3300026749: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G07K1-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026749
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091547 | Ga0207452
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G07K1-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 21600752
• Sequencing Scaffolds: 8
• Novel Protein Genes: 10
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	2
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
Not Available	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?
F003059	Metagenome / Metatranscriptome	510	Y
F023865	Metagenome / Metatranscriptome	208	Y
F025522	Metagenome / Metatranscriptome	201	Y
F027009	Metagenome / Metatranscriptome	196	Y
F045778	Metagenome / Metatranscriptome	152	Y
F054450	Metagenome / Metatranscriptome	140	Y
F055942	Metagenome / Metatranscriptome	138	Y
F061030	Metagenome / Metatranscriptome	132	Y
F068970	Metagenome	124	N
F103537	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207452_100056	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1274
Ga0207452_101542	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	619
Ga0207452_101578	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	615
Ga0207452_101972	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	582
Ga0207452_102170	All Organisms → cellular organisms → Archaea	569
Ga0207452_103016	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	522
Ga0207452_103282	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	511
Ga0207452_103526	Not Available	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207452_100056	Ga0207452_1000562	F027009	MVASKMEADIIAEYFKKSKQNLQSEHDSMIQDLKQDISSYKKKALSDV
Ga0207452_101542	Ga0207452_1015421	F061030	IPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK
Ga0207452_101578	Ga0207452_1015781	F055942	PVDARYLAGQGGVRLVIACNHKSAILLELLDHGIGDQDFDARHQRAILERGHRNAVNVPEIVRLYRPDVISKATGDREAKDCRK
Ga0207452_101972	Ga0207452_1019721	F023865	DVDPGATPAGLAQVRFLDQLYNGQIERAYASLHPAYQRVVPRSRFVECTRRGALGGLDSIEVLDVYDDPVQIPGGGKAGAKAVRVRLTSSDGQATTFVNHEVKVGPRWRWVLNDAALKAFQAGKCPST
Ga0207452_101972	Ga0207452_1019722	F025522	MSTAQTYEVKCPHCKKSFKAELLGGGERTGFKCPHCRLFVPYERAATEQAR
Ga0207452_102039	Ga0207452_1020392	F103537	VFAFAAIEYEFLLTVSGQIKHELLKMNEAKFIDIVQWRYTEVAQQAAKFVTLNKAFINCFKIIHKLSQQIFNIILATKFSR
Ga0207452_102170	Ga0207452_1021702	F054450	FFNGNNPHSNKHRPTPTLRPVNISKEQLRDFRKLLSDPRTSQKIKKRFMLEKASGYCSVW
Ga0207452_103016	Ga0207452_1030161	F003059	AIVMAAMPAAAQVRDAVYRGTLICDKLPFSAGKGREAIEVTIAGGTVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK
Ga0207452_103282	Ga0207452_1032822	F045778	MPLARVVTFEGVDRARIDQLREQIETGEQPEGLNATEIIVLHDGGADKSLTVVFFDNEDDYVRGNEILDSMPRDDTPGERTSVSKYDVAIRMAD
Ga0207452_103526	Ga0207452_1035261	F068970	NIPAFGKYFEDIKVYSDVYTGGGNSSKPINQFDPVNKEIYVGQTIKWSNPTAGAPYPHIVVFVSNQSAELESKISNITKPLHSSNGQSVVGNLNKLLIEDNNHNNKSNQTFSARSIVLPSIINTSSLAVKYLNVNGSGIYSGAGYNFTGNERYVSSGLIWAGGVIP