3300034162: Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A1A0.1

Overview

Basic Information

• IMG/M Taxon OID: 3300034162
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0142001 | Gp0401929 | Ga0373915
• Sample Name: Uranium-contaminated sediment microbial communities from bioreactor in Oak Ridge, Tennessee, United States - A1A0.1
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 140475384
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	2
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	2
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	1

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?
F001699	Metagenome / Metatranscriptome	649	Y
F012062	Metagenome	284	Y
F015651	Metagenome / Metatranscriptome	253	Y
F028847	Metagenome	190	N
F038360	Metagenome / Metatranscriptome	166	Y
F043274	Metagenome / Metatranscriptome	156	Y
F047547	Metagenome	149	Y
F063814	Metagenome / Metatranscriptome	129	Y
F067220	Metagenome / Metatranscriptome	126	N
F067888	Metagenome	125	Y
F094833	Metagenome	105	N
F100441	Metagenome	102	Y
F103033	Metagenome	101	Y
F103508	Metagenome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0373915_001440	All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	1259
Ga0373915_003584	Not Available	915
Ga0373915_005030	Not Available	813
Ga0373915_006592	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	743
Ga0373915_006782	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	735
Ga0373915_014437	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	572
Ga0373915_015113	Not Available	563
Ga0373915_015448	All Organisms → cellular organisms → Bacteria → Proteobacteria	559
Ga0373915_015675	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	557
Ga0373915_017432	Not Available	538
Ga0373915_018899	All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	524
Ga0373915_019862	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	516
Ga0373915_020537	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0373915_001440	Ga0373915_001440_1098_1259	F103508	MKLLTKEEKILNDGLEKVSEKKDNMNWISSFAFLNSIGCSPFWAKVKLALSLAY
Ga0373915_003584	Ga0373915_003584_336_608	F063814	MAAQHDKEDGMSQRDVERTLGRLLTDHSFRDEFFLDPARACLTLGIQLASHELEALFRVQRPALASLGARLDDRICRLHIQKTEVAKQLE
Ga0373915_005030	Ga0373915_005030_286_561	F028847	MQEERRLFNLREFEKMLKSHYKKQNSDLEVSCRDTKFVTYVIHEKGKPWARSLTTEEAFTEITKILFPDEDVRIVRMQFDPPKVELLIEKS
Ga0373915_006001	Ga0373915_006001_1_441	F067888	KLREENRALKEKVASLESQTKPSITSKPEMKEEFLALARKLKASPNDFVGQQIKLHCRFGGFENKFLNDKNGPKFLSTYYIGLIAQSGKEMNEPLFDHLFISKKEAKEQGVYHLGVNDLITVYGIVNSAYNKEPWIEVYVVKKGWE
Ga0373915_006592	Ga0373915_006592_163_741	F012062	MERIEVGRIVGTMALTIILLAANAQGAEKSELSACGIVSGDDAQKFVGGPLDVKQSAKTPTPNGPDTYTSFCTYIAQGGDFANAFTASRLLDLTLHFLHTKEAMAQIYENSLNQYFEAIRAPDVPLKNPTISMLDGFGDKAFVLEATTDPKTGYKSALIVFYKGQVGGSIAAWKKPEPALETTKTVLKHILSR
Ga0373915_006782	Ga0373915_006782_1_189	F015651	MTPNAPNLMALLNMAPSAFASGEMRPAPRIKSISHLRKEVERHFGKQSSQDLEALVGWFNRNF
Ga0373915_014437	Ga0373915_014437_1_570	F067220	GKKDYEVSLDKGENKKRAVETLEFLNELHKYSPEASTYNWAELMSTFVAEKAANSYYVGARLLEQVMANNARIADATAPVAFPKKLADHYLVSIQGFHILNQSNVEGAKQYVKFFLKHPDCIRWYHAVPLHIIPASREVLRSAQYQDHPVIQKRMDVLNFLDSIWGKGVPLYYWDGKEMNPYIGLYHNEN
Ga0373915_015113	Ga0373915_015113_3_563	F100441	AISFVPPAGAVAGGTVTAAIRVSLVSLHHVEPPYTGGASTPFTAFEGQIRWVGEPAQYVESTSTGTPFQASFLQCSPYYHDWGTISLLHVFGSAVVPSSNYRVQVLAESCLGIEDRCTAVSSALIVNTTRWGDVETPYNPPSTTTQPDLGDVGALVNKFRSAPGAPIKARALLAGDDAFGNITTIGI
Ga0373915_015448	Ga0373915_015448_1_117	F038360	LTATGALRLRELRAYNLMPYTDHVETLARFERTDQPRA
Ga0373915_015675	Ga0373915_015675_1_270	F001699	MRIQLRHFLVALLPLVFGLAASWGFAFSQNKCGRLVGPIFAPKCHWIQLEYQLGFLMAGTLLGCIIAAVVGATLERRSRRRVPEAANLNQ
Ga0373915_017432	Ga0373915_017432_79_501	F047547	MREVTYYRWAGTLPVVIPFIAHLFYRDEPTIGLLDRVTILLYVSGIAWPAYIPFATALFWWLAGQPVSRYRRVSWITPILFLPPFLAYLLLVRWWTASTEPWAGVLIFYSILVLLFGYGYVLLTHAGRRMLAWRGRILAA
Ga0373915_018899	Ga0373915_018899_338_523	F094833	MKLMTKEEKILKEGLEKVSEKKDNMDWISSLAFLNSIGCSPFWAKVKLALSLAYYRITAFLM
Ga0373915_019862	Ga0373915_019862_287_514	F043274	VKPHGWVVIGVGLLLAGCATESWTYSKPGLTPARLDQDLEACRRQSVRPQWFAVTRAGRLDQEAINQCMEHKGYTS
Ga0373915_020537	Ga0373915_020537_382_510	F103033	MTRALLITNPFAARAHGNTATTIRDILQGGGWNVDVRSVAGPG