3300004589: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 2_LOW4 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004589
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111154 | Ga0066490
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 2_LOW4 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 45959441
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	1
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
F004925	Metagenome / Metatranscriptome	418	Y
F010923	Metagenome / Metatranscriptome	297	Y
F042356	Metagenome / Metatranscriptome	158	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066490_1004058	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	539
Ga0066490_1007470	All Organisms → cellular organisms → Bacteria → Proteobacteria	895
Ga0066490_1010067	Not Available	530
Ga0066490_1011064	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	503
Ga0066490_1014420	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	754

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066490_1004058	Ga0066490_10040581	F001633	ALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV*
Ga0066490_1007470	Ga0066490_10074701	F042356	VHQHGASDSGGFDQPFETAQRKPSKGGQRERTTREGHDGSAGRVKNFRAPAMLKTTPLACEQKAT*
Ga0066490_1010067	Ga0066490_10100671	F004925	LVVSRMIPGNWGKVESGWLARPLLNRIARSGSGGRIHQFLWPRSRAVSNAKKELGNEE*
Ga0066490_1011064	Ga0066490_10110642	F010923	PQLSLERAAGSERKSGEFVRWTGRQQTPLNALIPREAKVPEGSGDGGRGRPNQEVEVQRATGSEAAANRRNPEFAVVEPKGRTGTEATWEEAK*
Ga0066490_1014420	Ga0066490_10144201	F001633	AGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV*