3300026748: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05K1-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026748
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091545 | Ga0207575
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05K1-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 21265268
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	1
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3843	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	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?
F001436	Metagenome / Metatranscriptome	695	Y
F003059	Metagenome / Metatranscriptome	510	Y
F012397	Metagenome	281	Y
F019338	Metagenome / Metatranscriptome	230	Y
F039759	Metagenome	163	Y
F042319	Metagenome / Metatranscriptome	158	Y
F064047	Metagenome / Metatranscriptome	129	Y
F067149	Metagenome / Metatranscriptome	126	N
F098876	Metagenome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207575_100118	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1344
Ga0207575_100704	All Organisms → cellular organisms → Bacteria	857
Ga0207575_100800	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	831
Ga0207575_100860	Not Available	814
Ga0207575_101492	All Organisms → cellular organisms → Archaea	705
Ga0207575_101881	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3843	658
Ga0207575_102272	All Organisms → cellular organisms → Archaea	620
Ga0207575_102330	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	616

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207575_100118	Ga0207575_1001181	F067149	MRKTIILAAATLLLACVTVVTGVARTIEGPSANLASLVVSPHTIGGLTAR
Ga0207575_100118	Ga0207575_1001183	F042319	MTDITYQTATAGIACPSALLSRIAAWCTHFAEGIREGREIAARYHALSRLSTPELARRGLNRQTIARAALTSY
Ga0207575_100704	Ga0207575_1007041	F001436	CDRHHIWSRTDSPTVRWGMKRDKDIVALIELLKLAAEQWPHANCEISQTDLFHRNQSLLEMWPEACRRAGVGGRDFPSGVIKLWKQGAGRVN
Ga0207575_100800	Ga0207575_1008002	F019338	GFDADRQWRPIFRLGVLGSMPAMRRTEAVLTAGAVACLAFVSIVYPVFAQDVDPRCKDIFDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK
Ga0207575_100860	Ga0207575_1008601	F039759	FLPGHRSQDVTLWEGAVFALSSLLFVAASMAPFYGIRRVQNAFQSTFATQVQQVCPAQPPEAMIACWAQFYPWSRVAIDLGAPIVIAVICLVLANRLRHFGRQHFINRLAELKVLPAASTLFLRAFRDDQVRIRRASRNLFSSVFDLGRVPATLDELMLERLDGRGDLIAIGNPQDRKGAARQSPWGAQRLYVDDAHWQETVTMLARDADRIVLCIDASDGVRWEIAHVLQSGHAGKTLFFLNPSTDVQTRKRQLQEDFGVSAADLASIDV
Ga0207575_101492	Ga0207575_1014921	F012397	VRWNRILILIVLVTTLSLLSGPSFSFSEIKIEINVTPPLNWEPSPTNNSTTMIWFQNSTKSIFAIIRAPDDLVFPLFIAGPFMTGYLKYKGVLESADRLTFGHSNYGYRYFLNLSSPSKLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLILTQKHNE
Ga0207575_101881	Ga0207575_1018812	F064047	MTLMKSSRAGLFALAFGILMCLFLSVAHDVAYAQAQ
Ga0207575_102272	Ga0207575_1022721	F098876	VNIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDNELITEEFVKERLIRLIKSCFDKDWQSFYS
Ga0207575_102330	Ga0207575_1023301	F003059	MVRAGIAAGMLAGAAIVMAAMPAAAQVRDAVYRGTLICDKLPFSAGKGREAIEVTIAGGTVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKSGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK