3300004588: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 13_LOW5 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004588
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111161 | Ga0066497
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 13_LOW5 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 48958626
• Sequencing Scaffolds: 7
• Novel Protein Genes: 8
• Associated Families: 6

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 → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	3
Not Available	2
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	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?
F001346	Metagenome / Metatranscriptome	718	Y
F001633	Metagenome / Metatranscriptome	660	Y
F002020	Metagenome / Metatranscriptome	603	Y
F010923	Metagenome / Metatranscriptome	297	Y
F044534	Metagenome / Metatranscriptome	154	Y
F053640	Metagenome / Metatranscriptome	141	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066497_1002964	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	710
Ga0066497_1006819	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	546
Ga0066497_1008098	Not Available	619
Ga0066497_1028672	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	698
Ga0066497_1029254	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	698
Ga0066497_1089425	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	548
Ga0066497_1116597	Not Available	644

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066497_1002964	Ga0066497_10029642	F053640	ESTAGIIPGDRGMVGDNWCRPPLQAAKVVERHISPVPLAGVVSGQYTHEVGTERRGAIRNRVEPSQVHGAFRPVRRRSYPRGFWLLLRRPERSHGFRRANPAKRPRSQHERGAQGNRDGGEGAGLAKPVKPPQWGGAKNRVTPLQKRKQP*
Ga0066497_1006819	Ga0066497_10068191	F001633	LAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV*
Ga0066497_1008098	Ga0066497_10080981	F001346	VKTFQAVGDAKNGTADLWTKRNLRVKRRDPWHRANALSKAAADPALSGEDADQKTQTCLDLVRKPVAQPPAQAC*
Ga0066497_1028672	Ga0066497_10286721	F001633	VLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSATPCRERHARRGADTPAIFIVSRLHRYHGDGTSFWLAVGPALRV*
Ga0066497_1028672	Ga0066497_10286722	F044534	NPGRPGNGWWQLVPPSPPNRVSGMAGIYHQFLWPESCPVSSHTNQELSREARLETAPNGVRPTGRFDPCADAVTPEGFGCYCADQNAVAISGGTTPPKGPARSTSRARKEVTTAGSERT*
Ga0066497_1029254	Ga0066497_10292541	F001633	VLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV*
Ga0066497_1089425	Ga0066497_10894251	F002020	TGMHGIEHCEQKRRTICLSAPRWPFSPAAGSMLPDSPLAAFCPEPVARNGLSLTHNGCHLSAASIPGSKLPACYFASSQVASVPVRPFGSTTANSGLRRFAAASLPVARCTSTSWFGLPRPPSPLPSGTFASLGIKAFNGVCCLPVHLTNSPDFLSLPAARSNESWGVGSSFQVRYVSAGLL
Ga0066497_1116597	Ga0066497_11165972	F010923	DPQPQLSSGRAAGSERKSGGFVRWTGRQQTRLNTLIPRDVKVPEGSGDGRRGRPNRVVEVQRARGSETAATGANRDAVVEPKGRTGTEANLEGSEVAGWEL*