3300004567: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 9_HOW4 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004567
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111159 | Ga0066495
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 9_HOW4 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 17436489
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas alcaligenes	1
All Organisms → cellular organisms → Eukaryota	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?
F000344	Metagenome / Metatranscriptome	1257	Y
F014854	Metagenome / Metatranscriptome	259	Y
F041780	Metagenome / Metatranscriptome	159	Y
F082737	Metagenome / Metatranscriptome	113	Y
F092248	Metagenome / Metatranscriptome	107	Y
F094695	Metagenome / Metatranscriptome	105	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066495_100524	Not Available	570
Ga0066495_108197	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas alcaligenes	637
Ga0066495_112065	Not Available	584
Ga0066495_143752	Not Available	673
Ga0066495_147461	All Organisms → cellular organisms → Eukaryota	505
Ga0066495_147797	Not Available	550

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066495_100524	Ga0066495_1005241	F082737	*PSLQLAPQPACQV*ACHIQHAGRCPRLAPRPRCFSVGASMLGGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLLPASLNRRSPLGFFAPPDQSARSRWPTGNLLSATPDLPSLPTGGRIRYQHQRIIVPAPLRLCQLAV
Ga0066495_108197	Ga0066495_1081971	F014854	SRMIPGNWGKVESGWLARPLLDRIARFGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPNESHRKVDKGSARTGKITQARQAA*
Ga0066495_112065	Ga0066495_1120652	F000344	MRPKHPPAAESGVGKHTARESERAQSCATGKERVANAHPQIW
Ga0066495_143752	Ga0066495_1437522	F094695	SCSPLQRCQLLDGGISVCSVRDPCFRETWDDVQRFSDESIGSSWVQPSTVRRSPFPVASFRDSLSAVVRRFSRPRHSSLRLTCLLEALPPINRPRMRTREHLSYGFVPYSAQQKQASVSPGASNLRHCPSSGFLTLSTSCSACNPDQFVSPGLRSWGSTKSVYSPPSFDEGRVRRAWVSSPKLSPFP*
Ga0066495_147461	Ga0066495_1474611	F092248	LKLK*IDGGPHKRLSDKVYLTSHSWIKSSHSPEGSPDHSKSVGATGGVYKGQGRNQRSLMTNAY*
Ga0066495_147797	Ga0066495_1477971	F041780	*P*VAACSPTGMHGQNTAF*MTGLNSLCSPRPPFGGSASTLWAQPARHSNRNRNLETAFLLTCGDFPYPELRDKLKRSQPASSISLPCPIRIRSVLNSLPDAFGFRRGHGHKTRFPLAARQSRPILEPPLPFRVSPPPDHNAQSDSDREVYLGKTPDIPLLPERINE*