2044078004: Switchgrass soil microbial communities from University of Illinois Energy Farm, Urbana, IL

Overview

Basic Information

• IMG/M Taxon OID: 2044078004
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0045634 | Gp0051612 | Ga0011096
• Sample Name: Switchgrass soil microbial communities from University of Illinois Energy Farm, Urbana, IL
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Illinois, Urbana-Champaign
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 27453735
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → unclassified Actinobacteria → Actinobacteria bacterium 13_1_20CM_3_68_9	1
All Organisms → cellular organisms → Bacteria	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass, Maize And Miscanthus Rhizosphere Microbial Communities From University Of Illinois Energy Farm, Urbana, Il
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Roots → Rhizosphere → Unclassified → Switchgrass, Maize And Miscanthus Rhizosphere → Switchgrass, Maize And Miscanthus Rhizosphere Microbial Communities From University Of Illinois Energy Farm, Urbana, Il

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → rhizosphere → soil
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant rhizosphere

Location Information

• Location: UIUC Energy Farm, Urbana, Illinois 61801
• Coordinates
  • Lat. (^o): 40.109722
  • Long. (^o): -88.204167
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F005762	Metagenome / Metatranscriptome	391	Y
F067313	Metagenome / Metatranscriptome	125	Y
F074717	Metagenome	119	Y
F083039	Metagenome	113	Y
F085494	Metagenome / Metatranscriptome	111	Y
F103523	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
PVR_F548DK201D7VKV	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → unclassified Actinobacteria → Actinobacteria bacterium 13_1_20CM_3_68_9	519
PVR_F548DK201E4KNP	All Organisms → cellular organisms → Bacteria	500
PVR_F548DK201ELCT8	Not Available	501
PVR_F548DK202J4Q45	All Organisms → cellular organisms → Bacteria → Proteobacteria	526
PVR_F5IW0KN14IRN0G	Not Available	517
PVR_F5IW0KN15JBX7N	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
PVR_F548DK201D7VKV	PVR_723810	F085494	MSQENVEVVRRATEAWNRRDWITLSALWRSDGVLDWSRARGPFKGVYRGEGER
PVR_F548DK201E4KNP	PVR_1290680	F083039	GRWTPGLDSKHIINQVKPALDGSSNVAVYALDVSTSATPLVFSSNLAANTFGPFIEITNVDFTTEAPPVLAFDPPRNQAILGHDKPSPFIVPPVIGFVDLISGVFIEKTGLGLGVINGIAVDSEDGILCTDTSFDSAVQFTT
PVR_F548DK201ELCT8	PVR_914820	F103523	MAVGLALIGAAVNRLDLFETLGAETFALAAGFALVLLGVIAIAAYAVVRTIEWANRA
PVR_F548DK202J4Q45	PVR_609180	F005762	TGAFIETLMRADGTPLQFDGLWDLLPQAGGVFFTAGIADEEHGLFGLITEDE
PVR_F5IW0KN14IRN0G	PVR_1407400	F067313	KVKKITYIYNVKRRIQELYQTSDDYGIPSMLDLTLTPKQLTYSRK
PVR_F5IW0KN15JBX7N	PVR_1626370	F074717	MTYKRKSVAMYVTQKWYALTGRIVDAKVEADGDIHLALQDANSHNAGTVSAEIPVGPKWCEIRQVVFGWTTQKFPFAVKTAHALKLASRTSS