3300026755: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01K5-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026755
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091555 | Ga0207632
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01K5-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 17624739
• Sequencing Scaffolds: 16
• Novel Protein Genes: 16
• Associated Families: 16

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	10
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Paraclostridium → Paraclostridium benzoelyticum	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → agricultural field → agricultural soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Wisconsin, United States
• Coordinates
  • Lat. (^o): 43.3
  • Long. (^o): -89.38
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003406	Metagenome / Metatranscriptome	488	Y
F004935	Metagenome / Metatranscriptome	418	Y
F015943	Metagenome / Metatranscriptome	251	Y
F023981	Metagenome / Metatranscriptome	208	Y
F034995	Metagenome	173	N
F037297	Metagenome / Metatranscriptome	168	N
F038003	Metagenome / Metatranscriptome	167	Y
F041998	Metagenome / Metatranscriptome	159	Y
F056406	Metagenome	137	N
F063479	Metagenome / Metatranscriptome	129	Y
F066980	Metagenome / Metatranscriptome	126	N
F070071	Metagenome / Metatranscriptome	123	N
F070441	Metagenome / Metatranscriptome	123	Y
F072104	Metagenome / Metatranscriptome	121	N
F074725	Metagenome	119	N
F080568	Metagenome / Metatranscriptome	115	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207632_100185	Not Available	987
Ga0207632_100201	Not Available	974
Ga0207632_100311	Not Available	904
Ga0207632_100400	All Organisms → cellular organisms → Bacteria	856
Ga0207632_100569	Not Available	771
Ga0207632_100961	Not Available	680
Ga0207632_101139	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	648
Ga0207632_101215	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	638
Ga0207632_101293	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	627
Ga0207632_101481	Not Available	604
Ga0207632_101504	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Paraclostridium → Paraclostridium benzoelyticum	602
Ga0207632_101610	Not Available	590
Ga0207632_102280	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	539
Ga0207632_102513	Not Available	523
Ga0207632_102712	Not Available	512
Ga0207632_102747	Not Available	510

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207632_100185	Ga0207632_1001851	F063479	MSARNWAETHWIARSTRGGGRPKSGEVDLGPPVKSGRVRGLGELHGLLAELAEAQVGLEGGWSGLATAAVALAAMAGGNTLAGAKERWLAGEGECGAKRGAPGEAL
