3300026784: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01.2K2-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026784
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091549 | Ga0207453
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01.2K2-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 23738785
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	1
All Organisms → Viruses → Predicted Viral	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	2
All Organisms → cellular organisms → Bacteria	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	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?
F002471	Metagenome / Metatranscriptome	556	Y
F003406	Metagenome / Metatranscriptome	488	Y
F007409	Metagenome / Metatranscriptome	351	Y
F017166	Metagenome / Metatranscriptome	242	Y
F034688	Metagenome / Metatranscriptome	174	Y
F037171	Metagenome / Metatranscriptome	168	N
F054170	Metagenome	140	Y
F055629	Metagenome / Metatranscriptome	138	Y
F060201	Metagenome / Metatranscriptome	133	Y
F063479	Metagenome / Metatranscriptome	129	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207453_100006	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	8219
Ga0207453_100024	All Organisms → Viruses → Predicted Viral	2973
Ga0207453_100040	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	1798
Ga0207453_100586	All Organisms → cellular organisms → Bacteria	853
Ga0207453_100658	Not Available	827
Ga0207453_100982	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	755
Ga0207453_101292	Not Available	706
Ga0207453_101722	Not Available	652
Ga0207453_102107	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	620
Ga0207453_103469	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	542

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207453_100006	Ga0207453_1000065	F037171	MYVCARIENDPVEEPEEFAGEAPEQQSVGGGKCPLTYLCPIHSLIHLPHYTFMPKD
Ga0207453_100024	Ga0207453_1000242	F002471	IDACSEHIASIAKLNDEMASLNAQLKASKSDFDKLKFARDAYTIGRHPSIKDGLGYKKEAKNLTSHKAPISAKEKGKAPMASSVQKNHAFMYHDRRQSRNAYRSCNAYNAFDSHAMFASSSSYVHDRNVGRKNVVHNMPRRNVVNAHRKAHGPSTIYHALNASFAICRKDRKIVARKLGAKCKGDKTCIWVPKDICTNLVGPNMSWVPKTQA
Ga0207453_100040	Ga0207453_1000403	F007409	MSEAAKKAAAEMKLSLDEEKNLGFLIAMSKTNTEKITREILEGLSEDTGDSDSYDVDSGGEDSEDRPWRPSHSVYGKSTI
Ga0207453_100586	Ga0207453_1005862	F055629	MEAVVGKSLWEDPWFFAAVAPNGGQEQREPCPVTGYACEGDLSYLCEEYGCARKGG
Ga0207453_100658	Ga0207453_1006581	F063479	MSARNWAGTHWIARSTRGGGRPKSGEVDLGPPVKSGRVRGLGELHGLLAELAEALAGLEGGWSGLATVAVALAAMAGGIELAGAKERWLADEGEC
Ga0207453_100982	Ga0207453_1009821	F034688	FFVIVLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLRDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKRKQERPATFTWGK
Ga0207453_101292	Ga0207453_1012922	F054170	MNVTIGFQETEEILSWDVSDEALESAGTAGQEIAGAYTLQFCTSQDCALVS
Ga0207453_101722	Ga0207453_1017222	F017166	LLALAVMVFTGWLYLGEKDAVRSTKADVAAAADRTAVALSQSADPERNTDADAEDVFKKHVQTPSALEDLAVKQSVESISAGRLRQSVKISARARTTLSEFFSMQGAEIEITATHDFDRK
Ga0207453_102107	Ga0207453_1021071	F003406	LKTREDIKGIIMRPIWQSFGLRRPKVEMNEAAEECQRAFGVICSFIGTRDLVQEHIAFRVWPLAEKWEMPQETIKEADEGGLIRLKYTFKFGDKFVEPDDDWLKSIENLSDELLGAYSKAEDTAMSAAFGGRKKKRLNRVFDAIGFVYPDYCYPIRRQKRKNTTSAKEETAAAPSEPEPKRKKIKVLTYRPRYIEPASVPEFTGET
Ga0207453_103469	Ga0207453_1034691	F060201	RGPHGDALAALLQLGPRTRLDASTLSAWIASVEASARQAGGGWSAPALSLADLDVEFPVEHDALAAIFANLLRNAQAAVAGQEDGRVIVRIDRARDVTGRQEVSLEMGDSATTPLSLETIEARESGRGLAIVRDLVREWRGHLVVRPEAVPFTKVVGACFPL