3300001321: Bioengineered switchgrass rhizosphere microbial community from Knoxville, Tennessee, USA - 15 Joint

Overview

Basic Information

• IMG/M Taxon OID: 3300001321
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0090446 | Gp0059788 | Ga0012385
• Sample Name: Bioengineered switchgrass rhizosphere microbial community from Knoxville, Tennessee, USA - 15 Joint
• Sequencing Status: Permanent Draft
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 17265362
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Bioengineered Switchgrass Rhizosphere Microbial Community From Knoxville, Tennessee, Usa
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass Rhizosphere → Bioengineered Switchgrass Rhizosphere Microbial Community From Knoxville, Tennessee, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: Knoxville, Tennessee, USA
• Coordinates
  • Lat. (^o): 35.98
  • Long. (^o): -83.92
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000573	Metagenome / Metatranscriptome	1016	Y
F001790	Metagenome / Metatranscriptome	633	Y
F013354	Metagenome	272	Y
F028907	Metagenome / Metatranscriptome	190	Y
F030963	Metagenome / Metatranscriptome	183	Y
F049869	Metagenome	146	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Microbial15j_103070	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	606
Microbial15j_105141	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	641
Microbial15j_109670	All Organisms → cellular organisms → Bacteria	760
Microbial15j_121021	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum	537
Microbial15j_134876	All Organisms → cellular organisms → Bacteria	615
Microbial15j_140591	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
Microbial15j_103070	Microbial15j_1030701	F013354	FRELAKKAEGARLDEIRQTVARLQTDNEKIDLLIQIAGDTQKTNEKLAVQVLDEARQIVNHRATNYQQFEQQLKVAHAFADVDAARAFEVLEPGIGQLNELLQAASTLSGFEINMFRDGEMAIQGGNGLTATVNRYGQELAVLAKNDFERAETLTGRFQFTEPRIMTRLAIVQGLLNAKPVSGGTRIITGGFSETVVTRP*
Microbial15j_105141	Microbial15j_1051411	F000573	RLVVSIGIGGAAYAIMLGIMVLSIVYDRELEPVVTFAFDTGRGIIGAIDSLVSGSHWGQVAANHLRERVNMTHVVLSIPAIIIAAIVIGIPFNYLLGGTRTALQRIAIALISVPATVGLAVGLFTFNALLPEAYAVLLRFADLVWHASWNALSSSGDWLPGARKLTNAARQGFSGHHYVIMALCSMAASFLVNALFAFVSRPAPAGIAQPRCD
Microbial15j_109670	Microbial15j_1096702	F028907	FNVEIGTALLRFNEEAVLYCRGISDAAAHEYAMDYARMLRSRAKGLEFERTHFSGHLLEPDRNLIEGTLDRMYRKYFGTYRVASKLL*
Microbial15j_121021	Microbial15j_1210211	F030963	LGEAGTGFLIIRLVITFLFLVKTRGATLAGVCLHLEAD*
Microbial15j_134876	Microbial15j_1348762	F001790	VPPLRFAGCSMPSYDRALWALRTWLDSWPGIGHVAVGMHRQGYDLQL
Microbial15j_140591	Microbial15j_1405911	F049869	SFTCQFASTTARDIPVALPVFLNHFDPDTGTLIISSPAVMKRVENVRQRPKVAILFSPVGTEPGEPKHVLLVQGLAEVDDTNLMSGWKRYFAGWARRQPSARESLARMEQVVPGYTQRALIRVRPTRFLGWPDGNFQQSPEVVEVNQ*