Ga0207632_100201	Ga0207632_1002012	F066980	MVKLDLPADAHWIPADEISQAAPDWDGHARHFGSLRRAIDFVMQELTIAARANARITTQDGNLTIEQIEKLQ
Ga0207632_100311	Ga0207632_1003111	F070441	SRLLSCRAGSRMTSSRFAAGQARRNSRFAQRPPGSRDVASRRMRISTLDISGTTTTVRRHEALLRFARYLLVYNLAIISWVVISKLSQMPSFEGLLEWLTGPTWKFAALVLGSVGASYLILAHRLWWAYAVIMLAQVVYFFSAGSAELAVMRASVLFAYGVITLPPMRPLAPLATDIAVMVICFCYIMIVLCLYSAAWVASGGRVPQGAYGRRPTPLEPLRPSRLLDTFLPGHRSQDVTLWEGAVFALSSLLFVAASMAPFYGIRRVQNAFQSTFATQVQQVCPAQPPEAMIACWAQFYP
Ga0207632_100400	Ga0207632_1004001	F041998	TAEIRVQVDVRLIDVDQQVLVALGAGQHALELLDKGFPPLRVGPAEQRLGFLPGQLEAVQRCSDRLATAPQPEPLASPMDKAAQRPARGWIGPNYGRRRGRALGGVDDLAEFGSAVRAKKGRRPPVRRNASASGPPWL
Ga0207632_100569	Ga0207632_1005692	F023981	MTDPGLDLHEWESQWAQLQEDAADSPEEALPEIVRLIESMLTDRGFDLENPVIVEDESRDVVADFLAARDISRAAETTKLDQEDIQTALDD
Ga0207632_100961	Ga0207632_1009611	F080568	MAATPSIKIVKTFPYRGTTRTFSNRYHFNGGLPADNAHWTTLSDAIVTAEKAIYANFVTIVSGVGYAAGSEVPVFSKTYSTVGTGATFGTDYQAGDVAALIRYSTTARTSKNHPIYLFNYYHGVLGDGTNAGKPHAAQVTAYGTYAAAWIAGFSDGTTSYVRAGPNGATATGSLVETYLTHRDLVH
Ga0207632_101139	Ga0207632_1011392	F056406	WHPSGWTALRKEATAPKPPVSVTEQYTGSIIIVPTRGEDCRQMMLDNRTGRMWDKGVVNCYEAVSRSEKEQRGGMSSLRINAIGKAFNRRDE
Ga0207632_101215	Ga0207632_1012152	F038003	SHPTSFGFSLDPPSGFALAGALVEASPNPLGFRMRSPWDRLTDVSTYGPSGSEEDDEPSFCWDFSGLGNPSAMRDFMTACDYCLSDCSDGSRSLGDEDCGPSRECFHVDLGGPGEGNHLGIPENGDPPRPVPRVDILRELAVVPVPAGGHDP
Ga0207632_101293	Ga0207632_1012932	F015943	MMGSRAAKLLVVIALGGGCASGVPAGAQTLKTEPAGDQLACGQKVLVENNTCPADQILEVTGSCLKTAPEIDVVRTPRGTQYNCVKRKRE
Ga0207632_101481	Ga0207632_1014811	F004935	ASMSRPLKVQIVERARELVADEQNWCQRHLAQDVNGASVSPTSTAAVKRCGLGAVIAAAYQLTHDYDAAHRLGHEALRPHYSPATLIYLNDIRGHSAVLALFDEVIAAR
Ga0207632_101504	Ga0207632_1015041	F003406	MTEWFYVKNDLSAREDIKGIIMRPIWQSFGLRRPKVEMNEAAEECQRAFGVVCSFIGTRDLVQEHIAFRVWPLAEKWEMPQETIKEADEGKLVRLKYTFKFGDKFIEPDDEWLKSIDNLSDELLGTYSKAEDNAMSAAFGGRKKKRLNRVFDAIGFVYPDYCYP
Ga0207632_101610	Ga0207632_1016101	F070071	LVAGTSAGFWYLLPRNGEEHPLVQNPGVGSMVTIVILTLFIVGVAVLCEGLLG
Ga0207632_102280	Ga0207632_1022801	F072104	AEVPDLSASRDNSDLAEDDPCDPIRTSKPEAPMQSLNQLPVVTDLADARSA
Ga0207632_102513	Ga0207632_1025132	F034995	MTKILALIAGIFLIGFPAWMLKEMSVPLPQYRKGGYADYVLLAYELLAVYGSVLLGIAVHVGRAKWSGQSLFPFDLFKAGMWGVLVAASAYFVAGGVYGLISYGAFDKVIGGTLWGLLAIFWGVFGALV
Ga0207632_102712	Ga0207632_1027121	F074725	ANRTRTQVGGSPVRSWLAIPCLLVLLLGCTAAPEPLAPYTLSNAEVTAVVRGFYSSVKDLDAPSFRSFKAVRSSGGEVYVCGGMSSRNAGEQVFIGTLSSGRFVPDRIGKDQYSTGEVLAKCQERGIPIQ
Ga0207632_102747	Ga0207632_1027471	F037297	AIGRAFYVTAGPEWKIRRGKRFAPFAQALAGIVYTRSTFMMSGSDVQYTNPFTGGVLLFTSAGFPQDRSIHYADAHADAGLALAIGGGFDVRLSRRIGLRAAMDYDPTFLVRPVFPDLSPDAQGRVVLRPASNERQRQDHARLSIGMGWRIR