3300004573: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 22_HOW5 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004573
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111168 | Ga0066504
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 22_HOW5 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 28403471
• Sequencing Scaffolds: 3
• Novel Protein Genes: 3
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Citrobacter → Citrobacter amalonaticus	1
Not Available	2

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?
F041780	Metagenome / Metatranscriptome	159	Y
F054591	Metagenome / Metatranscriptome	139	Y
F082737	Metagenome / Metatranscriptome	113	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066504_139722	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Citrobacter → Citrobacter amalonaticus	596
Ga0066504_155035	Not Available	534
Ga0066504_156179	Not Available	553

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066504_139722	Ga0066504_1397221	F054591	LLAVVVLIALVSNAYAGDFNATVSYDHNSAVSYANSHCGTNGEWLCAEFVAHALHAGGEFPGVSDYGNYNGYNLRLVSDLHKALLKAGWTASSSGNWCGSAGQVLIYNLNGDPNAHAALAIGNCLLDQHNPSRCGTAANWGTNIVLKK*
Ga0066504_155035	Ga0066504_1550351	F041780	*VAACSPTGMHGQNTAF*MTGLNSLCSPRPPFGGSASTLWAQPARHSNRNRNLETAFLLTCGDFPYPELRDKLKRSQPASSISLPCPIRIRSVLNSLPDAFGFRRGHGHKTRFPLAARQSRPILEPPLPFRVSPPPDHNAQSDSDREVYLDRMPDISSLPERNISTSRSTFRARYIL
Ga0066504_156179	Ga0066504_1561791	F082737	SLQLAPQPACQV*ACHIQHAGRCPRLAPRPRCFSVGASMLGGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLLPASLNRRSPLGFFAPPDQSARSRWPTGNLLSATPDLPSLPTGGRIRYQHQRIIVPAPLRLCQ