3300026729: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G09A3-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026729
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072091 | Ga0207500
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G09A3-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 19779906
• Sequencing Scaffolds: 14
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	3
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora lupini → Micromonospora lupini str. Lupac 08	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): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000268	Metagenome / Metatranscriptome	1411	Y
F006329	Metagenome / Metatranscriptome	376	Y
F009747	Metagenome / Metatranscriptome	313	Y
F018199	Metagenome	236	Y
F034564	Metagenome / Metatranscriptome	174	Y
F040398	Metagenome / Metatranscriptome	162	Y
F048418	Metagenome / Metatranscriptome	148	Y
F055066	Metagenome / Metatranscriptome	139	Y
F056934	Metagenome / Metatranscriptome	137	N
F062531	Metagenome	130	N
F067813	Metagenome / Metatranscriptome	125	Y
F069312	Metagenome / Metatranscriptome	124	N
F075479	Metagenome	119	N
F088977	Metagenome / Metatranscriptome	109	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207500_100021	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1744
Ga0207500_100206	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1047
Ga0207500_100630	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	802
Ga0207500_100875	Not Available	744
Ga0207500_101109	All Organisms → cellular organisms → Archaea	706
Ga0207500_101496	Not Available	643
Ga0207500_101624	All Organisms → cellular organisms → Bacteria	630
Ga0207500_102087	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	588
Ga0207500_102107	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	587
Ga0207500_102207	Not Available	578
Ga0207500_102482	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora lupini → Micromonospora lupini str. Lupac 08	560
Ga0207500_102989	All Organisms → cellular organisms → Archaea	531
Ga0207500_102995	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	530
Ga0207500_103476	All Organisms → cellular organisms → Bacteria → Acidobacteria	508

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207500_100021	Ga0207500_1000214	F067813	MSRAEQYMHLAADVRAKAELEDSPIIRAEWENLAETYVRLAEQSEGASNASTYDPIQDMLNRAQPKKKKR
Ga0207500_100206	Ga0207500_1002061	F040398	AGITDAAVVSNEFEAVMPSNIKVLAKGSSAVPNFLRLCVATSGKVLSERRDDLVKFVAAEMDAYKFALANRAETIKVSQEMTHAKPDDKRAEFITDEAIKDKQIDPTLSIPLDRLDWMQNLFLKAGVIKQTVPIESIVDKSVNADAAKIAGK
Ga0207500_100630	Ga0207500_1006302	F048418	MPIHLPPKARVKAVPARRQAAINSIDWLGLWALSLGFCAIVLAGIAYFTIGDNIGASSILMGAAAIIAVI
Ga0207500_100875	Ga0207500_1008751	F006329	MKLELHVADVVDDHKIKMDAMRLKIRKIRKYAIHTEASYHYAIGSIGTLVAVMIAFVVAFKCFR
Ga0207500_101109	Ga0207500_1011091	F062531	WEPSPTNNSTTMIWFQNYTKSIFAITKAPDDLVFPLFIAGPFMTGYLKYKGVLESADRLTFGHSNYGYRYFLNLSSPSKLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLIITQKHKELYAIIFLNPKEKFDSMLNQIQPTLDSIQLSG
Ga0207500_101496	Ga0207500_1014961	F088977	ATSTLQGDLQDGVALAIRYGYVPSSSRMDLPSMNNFGLTAVLPTGTASTVSITGGLSSLSRGGSDAWIIGAGGDLRLTDWAFSQGRSAPHLRVAVNGQLDYSKPRESALIAGSVGLPLSIIRPNRPKQEMQVVPFVTPSFAFGNFNPDDDTGLSHESGARFMIGGGLGLYNRSSSVAVNFGFQYVAVENGQVQLGVVLTLGGR
Ga0207500_101624	Ga0207500_1016241	F000268	VAIMLLLSAGIAAEAVSYSFVSKASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSCGVTFGFDKDGRMIFPDSFDQ
Ga0207500_102087	Ga0207500_1020871	F069312	WMATWKFVAFALKAQRGWKRIPPEQRRQIIESATKQARKHGPIVAKRAVEIARQVRKDR
Ga0207500_102107	Ga0207500_1021071	F056934	AFEGASSVAANLEEANERLALRLARSSFRRIIWRVVQLKDALEKFRDKPEGLEDLVEALTAKFTPENALLLRETIAKHKWLQEVKTAADNYLKKRKNVAQWPSKQLEPELVRAIVDYRSRLHKEDDWLLSRTGMREVVSDFNLIHDYASQTKDLDAQLEVYGSLFLTQAQSAEFKSKSEEEHKAYLESHAADKLE
Ga0207500_102207	Ga0207500_1022072	F034564	DFPRHNGRTQTGGMNRSGRLSGYWYGAVCIAGLGFGLLGERRPFGQGILAHPFIVYAFVVAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFLAGNFIAAHLVGR
Ga0207500_102482	Ga0207500_1024821	F009747	VAAGGFGRPRKVRTPKGRALGKSQAAKADGKWNRKQTAAEAFSGGLGGKGETVG
Ga0207500_102989	Ga0207500_1029892	F075479	EYARAMIRDFIKIQKDILGLPNLTTKQKDDINSLGHELGTLSSQADDDKIKTGLIDMMNRLN
Ga0207500_102995	Ga0207500_1029951	F055066	MLNKQTISVAIVSVLCCAAVQVDAAKPAKGGGGNHIQRGIQLAQEKHYDAAADEFGKAIKDNPKDARAYANRGTAYRQGARTAIAAGDSEGASTRY
Ga0207500_103476	Ga0207500_1034761	F018199	MTRTTVIAVLTVFCGLTLSLNLHAQGDSDVAQQIKQLQQDSRNAQMKNDASWAQQHLADGFMAGNSWGAWETKDDFIKDLQNNTNKWKSGNISDLQVATFGPNVAVSIARTVRGATDVRMPDGIAR