3300026767: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A1-11 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026767
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072051 | Ga0207469
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A1-11 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 11614497
• Sequencing Scaffolds: 12
• Novel Protein Genes: 12
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Pseudorhodoplanes → unclassified Pseudorhodoplanes → Pseudorhodoplanes sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Archaea	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?
F010126	Metagenome / Metatranscriptome	308	Y
F015505	Metagenome	254	Y
F019338	Metagenome / Metatranscriptome	230	Y
F030160	Metagenome / Metatranscriptome	186	Y
F038480	Metagenome	166	Y
F040398	Metagenome / Metatranscriptome	162	Y
F054151	Metagenome / Metatranscriptome	140	N
F057709	Metagenome	136	Y
F060880	Metagenome / Metatranscriptome	132	N
F067149	Metagenome / Metatranscriptome	126	N
F071715	Metagenome	122	N
F089166	Metagenome / Metatranscriptome	109	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207469_100188	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	988
Ga0207469_100237	Not Available	928
Ga0207469_100392	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Pseudorhodoplanes → unclassified Pseudorhodoplanes → Pseudorhodoplanes sp.	821
Ga0207469_100463	Not Available	788
Ga0207469_100471	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	786
Ga0207469_100580	All Organisms → cellular organisms → Bacteria → Proteobacteria	745
Ga0207469_100723	All Organisms → cellular organisms → Bacteria	700
Ga0207469_100730	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	697
Ga0207469_100844	Not Available	667
Ga0207469_101031	All Organisms → cellular organisms → Archaea	627
Ga0207469_101048	All Organisms → cellular organisms → Bacteria	623
Ga0207469_102145	Not Available	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207469_100188	Ga0207469_1001881	F054151	MRKADQYTLADHFRALADGLSVRAVTERAPAQRAELQRLAECYAELAKQQSPADHFARGVGPR
Ga0207469_100237	Ga0207469_1002371	F030160	MASSGAKLAGTMSEKVEQRVSVSVVAVRAESYSAADDSIVISLRTKYSTAERAYSIPVECLQDLIVGLRQLSYLHPQWRLKKPTGRTESLLPLEPPVAVD
Ga0207469_100392	Ga0207469_1003923	F015505	MGTINDQTREVSSGTYFAHLFKLDADQYQLLSQKPRFHRDCEYLNRPYELSDLMRQASDAGVWPR
Ga0207469_100463	Ga0207469_1004631	F071715	MRKLAIGILAAAGVALSVPASAQGVWIGAGPVGVGVGVGPGYYG
Ga0207469_100471	Ga0207469_1004711	F019338	GSHYGFDADRQWRPIFRLGVLGSMPAMRRTEAVLTAGAVACLAFVSIVYPVFAQDVDPRCKDIFDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK
Ga0207469_100580	Ga0207469_1005802	F038480	MKTVLVSIGLCLAATAVHSMPLSLLNANVAQPVIAVSDQCGDRCGSSRSYVRDRRTVMAGYSGGYVLVRDPLIQRRPYCPF
Ga0207469_100723	Ga0207469_1007231	F040398	GKVLSERRDDLVKFVAAEMDAYKFALANRAETIKVSQEMTHAKPDDKRAEFITDEAIKDKQIDPTLSIPLDRLDWMQNLFLKAGVIKQTVPIESIVDKSVNADAAKIAGK
Ga0207469_100730	Ga0207469_1007301	F067149	MRKTIILAAATLLLACVTVVTGVARTIEGPSANLASLVVSPHTIGGLT
Ga0207469_100844	Ga0207469_1008442	F057709	MPEFDLKVALIIFVTKVIDPFAALPALVAGYFCRTWWQVVISAAVVGIFVEMVLVLFEPTPGIH
Ga0207469_101031	Ga0207469_1010311	F010126	GLISTALLFQIMISSNLVVAIESSESNTNKISSGSELESIVTNGSSTNQLAYRNSQHGIFMLFPSNWTFSDSGLPEYTQVAAFYGPLQNLSDPIPPRLTITVMNYQQNVSLKDFTNMTLSSLNQTNQVKILSSEPTTLAGQPGYQVVFSTLPNIGNPVSFEIMHSWISMGKKIYVLQYSAESSKFDTYLPTIKQILQSLRIDTTR
Ga0207469_101048	Ga0207469_1010481	F060880	MHTSADFRKTQRRRAELHSRSEAMVATIWLVFYVLGIAVAVSSPIISRAIELAAQ
Ga0207469_102145	Ga0207469_1021452	F089166	GYWAMVDALEAERNAAKKSIAVEDPSFTCEPGAEEAEPSSALRVQRTVDEPAP