3300005266: Switchgrass rhizosphere microbial communities from Rose Lake, Michigan, USA - BV2.2

Overview

Basic Information

• IMG/M Taxon OID: 3300005266
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0045398 | Gp0051776 | Ga0065702
• Sample Name: Switchgrass rhizosphere microbial communities from Rose Lake, Michigan, USA - BV2.2
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 9288316
• Sequencing Scaffolds: 7
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
Not Available	2
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass Rhizosphere Microbial Communities From Michigan, Usa
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: Central Sands area of central Wisconsin.
• Coordinates
  • Lat. (^o): 44.166906
  • Long. (^o): -89.649965
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000283	Metagenome / Metatranscriptome	1379	Y
F004481	Metagenome / Metatranscriptome	436	Y
F004536	Metagenome / Metatranscriptome	434	Y
F023731	Metagenome / Metatranscriptome	209	N
F035042	Metagenome / Metatranscriptome	173	Y
F036949	Metagenome / Metatranscriptome	169	Y
F068675	Metagenome	124	Y
F069416	Metagenome	124	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0065702_100034	All Organisms → cellular organisms → Bacteria → Proteobacteria	1144
Ga0065702_100555	Not Available	778
Ga0065702_100698	All Organisms → cellular organisms → Bacteria	645
Ga0065702_100745	All Organisms → cellular organisms → Bacteria	603
Ga0065702_100889	Not Available	566
Ga0065702_101046	All Organisms → cellular organisms → Bacteria	516
Ga0065702_101153	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	508

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0065702_100034	Ga0065702_1000342	F004536	MAARIEIKELGNPAHQKKITDAVAALDGVIETKIEKGALHVSYDPLATTEKKIEQAVRSTGTTIKAAATDTEDAHLDLPPQINVGQAPAKNAHDGEHS*
Ga0065702_100555	Ga0065702_1005552	F035042	MKNKPDSADSSLSETMAARIEIKELGNPAHQKKITDAVAGLDGVIETKIEKGALHVSYDPLATTEKKIEQAIRST
Ga0065702_100698	Ga0065702_1006982	F000283	MNSTLVSRNVFLCAAAILIASCGTATFTKTGSDATIESLRSFHLAFIDQFAVPGKKFNATAFNAKVNEGNAKFQQAIADEKFTARRPVLVDLKAQFDADAAHLKSKASHGKVTPALASEMKKDVNKIYDHALGR*
Ga0065702_100745	Ga0065702_1007451	F069416	VQRITHVLREPLGPLLLGLEVLLREESLSPRGVEMIGVLQRGVKKEADAIEELLRSTELFEKDAAR*
Ga0065702_100757	Ga0065702_1007571	F036949	GLGVSSFRADFDFFFAVFGFGVGVWRRFAFGAGDFFGFGVDAECAPVSSD*
Ga0065702_100889	Ga0065702_1008891	F023731	PIVGPLHFVFNVLAPRFHTDEPSTMTVNHRMAGSILYLEDLKLVSEHAHVQAGGNIDLAHESTQLNARGGLRKLPGLITVLFTSLLEFKGEGPVDNVRWSIKGFPGFHPVVNAPKKTTRTADAAEKEADRAVKGLIELPGKVLEDK*
Ga0065702_101046	Ga0065702_1010462	F068675	MTIRTSLRDYACTALALLTVLSSRSIALSQQEKEIDIWNAAPSDLTFAVTQVPPVATVTQVAPEDSALTSTEQGHTTLEESFDYREWRLE
Ga0065702_101153	Ga0065702_1011531	F004481	MFVIAAFLLFANAPFAFAKPQKKPAAPAQENADPLVNAAMKNMETGVWSVNGTVTAKKPIKLQGLLSGEDFDLTMEPGVNPNTPMREIVIKNKAWICSDGETWHAGQPNDRLIYNWAHVPIMADRKLPPFEKVGSEQRNGQTLLHVRLK