3300034055: Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A3A4.2

Overview

Basic Information

• IMG/M Taxon OID: 3300034055
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0142001 | Gp0401906 | Ga0373892
• Sample Name: Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A3A4.2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 196417443
• Sequencing Scaffolds: 30
• Novel Protein Genes: 31
• Associated Families: 24

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	8
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophobacteraceae → unclassified Syntrophobacteraceae → Syntrophobacteraceae bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	9
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2

Ecosystem and Geography

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

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000982	Metagenome / Metatranscriptome	814	Y
F016540	Metagenome / Metatranscriptome	246	Y
F021566	Metagenome / Metatranscriptome	218	Y
F023895	Metagenome / Metatranscriptome	208	Y
F023896	Metagenome / Metatranscriptome	208	Y
F036304	Metagenome / Metatranscriptome	170	Y
F036766	Metagenome / Metatranscriptome	169	Y
F038145	Metagenome / Metatranscriptome	166	Y
F040165	Metagenome	162	Y
F045182	Metagenome / Metatranscriptome	153	N
F049077	Metagenome / Metatranscriptome	147	Y
F051241	Metagenome / Metatranscriptome	144	Y
F057478	Metagenome	136	Y
F059094	Metagenome	134	Y
F060098	Metagenome / Metatranscriptome	133	Y
F061016	Metagenome	132	N
F061020	Metagenome	132	Y
F065902	Metagenome / Metatranscriptome	127	Y
F068280	Metagenome / Metatranscriptome	125	Y
F070270	Metagenome	123	Y
F070272	Metagenome	123	Y
F072489	Metagenome	121	Y
F087362	Metagenome / Metatranscriptome	110	Y
F101438	Metagenome / Metatranscriptome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0373892_000005	All Organisms → cellular organisms → Bacteria	14680
Ga0373892_000634	All Organisms → cellular organisms → Bacteria → Proteobacteria	3065
Ga0373892_005052	All Organisms → cellular organisms → Bacteria → Proteobacteria	1443
Ga0373892_007045	All Organisms → cellular organisms → Bacteria → Proteobacteria	1264
Ga0373892_008559	All Organisms → cellular organisms → Bacteria → Proteobacteria	1169
Ga0373892_008855	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1153
Ga0373892_010088	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans	1092
Ga0373892_018529	Not Available	848
Ga0373892_019942	All Organisms → cellular organisms → Bacteria → Proteobacteria	822
Ga0373892_020032	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophobacteraceae → unclassified Syntrophobacteraceae → Syntrophobacteraceae bacterium	820
Ga0373892_020965	All Organisms → cellular organisms → Bacteria	805
Ga0373892_025389	Not Available	743
Ga0373892_026009	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	735
Ga0373892_026629	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	728
