3300004572: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 14_LOW5 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004572
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111162 | Ga0066498
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 14_LOW5 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 23263978
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	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?
F001633	Metagenome / Metatranscriptome	660	Y
F006508	Metagenome / Metatranscriptome	371	Y
F053640	Metagenome / Metatranscriptome	141	Y
F082737	Metagenome / Metatranscriptome	113	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066498_100051	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	566
Ga0066498_109295	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	752
Ga0066498_147366	Not Available	530
Ga0066498_159686	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	500
Ga0066498_160603	Not Available	711

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066498_100051	Ga0066498_1000511	F053640	RSAAALKNVTESTAGIIPGDRGMVGDNWCRPPLQAAKVVERHISPVPLAGVVSGQYTHEVGTERRGAIRNRVEPSQAHGAFRPVRRRSYPRGFWLLLRRPERSHGFRRANPAKRPRSQHERGAQGNRDGGEGAGLAKPVKPPQWGGAKNRVTPLQKRKQP*
Ga0066498_109295	Ga0066498_1092951	F001633	TRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVTGRDLLSEASSPGSDAPCRERRAGRGADTPAIFIVSRLHPYHEDGTGFWPAVGPALRV*
Ga0066498_147366	Ga0066498_1473661	F082737	SLQLAPQPACQV*ACHIQPAGRCSRLAPRPRYFSVGASMLSGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLQPASLNRCSPSGLFALPDHSTQSRWPTGNLLPATPDLPSLPTGGRIRYQHQRIIV
Ga0066498_159686	Ga0066498_1596861	F001633	LAFAGGVLPDATLRGMRMSRSHGGTVLAVTGRDLSSEASSPGSDVPCRERRAGRGADTPAIFIVSRRHPYHGDGTGFWPIVGPALRV*
Ga0066498_160603	Ga0066498_1606033	F006508	VVLANAPSKAVADQYQVVKTRSQSYRRVLTWFASRWRNHQPKRAEKPHSKFSVVRRWTALHEAEDPLAVENSVGK