3300024894: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 2_LOW4 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300024894
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111066 | Ga0208114
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 2_LOW4 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 144539946
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 2

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Polaromonas → unclassified Polaromonas → Polaromonas sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria	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 → 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?
F055309	Metagenome	139	Y
F063813	Metagenome / Metatranscriptome	129	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208114_1006988	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Polaromonas → unclassified Polaromonas → Polaromonas sp.	2592
Ga0208114_1015973	All Organisms → cellular organisms → Bacteria → Proteobacteria	1485
Ga0208114_1017618	Not Available	1384
Ga0208114_1061593	All Organisms → cellular organisms → Bacteria	546

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208114_1006988	Ga0208114_10069883	F055309	MVTRSCAFSKKWRLLAKDTLGLNRAKPVAKTRLRQIKSAVGPLSDFYLLQYANNVRLPLTVNPLQTLTLPRSQRINPQTRSAPK
Ga0208114_1015973	Ga0208114_10159732	F063813	MSLVQWSQAHGQKLKPTELESNAQSLAKPSPSSKKPSHQFGSRTGSTPIDETKSIERGLS
Ga0208114_1017618	Ga0208114_10176181	F055309	MVTRSCTFLKKWCLLARDKLGLSLANPVAKAHLRQIKSVVGPLSDFYLLQYGNNVRLPLTVNPLQTLTLPRSQRINPQTRSAPK
Ga0208114_1061593	Ga0208114_10615932	F063813	ITKTPINEFLTNEEILPIIHKDALMSLVRWSQAHGQKLKPSECESKFQPLAEPSHPSKKPSDQLGSGTGSAPIDETNSIERGLS