Ga0373892_027744	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	716
Ga0373892_028707	All Organisms → cellular organisms → Bacteria → Proteobacteria	706
Ga0373892_030936	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	685
Ga0373892_032336	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	673
Ga0373892_035933	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	644
Ga0373892_035938	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	644
Ga0373892_041774	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	605
Ga0373892_043409	All Organisms → cellular organisms → Bacteria → Proteobacteria	596
Ga0373892_049312	All Organisms → cellular organisms → Bacteria → Proteobacteria	566
Ga0373892_050573	All Organisms → cellular organisms → Bacteria	560
Ga0373892_056951	Not Available	533
Ga0373892_058065	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophobacteraceae → unclassified Syntrophobacteraceae → Syntrophobacteraceae bacterium	529
Ga0373892_063055	Not Available	512
Ga0373892_064161	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	509
Ga0373892_064412	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	508
Ga0373892_065006	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0373892_000005	Ga0373892_000005_7560_7955	F040165	VLSRTRLARPRTGWLLYAAVLTFAVVAGEVSNVTRTLEVSALMLANWALSAVLLTALWGYALRRPIGRERYWRMAFWLVLFANLVMLVPVLLSGGAVALVTAALTLVIVPAYVAAFLYAYRSAGVWSPAQS
Ga0373892_000634	Ga0373892_000634_1541_2185	F101438	MLRQTFSVCLLMLGFAPVWAENVTPAGLEEQAARFEQLLDLRHNVDLVRHPQQALDLADAMSDPEFLVAAMVMSANPEVWLKAMERAGAPGVPQNLAQAANPDMLADWFYSSIDPRFQQAILSRMLDPKKPQRWMQAMSDPRFCMPALAVVSPDTPMQWMKVTADGRMMQSMQPWFDPKTYMNWMRLPAPAAAKKSGDKAVIPASFSWKPPQRY
Ga0373892_005052	Ga0373892_005052_1197_1424	F059094	METIAEALRLLKRQASIQNDVRRARGSRVVEERELFLIRNRLAQFPAAVQAITLTAAELHRPVDTLSVGDVEKRC
Ga0373892_007045	Ga0373892_007045_30_191	F038145	MPWTEKQNRLFQAAAHDPAVAKRVGIPQDKAKQMASEGVKDKPKKMAALLRKK
Ga0373892_008559	Ga0373892_008559_563_955	F040165	VATHPLAGARAGWVVYAALLSFAVLAGEAVNLSRGSELSAVTLANWTLSAALLTALWGYALQRRIGSQRYWRVVFWLVLFANAVMLVPVLLGDRAVALFTAALTLLIVPAYLAAYRYAYRSPRLWADVDR
Ga0373892_008855	Ga0373892_008855_2_175	F057478	MLQWVRSVIYTVLLFLVTGVFGVIVLVSALLPLTIEQRYVIPRSWGLFLTWLARVVCG
Ga0373892_010088	Ga0373892_010088_951_1091	F068280	MNRSLAQWLADNTVGAVLVTALLGVLPLIGIGVAFFLPGAVPALVVL
Ga0373892_018529	Ga0373892_018529_50_313	F023895	MTSMSDPKNPAASGGPPRPDGLSDTAVRRLKFGAASEGWEAYSNWLDRVRQQPGRTSRQAVIAKALYSVSSYKNWADKARGAFDDSK
Ga0373892_019942	Ga0373892_019942_673_822	F070270	GRWAGLAASFTELGVDLKTAKKFGPIVIDYVAHHGGEDLVDKIKAALKL
Ga0373892_020032	Ga0373892_020032_293_820	F049077	MDFGPLFPGMANSVGALLPALISFGIVVARRARSWLGMGDQLWLGVFSLVMSLVLARVTITPEEISLHIVPGATVFVCYLAWRGYYISPGLAFALTYASCLPVDFFLAQLVIGAEFNPECVGGGGWRDGLLIFPTLTALAVMYANWRMVKVGRAGLFWFGQRTGGHALEPAQDNLG
Ga0373892_020965	Ga0373892_020965_374_622	F072489	MFGLQPLTPVIVKVVSEPTPQVTVVDVLVDALGLTGVIVAGSFVLGGVVGLLLIGYSRWKIARSGDAGTSDHTSLDLSSPLK
