3300027433: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A3w-11 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027433
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072061 | Ga0207618
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A3w-11 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 13408888
• Sequencing Scaffolds: 15
• Novel Protein Genes: 15
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	3
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → PVC group	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
F008734	Metagenome / Metatranscriptome	329	Y
F014274	Metagenome	264	Y
F020731	Metagenome / Metatranscriptome	222	Y
F026346	Metagenome / Metatranscriptome	198	Y
F048216	Metagenome / Metatranscriptome	148	Y
F051273	Metagenome / Metatranscriptome	144	N
F052029	Metagenome	143	Y
F063987	Metagenome / Metatranscriptome	129	N
F064552	Metagenome	128	Y
F072513	Metagenome / Metatranscriptome	121	N
F080416	Metagenome / Metatranscriptome	115	Y
F082926	Metagenome / Metatranscriptome	113	N
F085355	Metagenome / Metatranscriptome	111	Y
F092487	Metagenome / Metatranscriptome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207618_100176	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	1011
Ga0207618_100345	All Organisms → cellular organisms → Bacteria	869
Ga0207618_100487	All Organisms → cellular organisms → Bacteria	801
Ga0207618_100977	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	651
Ga0207618_101049	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	636
Ga0207618_101070	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	632
Ga0207618_101162	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	617
Ga0207618_101296	Not Available	599
Ga0207618_101393	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae	583
Ga0207618_101493	Not Available	570
Ga0207618_101497	Not Available	569
Ga0207618_101536	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	566
Ga0207618_101603	All Organisms → cellular organisms → Bacteria → Proteobacteria	559
Ga0207618_101604	All Organisms → cellular organisms → Bacteria → PVC group	559
Ga0207618_101987	Not Available	524

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207618_100176	Ga0207618_1001761	F072513	VIPNRRWGLDAVGVVVNHIMTAGIAAHAIIVNIMSHTAVIFSAIGYGFSCRYINFQIPP
Ga0207618_100345	Ga0207618_1003452	F052029	LALNFRSILPVDSVAEQEINNTGALSEQFVTIGAASLALLVVAAIAVLIG
Ga0207618_100487	Ga0207618_1004871	F000268	MRVVIVMLLLSAGIAAGAMSYSFVSKASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMTFPDSFDR
Ga0207618_100977	Ga0207618_1009771	F048216	MSPSALNPTTEVIKVVCLMSLEEMPRDVKALEERIIEKVQQSGREFYAAVFYAFQRRWLQERGGDYTAVRWRTIDQVTPFGLIRLPVRVVRERGAQKGGYLSLSKALLKPKATRLLSPWVEKGVLEAATCSNYRPAAAELWRWVRVKVSAWLIWKCVQFHGARLCEQLE
Ga0207618_101049	Ga0207618_1010491	F008734	GQRYAARDGTANLSQEDRHHCFDCVEERGVLRRQSSETTNSLSVFDRIRSILGILSGGALWVLETPWLESESQLVS
Ga0207618_101070	Ga0207618_1010701	F014274	ALQPSVISAGQLIIGGIRSEVQLTVLIAVALLPQPSVAINVLTCEKAQPLDCTAPSVNVTIGVLQAAVAVADPRAAVISEAEGLQPRVTRAGVIIIVGGLGALSQVTVLVIVAELPQPSTAVNILVCEEEQLLVDIAPSVEVILTTLHASVADADPSAAVIADEAGLQPSGTSAYDPVNTGGIRSLVQVTVLEAVAELPQPSTAVNILVL
Ga0207618_101162	Ga0207618_1011622	F063987	MKFVSRTKLTAVPYQIHLHTNEKRELLMCGHSLIARLTIAVFVFQMLGVTSVVHAEGPDSTAGTSSAGTRKLFIGPSSSFVALGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKNEKGS
Ga0207618_101296	Ga0207618_1012962	F085355	MDSLRAALTWIKDLLNWLPEPVVALLILGIAVLLALALHRWASKLVRRTIAGRYPFIFSVFSQTHG
Ga0207618_101393	Ga0207618_1013932	F026346	VRKPIRSGAYGRVASIVVETDKKGRCEERRFDNRTGKMVSANYVNCDARLEPERDTTPSENINRERIRAILGAFKK
Ga0207618_101493	Ga0207618_1014931	F051273	MRRFIPLLILLGLVFGASYASALINRVMGPWSSTAIHQDGSLSHMQFGVDLPRPEWVPVYPGAWVVGGSKITSVEHPAGFHGLDLGTRASLDEVRRFYTEQLTAAGFEVSDLGL
Ga0207618_101497	Ga0207618_1014971	F020731	MPVLAFFAVAGLALIALLFVADAALEKDGSPVIVTSQRSGLPESSHRPDKIPVLTMAPAPDPDMTSKIVRDAQPKPVAQDPMKIHPAARAARAEAMPQTPGVTQPMNDRPPMNYHYRRSQ
Ga0207618_101536	Ga0207618_1015362	F080416	ISTLRTSVGEFVFRQTPVGCYLELSVGNVRWALGLYGANEAAVRALKNGRTGFRTWDALERKTAANQIGTPSRWNKGEQTA
Ga0207618_101603	Ga0207618_1016031	F082926	QANVREASMPDISATEQPEQSHIVTWKVISIGTAIVLVVFLFLWL
Ga0207618_101604	Ga0207618_1016042	F064552	MRTLPLNSIRRFVNTGRILRIAGTLLAALIICSCEEYPEPYGAGAGFYPRAAPAGWWH
Ga0207618_101987	Ga0207618_1019871	F092487	MSKSVTVGTTAFFACILCATPVSLGVSPQGNVSLTH