFVALWVRPSILPDDVAARLAGGRPVVYALEKRSLV |
| Ga0373897_068385 | Ga0373897_068385_526_666 | F022216 | VSDPRATTGLSDEQRRRIRRNAIVLGLLALGIYVAFIASGVMGVRG |
| Ga0373897_070332 | Ga0373897_070332_3_560 | F073720 | MFKPLTRLALAYLIAFTALLGATAFAQQAQPDLYVQVSYIKAVPGQEAAYRSYLTTTGKKVFQEMQAANPNFLLWTSAEMMYRGMEHGSDFDFVGASVYAGTPPEPGANNDATIMKATGMSQADLAKKLSAMRTVIGTEVLRYRAGTITPGTLREGDIRVIGRVRINPGMGDEYYATAKDVAEPVM |
| Ga0373897_070924 | Ga0373897_070924_407_661 | F014467 | MKKTTTTVVAALAALALGSSALATMDIQKEYKAKDPKANCASCHVEKMPKKETAGLNDFGKTVKAAKGADGKIDWAKVTVPAAK |
| Ga0373897_071746 | Ga0373897_071746_450_668 | F077461 | LRELGATATQLQALIAQADSKAPAITQLSDRAADRMATVVDRVYWRLVQLVLVLVAAVVIGALAYRAIVRRA |
| Ga0373897_074467 | Ga0373897_074467_120_656 | F058255 | VQLDLFADPPPTKAEIISDQASLQALYDALAEAYRLPPARVELSARRATGGVIQYGPPHVIRVSAHMSARDRRETLLHETAHAICHDRWGVDEGHSSRFWEIARELGVTRKSAPETDRLATIRARNARYTYRCIGCLGEWTRRRPFGRARLCAACEGKGRPSRLILVRRPKRQARRKG |
| Ga0373897_075649 | Ga0373897_075649_302_616 | F000982 | MAQQIKLTSRATRLLDHHRLRGRTYPTQRYWERLYQMLEEEAEKRGKTPPPPPLSGGLDHDPTEEDKLDCLREQLAWADRNNLLHRIQMFFDAMPVSAWNRVEK |
| Ga0373897_079118 | Ga0373897_079118_462_638 | F060098 | MDTPSLSRTVSAAVIVLGGLLWFAAIMFMAQTAQHSEQFSRLHPWILMINVAGLVVLVG |
| Ga0373897_083467 | Ga0373897_083467_377_622 | F076227 | GVRARGARFGEVNVLQELAARTGATGLAIASMLFFAVVWLVIAARVIRTRPEEMDAMARLALEGDADDGQGSPASGARTER |
| Ga0373897_087749 | Ga0373897_087749_91_255 | F027557 | MERILKWLDDLDDLMAVTRLQLGPVFVTIALLAVFLAVLGVVFVLGPPDLYAAP |
| Ga0373897_088123 | Ga0373897_088123_418_609 | F057478 | MLQWMRSVIYTVLLFLVTGVFGVIVLVSALLPLTIEQRYVIPRAWGRCLTGLAGTICGLRYVIE |
| Ga0373897_090028 | Ga0373897_090028_321_575 | F014467 | MKKTTTAIVATLAALALGSSALATMELQKEYKAKDAKANCASCHVEKMPKKEKADLNDLGKKVKEAKGADGKIDWTKVPAPAGK |
| Ga0373897_092360 | Ga0373897_092360_384_527 | F096139 | VNETLGRAVGDRIVADYVVMIVALVVWGAIFLYLMKLDRKVRELDKR |
| Ga0373897_092854 | Ga0373897_092854_341_589 | F061953 | MSGPVWKLLKMSGTCDSCGENATELLSVGTVVDYAFRPDYRFCRSCYDRYEGRHDELHPKAVREQQLPPLVSRPDSLEDVPE |
| Ga0373897_096572 | Ga0373897_096572_227_583 | F003544 | LLLFTEGINCLTLGAGVPAQEIAGAARAYKVHLALLLFDRGISGKIAGQEIRGLRAALPADLPLIVSGRAVNLLAKPIASARTAADFSSVMATMRELGVLPLAPVSLVGMLPDPQSRA |
