3300026938: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A4-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026938
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0055683 | Ga0207610
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A4-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 19000951
• Sequencing Scaffolds: 17
• Novel Protein Genes: 17
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Archaea	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Craurococcus → environmental samples → uncultured Craurococcus sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → environmental samples → uncultured Phycisphaerae bacterium	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae → Suessiales → Symbiodiniaceae → Symbiodinium → Symbiodinium microadriaticum	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	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): 43.2958
  • Long. (^o): -89.3799
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001604	Metagenome / Metatranscriptome	664	Y
F002315	Metagenome / Metatranscriptome	572	Y
F003705	Metagenome	473	Y
F003758	Metagenome / Metatranscriptome	470	Y
F014051	Metagenome	266	Y
F015418	Metagenome / Metatranscriptome	255	Y
F015492	Metagenome / Metatranscriptome	254	Y
F018801	Metagenome / Metatranscriptome	233	Y
F025757	Metagenome	200	N
F037759	Metagenome / Metatranscriptome	167	N
F039353	Metagenome / Metatranscriptome	164	Y
F045732	Metagenome / Metatranscriptome	152	N
F062126	Metagenome / Metatranscriptome	131	Y
F068551	Metagenome	124	N
F072513	Metagenome / Metatranscriptome	121	N
F075479	Metagenome	119	N
F083399	Metagenome	113	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207610_100196	Not Available	983
Ga0207610_100205	All Organisms → cellular organisms → Archaea	972
Ga0207610_100228	All Organisms → cellular organisms → Bacteria → Proteobacteria	952
Ga0207610_100470	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	805
Ga0207610_100503	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Craurococcus → environmental samples → uncultured Craurococcus sp.	793
Ga0207610_100725	Not Available	732
Ga0207610_101005	All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	673
Ga0207610_101025	All Organisms → cellular organisms → Archaea	670
Ga0207610_101092	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → environmental samples → uncultured Phycisphaerae bacterium	660
Ga0207610_101104	All Organisms → cellular organisms → Bacteria	658
Ga0207610_101564	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	601
Ga0207610_101746	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae → Suessiales → Symbiodiniaceae → Symbiodinium → Symbiodinium microadriaticum	586
Ga0207610_102565	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	527
Ga0207610_102620	Not Available	525
Ga0207610_102831	Not Available	514
Ga0207610_102916	Not Available	510
Ga0207610_103091	All Organisms → cellular organisms → Archaea	502

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207610_100196	Ga0207610_1001962	F002315	MKHVAVLSMAMLATVTFVADKKTYRYTCKGGAFTVTAAVEASGRWSKAEPVVLQIGSEPLQTLTADPDAPDADSFSNKDYEFYALKAFITLTRKSHGVVVKTYNACRVE
Ga0207610_100205	Ga0207610_1002051	F072513	AAHAIIVNIMSHTAVIFSAIGYGLGGRYINFQIPPLK
Ga0207610_100228	Ga0207610_1002282	F037759	LSGAARAQSPELGAPSIGILPPSDILASVSYLGLDPSGEPVRRGAYYMLHAFDRAGIELLVVVDAQFGDVLFMAPALNTSLTPPYTRAARIIQVAPESGDQQKR
Ga0207610_100470	Ga0207610_1004701	F083399	MVEESAVSGDARPWGFFATFVLGAIALLAGQLAGMAALVGWYDFDLRNVPVLSQHGGAIILFIFVSAPVQVAILALAAGYKGNIADYLGYKLPRRGEVVLCLAILAAMIAIGDAMSWLAGRSVVDRFQTDIY
Ga0207610_100503	Ga0207610_1005031	F003758	LRAFENAEDEVLTNTLKGAPRLNVPSLFRPQFMEAVQKEHPEYFADLPRLK
Ga0207610_100725	Ga0207610_1007251	F014051	KALKDFLDIAFWAVKDDGLPRNKLEATASLMKKIGAIKPDKEPVTFENLVDPSVWKDANAMVR
Ga0207610_101005	Ga0207610_1010052	F015492	REVMAMRHQIWVFAAAMLALICAGLQSEARAQVFDFGQIEEFESLGSGTQKGGSPPKTIIDDGARHTVLFTILESNTEAKIYWKSKDGSQTTIVRGQGLRAFQTIGEFRIEAAGDDSRSFRYGYVLFRLKSEKSAQEDKI
Ga0207610_101025	Ga0207610_1010252	F068551	IRKMQLGVIVIFIFVILGIVFFIVFGIGYFKTENPQNENLQNRSTAVFPNPDSIPPECKYTPNDLLCQFQLEKQKMKLSQNE
Ga0207610_101092	Ga0207610_1010922	F025757	WSFATRAPMSYSTSISLFWLEMAVLIGCVVLSIRMRSRAAMWVALAIVAHCAVWLAIHDEEILIRLVASALVYLGLLKFSPNAARVWLCAGGALAGAFLLGTMALSLLMSFPGRWSVFGLSMGATLLFLTSGLLIGFWVVYRWTDPTQLGDTQPRQEA
Ga0207610_101104	Ga0207610_1011042	F062126	LNTLGYQPRESRNEAGVEYEIVLRAADTRAITTRVTLSKDGALVWLVAWLKRVPTNRTISGNAVLGMLIENDAIGPTHFSYNERVRWFFLNSPVINQDLTPDRLRGEIDHVALIAARTEPLWDFERWR
Ga0207610_101564	Ga0207610_1015641	F039353	KSREQPLPTTAVVGFKSAGAAKDRSLAANIDADRALISFKEMPITQVEANHNALKVARGEIGGLAVEAATLINDFEGRQNPALLDIVEFDGFIWEPDRNRGH
Ga0207610_101746	Ga0207610_1017462	F018801	MGLTILSIPFIALGVFLKPYALENSRCIGFAGLGPYCFEQASSMPEVIKYGSVAVGFAFLYGG
Ga0207610_102565	Ga0207610_1025651	F003705	RISNHPFAQAALDSDVPVEAYIAALGTLDDQLDLNLYLSHLHQARDEIVRTALRLISGDRARHVAFAWAFLGSRVPALDARGRTAVIEAVRDVLANVILAGYRSTWLLPEKSREPWLAAEEETARQGLGASTQVQERSVLRATIAQVRERFAAWKLELPRIDHPEIGTI
Ga0207610_102620	Ga0207610_1026202	F001604	MTDILDNAPVSGEEPTLIVRKASHAPIWSVWAVLEGTPSEEIFEGSSEEDASSWINTGGRSWLEERRRKRNA
Ga0207610_102831	Ga0207610_1028311	F045732	RRRRVFIDTHKGRVSAGFTVAAEADAADVSMRLRERGWIAYRLRLEAEQYAWIATVIDWARRAA
Ga0207610_102916	Ga0207610_1029161	F015418	MSIVSRRTFTKGLLASALVPGTSAFGQPNDPASIAIIDTPQNAAKVAAKLAAQNVKVVVRFFARKPQPGLREKVMASD
Ga0207610_103091	Ga0207610_1030912	F075479	MVDINSEYARAMIRDFIKIQKDILGLPNLTTKQKDDINSLGHELGTLSSQADDDKIKTGL