3300026676: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G07A4-10 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026676
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072041 | Ga0207589
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G07A4-10 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 8567334
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae → Roseimicrobium → Roseimicrobium gellanilyticum	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea	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): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000268	Metagenome / Metatranscriptome	1411	Y
F001757	Metagenome / Metatranscriptome	641	N
F005672	Metagenome	393	Y
F023901	Metagenome / Metatranscriptome	208	N
F025086	Metagenome / Metatranscriptome	203	Y
F026346	Metagenome / Metatranscriptome	198	Y
F048216	Metagenome / Metatranscriptome	148	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207589_100903	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae → Roseimicrobium → Roseimicrobium gellanilyticum	631
Ga0207589_101046	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	608
Ga0207589_101372	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	572
Ga0207589_101710	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	538
Ga0207589_101863	All Organisms → cellular organisms → Bacteria	526
Ga0207589_101930	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	521
Ga0207589_102226	All Organisms → cellular organisms → Archaea	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207589_100903	Ga0207589_1009031	F025086	GVAKLSRASCYKSNLMKKPIYAALDLHSRMSVLGSMDHHDGQTQPRMRFPTEASILRGEVERLRRKRRPLYLTMEAGALTRWASGIVRPLVERLIICEPRHNRLINSNPTKSDEADVEGMCLLLRLGKLKEVWMGTDRTREIYRALVYELLSWRDAQRELKALIKARYRGWGVLRLHGIRVFSAKGRQEYLAQLPAEEERRMMRRLYGQL
Ga0207589_101046	Ga0207589_1010461	F005672	AADWGISQPKEHGEDERKRPLAAVATDLNGRLKQCCKSADSPSGAALEMRRHFTLFARYGLPNPKATQLVRDLTMKAFTSHKR
Ga0207589_101372	Ga0207589_1013721	F026346	VASIVVETDKKGRCEERRFDNRTGKMVSANYVNCDARLEPERYSTPSENINRERIRAILGAFKK
Ga0207589_101710	Ga0207589_1017101	F001757	MRILKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIAVPADYGLAQYYTEEASGLFRARISRPVSNGTVTVTPLVSRGRPDRPDRTKVV
Ga0207589_101863	Ga0207589_1018632	F000268	MLMRVVAVMLLLSAGVAAEAMSYSFSKASGRLGGPIRFEFYGDSTTLPKTDIKSFTVSLRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMIFPDSFDSMSGE
Ga0207589_101930	Ga0207589_1019301	F048216	MSPSALNPTTEVIKVVCLMSLEEMPRDVKALEERIIEKVQQSGREFYAAVFYAFERRWLQERGGDYTAVRWRTINQVTPFGLIRLPVRVVRERGAQKGGYLSLSKALFKPKATRLLSPWVEKGVLEATTCSNYRPAAAELWRWVRVKVS
Ga0207589_102226	Ga0207589_1022262	F023901	VPLDPKKFGGYEFAINTKGWDAKREPTHNCHDQHKSRLIPTNLENDKAVRLRQTVKDESGKVHQIGEIDYMDGNGFHKVMDIFDSSPNPWMVDRNLYETKSYFWIRNNGSGYITVRDVSLEILS