| Ga0373897_097960 | Ga0373897_097960_3_167 | F004285 | MSLSWISNRSLRISPRARLVDDGEAEALRRKLEQIEWRPQNGFLKDQVIERMPNG |
| Ga0373897_098492 | Ga0373897_098492_1_579 | F080210 | AARPACAALVVFLLSGLPAAAQTVEAGAYAGLSFGGELIATPGFESAPLQAGLLYGGAFNVEFMPGWRVEALVMREASKVRGPARGTFVDVNVDRYLGGVQSQEPLSHRFDVFGEFMLGATRYAPAAYESELWFTLGVAAGVKGRIAPHLGIRLEARGYYTPVAISGVGVCGGYGCVIGYTGTGTFQGDVAAG |
| Ga0373897_101536 | Ga0373897_101536_5_316 | F052022 | MITSAITAAALRLERASRADGLVDLVRDQIEMIPASRDRIVEDGKRAVQIFKVAGRDLRGVAANLYEKVVDATEEQIPEVKVAKRKVKTAVRKTKARARKVAA |
| Ga0373897_102781 | Ga0373897_102781_416_568 | F073717 | EKEREALKQAYTRKVAKALPANKALRYAQLETRIDQMVRRDVYGLIPLAK |
| Ga0373897_108191 | Ga0373897_108191_230_505 | F007132 | MTLTTRNKVRVTARKVLLSDDLIAGEKDAAIAILRAIPEIGNPYAVRCDWCHATKTLFRDENDSPFKLSPRGWTCEACEMPAACQEIRFWK |
| Ga0373897_110653 | Ga0373897_110653_1_288 | F052022 | VALRLERAARAENVLDLVRDQFEMIPATRARVVEDAQRAVEIFKVAGRDLRNVATHTYERVVETAEEKIPEVKTAKRKVKTAVRKTRARVRKVAA |
| Ga0373897_111865 | Ga0373897_111865_1_546 | F073720 | VLPGQEDAYRTYLTTTGKKLFQEMMAANPSFLYWSSAKTMFQGTEHGADYDYIGASIYAGPPPEPGATPDSVFQKAVGMSQAELGKKLAAMRTIVGTEVLRRQAGTTTVPSTLKEGDFRVVARIRIKPGMGNEYYETAQTMTQPMMQARTANGELKSWSVWSRVFPAGAGTSYDALTVSYFK |
| Ga0373897_116548 | Ga0373897_116548_115_225 | F025295 | MVTGLGEAAELLRRSGALIPETLKKITRKVNFWIRN |
| Ga0373897_122579 | Ga0373897_122579_3_284 | F090579 | MKQAILALALLLAGCASQPTTAPATAGSLAPASEEDEVLLAIQEAVDKGYKVVSDDGQTLYCRKDRKTGSRVQSNLTCLTKDQLVTQRRGAIDY |
| Ga0373897_126724 | Ga0373897_126724_155_487 | F022009 | MLRALALLLLALGASAAHAQSQIYTVDIRPVLNDLDIKIEHVAQSRMLILNLTNNSPTRVRCNLHYDASPQTPLRATRHINPGRTETSVLRAQRRWFSVTVDVVCVPAPR |
| Ga0373897_127442 | Ga0373897_127442_109_480 | F081019 | MRLLWVAIDSRTDETRILVTAGPKETVLKARLSSTAQHPHAVPMLLEALAMWHGMPVRAVVAVDDKEGSSVTRLKLGWLADLAGEPLYTLKFVDGRKRRHRDHLDGLGQFHDLRQLVMFEVAR |
| Ga0373897_129082 | Ga0373897_129082_3_152 | F068280 | MNRTLASWIVANPGGAVVLTGLLGLLPLFGLGFAFFLPGAVPALVVLARG |
| Ga0373897_132564 | Ga0373897_132564_44_415 | F022009 | MPATPSTGTARSLPLLVLLLALGPSASQAQSHNYTVDIRPVLNGLDIEIGHVAKSQALVVNLTNKSPTRARCKLHFNAPPQTPLRATRHVEPGRTESSVLRAHRRWFRVTVDVACVPAQTTGR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |