3300026697: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G09A4-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026697
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072093 | Ga0207569
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G09A4-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 14171299
• Sequencing Scaffolds: 10
• Novel Protein Genes: 12
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	2
Not Available	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	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): 43.3
  • Long. (^o): -89.38
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001663	Metagenome / Metatranscriptome	655	Y
F004285	Metagenome / Metatranscriptome	445	Y
F009969	Metagenome / Metatranscriptome	310	Y
F022675	Metagenome / Metatranscriptome	213	Y
F029268	Metagenome / Metatranscriptome	189	Y
F045182	Metagenome / Metatranscriptome	153	N
F068551	Metagenome	124	N
F071766	Metagenome	122	Y
F072316	Metagenome / Metatranscriptome	121	N
F084031	Metagenome / Metatranscriptome	112	Y
F086321	Metagenome	111	N
F095640	Metagenome / Metatranscriptome	105	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207569_100292	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	871
Ga0207569_100573	Not Available	740
Ga0207569_100673	Not Available	711
Ga0207569_101176	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	620
Ga0207569_101396	Not Available	596
Ga0207569_101431	Not Available	593
Ga0207569_101516	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	584
Ga0207569_101587	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	576
Ga0207569_101594	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	575
Ga0207569_102222	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	529

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207569_100292	Ga0207569_1002922	F022675	MRSNRRRNWFIKRIALGLAIAAVAAPVAQAKTDEGSSVQVNGYQAFVTDFPPSQLNASDYGMPRAMPVDYAVNRGDQIEVVRALPSGSPSDKIEFVRTQPRSIGEPQVVAAGFDWSDGAIGAGLALGLVLLGWGAALATR
Ga0207569_100573	Ga0207569_1005731	F086321	MNPSKKEIYKILERFTSQKGGILFILHKSFSSDSKPPQEQTSVVRDDERKSAIFEINFGTVAGLSMLCECEKALADQVMSLDFLDSGIEGDVIWFGGMLDKSGSEFIGSTYDDGLKSAPVEQSE
Ga0207569_100673	Ga0207569_1006731	F004285	MSLSWISNRSMRVSPRARLVDDGAAEALRRKLEAIEWRPQNGFLKDQIVERDELVSVR
Ga0207569_100907	Ga0207569_1009071	F029268	MKRSIRLALLVCASFVGLAFAGPALAAYNPSLTIEQTSYKLGAPATADVFIAIGQDDDPTAKFTIFSPAGYSSNLT
Ga0207569_101176	Ga0207569_1011761	F072316	SFATSLLLVLAVGLLIVSTSYRAIVLRNHEDTAHQQVGADWNVQIAVPDDPLVAASSVPPNSVAVIRSQPVFELPGSFTLSPSVIAVDPERFATGGWWRSDYSQTPLETWLQDIEVPDPAVPVSGESFSATVTAGAPAEGLQLQVTYETADDHVRTATAGTIEQGTKTYEANLDGADAILSITFLEEGTAEVPDSFALELRDVTAG
Ga0207569_101396	Ga0207569_1013961	F071766	MDEDFITLEVEEEGRGRLQFELPLDITDEEIAYIKSLVPRAESGLLELLDPDTGEVV
Ga0207569_101431	Ga0207569_1014311	F068551	MQLGVIVIFIFVILGIVFFIVFGIGYFKTENPQNENLQNRSAAVFPNPDSIPPECKYTPNDLLCQFQLEKQKMKLSQNE
Ga0207569_101516	Ga0207569_1015161	F009969	ILVQTTRSIRALIGVATEGAPADEIDLAYHALLDQCGAAEREALRAPPDPIARFDARAAAVLSVAYRPVLDVLCSGRSLRSEDVELAQKSSGWLNLAYEALLDGDHDTVERCLEMASAFVAADEDTRDAAPPA
Ga0207569_101587	Ga0207569_1015872	F045182	ASREMLHSAKYQDNPVIQKRMDVLKFLDSVWTKGVPLYYWDGKELNQHIGLYHNENLAGWMLAMRNIKGMKSDAVVDEAAAQVRKKMRRAG
Ga0207569_101594	Ga0207569_1015942	F095640	MKRALLAASVFALALPTQAFARGEFDPTTEFEQHEWVSIHLGPLDLSI
Ga0207569_102222	Ga0207569_1022221	F084031	LIRFVVSRVLQSLVALAILSVVVFILARATGDPLQLIL
Ga0207569_102222	Ga0207569_1022222	F001663	IKTKLIPVDYPAFRKNWVDRKTPGSVGYFNIANRDWMGTFALLEKQAYSPSKPTDTVNDPEVDGMLAQVMKQTDREKINALMRGVYTRIRSEHLGMPIVYLHSPYAASKKLGKWNPGSVMYDLFFDELASGK