Ga0373892_025389	Ga0373892_025389_305_424	F021566	MFTCNNVDSFTTRVLAGLVVTVTIVFGSLTYAVSNIQVL
Ga0373892_026009	Ga0373892_026009_616_735	F060098	MDAATLKRAVSAIVIGVGGLLWLSAILFMAQTAQHSEQFS
Ga0373892_026615	Ga0373892_026615_3_440	F061020	AIEAKYPGGKWDEDGKGHARYCVASKQTLLKLPAPHQTTELCMLIGKDDTLASVTAVMEPSLASLLAVVNRCRTTFGDFDAVVRDETAIQSRSNAMLWTTEGRYVVQVESQNNELGSPTRVAFTVADEANLYTEGSKKVSSRPGS
Ga0373892_026629	Ga0373892_026629_2_358	F087362	LLYGVYHPYFLRGDLNDDGVLDFVLAFVRRDSDRDSPWFSVVVFAGKGDAGFGPGTFVERDVSLADGDLSIDRDSIVITPDLDEEENARRYRWDPIRRSYVFVRGDSEDDERVPAAQT
Ga0373892_027744	Ga0373892_027744_2_337	F040165	LTFAVVAGEVSNITRTLEVSALTLASWALSAALLTALWGYALQRPIGSERYWRMAFWLVLFANLVMLVPVLLAGGAVALVTAGLTLLIVPAYLAAFRYAYRSPNVWLPAQP
Ga0373892_028707	Ga0373892_028707_2_247	F036304	ISAEEVLALLFPERPAAGNPTPAVTAFVRDPQGGLMLASVVPNRSLLESAKVAGRVNSGTPILDPHTREIIGYELSPLAVA
Ga0373892_030936	Ga0373892_030936_308_619	F000982	MPSWKPSSRANQLLQHHLLRGRTYPTPRYWERLYQMLEEEAERRGKTPPPPPLAYALDHEPTEDEKIDRLREQIAWADRNNLLHRIQMFFDAMPSSGWKRAER
Ga0373892_032336	Ga0373892_032336_45_356	F000982	MAQMRISSSASRLLDHHRLRGRTYPQAKYWERLYQMLEEEAEKRGKTPPPPPMTHALDHEPTEEDKMERLREQVVWADRNSLLHRVQEYFERMPTSCWHRTDK
Ga0373892_035933	Ga0373892_035933_54_260	F051241	MLLEEAERRGKTPPPAPLVHGLETEPSQADRMERLDEQVVWADRNQLLHRIQMFFDAMPSSGWVEIDK
Ga0373892_035938	Ga0373892_035938_8_283	F000982	MMLHYHLRGRAYPTQLYWDRLYLMLVEEAEKRGKTPPPPPLVFDLEREINDEDKTQRLREQVAWADRNNLLHRVQMFFEAMPASGWARSED
Ga0373892_041774	Ga0373892_041774_460_603	F070270	WAGLAASFTELGVDLDTARKFGPIVIEHVRQHGGEDLVEKIKVALKI
Ga0373892_043409	Ga0373892_043409_2_115	F070270	LGVDIPTAKKFGPIVIDYVAEHGGEDLVEKIRDALKI
Ga0373892_049312	Ga0373892_049312_270_530	F023896	MRLRRHLAWIIVALVFGAAVLPLLVYYTGTTTLGPYSGGGPLQFLAAFYADVVRLRVAAWLLLLGPATLVTFWRVLVAYLWPRQER
Ga0373892_050573	Ga0373892_050573_323_553	F045182	VIQKRMDVLKFLDSIWTKGVPLYYWDGKELNPYIGLFHNENLAGWMLAMRNIKGMKSDQVVDEAAAQVRKKMKRVS
Ga0373892_056951	Ga0373892_056951_176_532	F070272	MSAEIESLSTDVNARRPGRGANPMLVAFAVIGVLLALYASWRVGRLDDRDNRLRAQIAEMRATQDKLDGRLQWLAADLESSRATWRSELRGLREVPAQVAELGRSVEELRARTESPQRA
Ga0373892_058065	Ga0373892_058065_3_452	F049077	MNFSPLFPGMVDTMGALFPALISLAIVVARRARTGLGLGDQLFLVVVSVALSAVLSRVTITPDETTLHFVPGATLVLCYLVWCGHYISPGFAFALTYATSLPVDVLLAKLLIGADFNPEFIGGGGWRDGLLILPALTALAVMYANWRMLH
Ga0373892_063055	Ga0373892_063055_3_419	F065902	MTEHVLVWHPKVPGDAPAALAGDDQLRLIGMPTGLVRPARQALAADQLTPAAREIMDAIVADLRERAATPDLPVKRFNLGGLDEAGRAAVADILGEGDVWAKVGVGDRFWRVVESVLAGVWRLESSASDGTTEECIDVG
Ga0373892_064161	Ga0373892_064161_1_489	F061016	MPLVSLSACVVSAYTTQQGLATATSDLLVSAGVAIAGGFFLFVFSLFLMWRFPYADTNRQVAYGVVTILVLALAFGFSTQWSVIAMGGKDALSIHMQRVLQDADAQALGLLRQAATEANLAPQLDSLARQYEGLASRETRGAFSGLQGEGSVVSTLQNMSQMF
Ga0373892_064412	Ga0373892_064412_21_302	F016540	MNHPPDSIPVLTDIVEEDFGQAAPIDRTRLFLDELEAHLTIAIHEQADELVHNACREMEALLLEQVSDRLRSALPALINRIVEEHFQGPERSH
Ga0373892_065006	Ga0373892_065006_2_367	F036766	MNRSLAQWLAGNPVGAVITTGLLGLLPLLGIGVAFFLPGAVPALIVLVRGERQGLIVALGASLLLAAAMAGFGRPMPVGFIYSAWVLGPPLLLAILLSRTDSMSLCLQVATLVGAVLLVVLH