3300004178: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 14_LOW5

Overview

Basic Information

• IMG/M Taxon OID: 3300004178
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111074 | Ga0066410
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 14_LOW5
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 223726592
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Sphingobacteriia → Sphingobacteriales	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater lake biome → freshwater lake → lake sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Sediment (non-saline)

Location Information

• Location: USA: Lake Washington, Seattle, Washington
• Coordinates
  • Lat. (^o): 48.3807
  • Long. (^o): -122.1599
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001089	Metagenome / Metatranscriptome	781	Y
F010093	Metagenome	308	Y
F021521	Metagenome / Metatranscriptome	218	Y
F097602	Metagenome / Metatranscriptome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066410_1015738	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae	1178
Ga0066410_1020810	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1023
Ga0066410_1022037	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Sphingobacteriia → Sphingobacteriales	995
Ga0066410_1091256	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066410_1015738	Ga0066410_10157382	F001089	VTPAESGYVLQLASLSLSFVGFSALVVTLRGALGGDLSDRHLRLVRRYIEGGLLVTALALVPTLLNLLHIPDTVTWALSSAATALIFSFVLLIQFRRRRTVEAGRFPPWTIIVYAVSIVVIVGLWLNVAGIPFPPSVGPYAVALTWAICVFGFIFVRTIELFLHREV*
Ga0066410_1020810	Ga0066410_10208102	F097602	GRSNCDSLSPKRSSNADVMNRGSTDEAVVVVKVGADEFMVTWGRVKHRNSNRMLEAKGGTCKRPWPLIKDRRVEISQTGAVDYSRREQ*
Ga0066410_1022037	Ga0066410_10220372	F021521	VIATDPTPFAKKEKMAGYSHRTAQPPILAVFLPWGVSAGAGRMRPAAAKVRFEN*
Ga0066410_1091256	Ga0066410_10912561	F010093	RITNFAQYRNQEFEKKYYTDLFIPAIYKAYDLTCQLNLDTSNHSDPFKMEKITVHHDVLSGNDALLFRNNMGAALALRIERLNRSLDAFSDARAACVEMEKLIMKKLGVKSTS*