3300027475: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06.2A5a-11 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027475
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091567 | Ga0207607
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06.2A5a-11 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 22492033
• Sequencing Scaffolds: 12
• Novel Protein Genes: 12
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	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?
F000391	Metagenome / Metatranscriptome	1196	Y
F001033	Metagenome / Metatranscriptome	799	Y
F001757	Metagenome / Metatranscriptome	641	N
F002305	Metagenome / Metatranscriptome	573	Y
F022101	Metagenome / Metatranscriptome	216	Y
F032646	Metagenome / Metatranscriptome	179	Y
F055706	Metagenome / Metatranscriptome	138	N
F057485	Metagenome	136	Y
F070276	Metagenome / Metatranscriptome	123	Y
F080568	Metagenome / Metatranscriptome	115	Y
F097305	Metagenome / Metatranscriptome	104	N
F097785	Metagenome / Metatranscriptome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207607_100028	Not Available	1404
Ga0207607_100170	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	973
Ga0207607_100250	Not Available	911
Ga0207607_100558	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	777
Ga0207607_100833	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	715
Ga0207607_101151	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	665
Ga0207607_101648	All Organisms → cellular organisms → Bacteria	613
Ga0207607_102515	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	555
Ga0207607_103191	All Organisms → cellular organisms → Bacteria → Acidobacteria	522
Ga0207607_103443	Not Available	513
Ga0207607_103587	Not Available	507
Ga0207607_103699	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	502

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207607_100028	Ga0207607_1000281	F080568	SGQGLRRHHIPVGSLPMAATPSIKVVKSFTYRGQTRLFSNRYHFNGGLPPDSAHWTTLSDAIVTAEKAIYFAPQIVHTYGYAAGSEVPIFSKAYTTAGTLALGTQERCPGDCAGLIRYATTARTSKNHPVYLFNYYHGVVAVGASFDDVGAVQASAYSTYAGLWIAGFSDGATTYNRAGPNGASAVGSLVEPYITHRDLPR
Ga0207607_100170	Ga0207607_1001702	F097785	VAAGGFGRPRKVRTPQGRTLGKPQAAKADGKWHRKETAGSDSPETLKVRVKRWGKSPPASWRHGG
Ga0207607_100250	Ga0207607_1002501	F070276	ILPTSSAKAADLRKFVYWAVTQGQKFAPPLFFVPLPTSVKAYAYRELAKVKVAA
Ga0207607_100558	Ga0207607_1005582	F000391	MNPETQPSESPYCVRIETETGQSATVPIAVLTPKQLEIFLQTEFQRLAQEAGVKGARVHVERAVAADYEQVIRELAACLRSAKVSAA
Ga0207607_100833	Ga0207607_1008331	F001033	FMKFVSRTKSMAVPHQILGASTNEKRELMMCGPSLIVRLTIAVFVFLMLGVTSVVHAERPDSMAGTSNAGTRKLFINPSSTSVALGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDAKIVFNTSYHFGT
Ga0207607_101151	Ga0207607_1011512	F001757	EFDKPCQLSSACTTKGKAMMRVLKPLQDRATTGAGKRLVLPEPRRVRFLIRGEGRVSAGAVTIECCPESTKAGKFWMELATIPVPDNGIAQYYTEEASGLFRARISQPVSNGAVTVTPLVSRGRPDRPDRTKVV
Ga0207607_101648	Ga0207607_1016481	F022101	NGVALEAIADRGLATALERAELAESPASRGAVVISIWFDPADGGNPRHIVTYERAVE
Ga0207607_102515	Ga0207607_1025151	F032646	AVPVGWAAPSPAGTLSIENGRGTVVLTGKGIVIGRLDKGDVKIVDLSPLDQWSPRVNGVPRGKTVWLRGKDVNFYVPGGRYKITVRGDGFSISARGQGNVTLTGNPDPTGATGTYAIGDGGPLAIPSVAETVSFGAAAVEGPTTKAVAP
Ga0207607_103191	Ga0207607_1031911	F002305	MAFTKTQIGIAAGAGVLLVMVFVGYLWWLSNQGPVLARSEDHDPLTGLPVSIRMNPLRDRSTEKGANKFLRELRDGHCDDVLQKWEHDYHRKYAKYICSSEAQHPLLSWQ
Ga0207607_103443	Ga0207607_1034431	F057485	SLAMLNAIYLEHALRRTPLRPLRGAVVSVLNRLARWVDARSPMLRGTRPGTLAGNYHVVAERSA
Ga0207607_103587	Ga0207607_1035872	F097305	NATAMENEKSGKDKKSDSRSQRLAAELRENLRRRKAQVRGRKAPAAGEGTKRPGLPPRGG
Ga0207607_103699	Ga0207607_1036991	F055706	AVRQTPMQNESLPDWMRPQGSMLSVCPETGCARLTMGGTCVEHDPPATVAFVRGRPYVAEAAADAVRVPIVG