3300004177: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 15_LOW5

Overview

Basic Information

• IMG/M Taxon OID: 3300004177
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111075 | Ga0066411
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 15_LOW5
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 225594198
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	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?
F032328	Metagenome	180	Y
F055534	Metagenome	138	Y
F063813	Metagenome / Metatranscriptome	129	N
F100051	Metagenome / Metatranscriptome	103	Y
F104510	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066411_1000027	All Organisms → cellular organisms → Bacteria → Proteobacteria	22527
Ga0066411_1000045	All Organisms → cellular organisms → Bacteria	18746
Ga0066411_1008503	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1849
Ga0066411_1060117	All Organisms → cellular organisms → Bacteria	667
Ga0066411_1080062	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	573

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066411_1000027	Ga0066411_100002718	F100051	MTQRTPTPVLIEAMFTRLLCAVVGHRYVVERVLNHGARKVGCTRCDKHWAMHDGTRAFLLWDEEFEELYAPGGVLAQSDRDLAK*
Ga0066411_1000045	Ga0066411_100004512	F055534	MRNLMNEEEREASHILDLIRYGGDVPASAITWALWVLGDLEAL*
Ga0066411_1008503	Ga0066411_10085032	F104510	MTLHSDARKLNWSMIGVIIALIVQAAALIFWGGGLNQRVSNLERVVAPLADGTLARLDERTKAMKEQLDRIERESGR*
Ga0066411_1060117	Ga0066411_10601172	F063813	ITPCPYGLLWPLYRVRYPIIKTPINEFLTNEEILPIIHKDALMSLVRWSQAHGQKLKPSECESKFQPLAEPSHPSKKPSDQLGSGTGSAPIDETNSIERGLS*
Ga0066411_1080062	Ga0066411_10800621	F032328	LACIVSVGFAQTGSFDIFTYQAPEFFTKSELPTRIQFHLTNKDGSFCTITLYKSLPAKEDLLKVAMSQWNEQVVKRLAKTDKKPTKTLTGQVLDGWTSALSIGNFYQNKKKCVVMLYTFSNNKTSACAVYAFSDKTFKGPIELFSKNLHLPNQ*