3300026664: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-ROWE15-C (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026664
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072137 | Ga0207558
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-ROWE15-C (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7295623
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	4
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae	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): 43.42
  • Long. (^o): -89.33
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000268	Metagenome / Metatranscriptome	1411	Y
F001033	Metagenome / Metatranscriptome	799	Y
F001757	Metagenome / Metatranscriptome	641	N
F004468	Metagenome / Metatranscriptome	437	Y
F006680	Metagenome / Metatranscriptome	367	Y
F008758	Metagenome / Metatranscriptome	328	Y
F009373	Metagenome / Metatranscriptome	319	Y
F012827	Metagenome / Metatranscriptome	277	Y
F023668	Metagenome	209	Y
F024436	Metagenome / Metatranscriptome	206	N
F039084	Metagenome / Metatranscriptome	164	Y
F055839	Metagenome / Metatranscriptome	138	Y
F055931	Metagenome / Metatranscriptome	138	Y
F097907	Metagenome	104	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207558_100047	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1383
Ga0207558_100061	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1277
Ga0207558_100120	All Organisms → cellular organisms → Bacteria	1071
Ga0207558_100197	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	936
Ga0207558_100541	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae	701
Ga0207558_100659	All Organisms → cellular organisms → Bacteria	664
Ga0207558_101166	Not Available	570
Ga0207558_101321	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	551
Ga0207558_101334	All Organisms → cellular organisms → Bacteria	549
Ga0207558_101577	All Organisms → cellular organisms → Bacteria	525
Ga0207558_101735	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	511
Ga0207558_101796	All Organisms → cellular organisms → Bacteria	506
Ga0207558_101860	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207558_100047	Ga0207558_1000471	F001033	MKFVSRTKSMAVPHQILGASANEKRELMMCGHSLIARLTIAVFVFQILGVTSVIHAERPDSTAGTSTAGTRKLFINPSSTSVALGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDARIVFNTSYHFGT
Ga0207558_100061	Ga0207558_1000613	F004468	MTTRSRLRVFHFADYESTTISEKALCQLQDREAQERGARDLQKPAAQATPGLIIAVVKY
Ga0207558_100120	Ga0207558_1001201	F000268	MLMRVVAVMLLLSAGIAAEAMSYSFVSNASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMVFPDPFDE
Ga0207558_100197	Ga0207558_1001972	F024436	YSVICAGVLALLQSVQASDLIRIALLFFMTLFSLIGLLTSLRLKGELEECLAKIEAMSVQARVNDFVALGQLEGRSSRYPRFRWIFPIFYAMTTVGFITLIVYRLVTGEAMR
Ga0207558_100541	Ga0207558_1005412	F006680	MKISKFLWSVLVAFAAVALIAPQQVEAIVVDGRIKGQIQFTGSGTVTESTGINSNAINSNGINELEFNGENFPHG
Ga0207558_100659	Ga0207558_1006591	F012827	RATRQFHQSRIDLLAMLDIDANDERFSLSLDPQTIRPARMVVPLRGDHRFDVVDAGEVFAGISNLEELEIGPHAIQLHREIFGLHLDFENLPQIGDCLVAAERQERDFLLRIISRGKERKALDVVPVKVRERDRDLFLLVADGAKVSAQISQSRARVNDGDAVHIGERDLQARRVASELLKTGIADGDGSPRTIKT
Ga0207558_101166	Ga0207558_1011661	F055839	PDLTVEWEHRHHMRVVESMKHLVLASALILAGSTAAKPSDINFGETRTRFQIQNELTAWERLHPWDVDWRHTTLWQHGRALRTEFAPPGCTITRLVTTRSGTRLEELFIC
Ga0207558_101321	Ga0207558_1013211	F008758	TNAAKVWVVYQKNMRKTILLAGSALLLGTTVIAGDFAAEPLEFRNPQQDLFDNLSEMLRETKELQSCSRQQQEALQRFLNMGISYNAAALMAHSQYPCDSTDQ
Ga0207558_101334	Ga0207558_1013342	F055931	QRKIGVVILVNRGRQNATIYGRQIIHALAQDQSEPSSEGEANPDNE
Ga0207558_101577	Ga0207558_1015771	F097907	MRKEKLKANFKKDRSIPNRNTTRPENVSRKEIKQMAHHAPVRRAASKAR
Ga0207558_101577	Ga0207558_1015772	F039084	TADGRVIDASKIRKDSKVQVHYVKDGDDMLIDKVIVTKDRD
Ga0207558_101735	Ga0207558_1017352	F001757	AMMRILKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIPVPDNGLAQYYTEEASGLFRARISQPVSNGAVTVTPLVSRGRPDRPDRTKVV
Ga0207558_101796	Ga0207558_1017961	F009373	MSRTLKAIERHMTQSSKTEVVERSAAKLVGEWQQRGPETLSGRILRKLRLAFAPSQSTKLATANR
Ga0207558_101860	Ga0207558_1018601	F023668	IAQTDANGKSDEQLLRKLIREDNEGKNVIKRTADSIFVSGAFPRPMIGHAVQEALGSRKDRSNESRKGEVVRLVSSQSGDMAEEFGNFTLSFDQPNKKHISFDGSYLRVWRKINGEWLEDAFFARPNEPEEKKKSDT