3300004562: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 27_LOW6 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004562
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111171 | Ga0066507
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 27_LOW6 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 28689644
• Sequencing Scaffolds: 3
• Novel Protein Genes: 3
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas alcaligenes	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?
F001418	Metagenome / Metatranscriptome	698	Y
F014854	Metagenome / Metatranscriptome	259	Y
F053640	Metagenome / Metatranscriptome	141	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066507_100697	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas alcaligenes	691
Ga0066507_163180	Not Available	731
Ga0066507_165318	Not Available	542

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066507_100697	Ga0066507_1006971	F014854	LRWTAVIERKSLVVSRIIPGNWGKVEPGWLARPLLDRIARFGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPNESHRKVDKGSTRTGKITQARQAA*
Ga0066507_163180	Ga0066507_1631801	F001418	LAAEAGFTSSSGSVRALSVNAKKELGDEVRLETAPNRVK*
Ga0066507_165318	Ga0066507_1653181	F053640	VAESTAGIIPGDRGMVGDNWCRPPLQAAKAVERHISPVPLAGVVSGQYTHEVGTERRGAIRNRVEPSQVHGAFRPVRRRSYPRGFWLLLRRPERSHGFRRANPAKRPRSQHERGAQGNRDGGEGAGLAKSVKPPQWGGAKNRVTPLQKRKQP*