3300004587: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 4_LOW4 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004587
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111156 | Ga0066492
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 4_LOW4 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 41335246
• Sequencing Scaffolds: 10
• Novel Protein Genes: 11
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	7
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	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	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?
F001418	Metagenome / Metatranscriptome	698	Y
F001633	Metagenome / Metatranscriptome	660	Y
F009335	Metagenome / Metatranscriptome	319	Y
F011154	Metagenome / Metatranscriptome	294	Y
F011719	Metagenome / Metatranscriptome	288	Y
F014854	Metagenome / Metatranscriptome	259	Y
F033437	Metagenome / Metatranscriptome	177	Y
F041780	Metagenome / Metatranscriptome	159	Y
F053640	Metagenome / Metatranscriptome	141	Y
F094695	Metagenome / Metatranscriptome	105	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066492_1001074	Not Available	666
Ga0066492_1001970	Not Available	737
Ga0066492_1003834	Not Available	627
Ga0066492_1010958	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	780
Ga0066492_1012816	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	522
Ga0066492_1020160	Not Available	755
Ga0066492_1027994	Not Available	536
Ga0066492_1083037	Not Available	627
Ga0066492_1100380	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	654
Ga0066492_1108260	Not Available	553

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066492_1001074	Ga0066492_10010741	F009335	MVETRISNHKRVSTWFAGRRPQTPAEASLEASLEILRPQGAGRPCYEAE
Ga0066492_1001970	Ga0066492_10019701	F011154	MRSDKKPLRIELSSPGRFRAGANRSYPEGIRLLLCISTGGRLWRSPEGGLPNERR*KAGQSERSNREGHAASAGPVKTFQAVGDAKNGTADL*TKGNLRVKRRDPWHRANALSKAAADPALSGEDADQKTQTCLDLVRKPVAQPPAQAS*KASLNNPVTARCWTALLRGR*LRLPWRIAS
Ga0066492_1003834	Ga0066492_10038342	F041780	MTGLNSLCSPRPPFGGSASTLWAQPARHSNRNRNLETAFLLTCGDFPYPELRDKLKRSQPASSISLPCPIRIRSVLNSLPDAFGFRRGHGHKTRFPLAARQSRPILEPPLPFRVSPPPDHNAQSDSDREVYLGKTPDIPLLPERINE*
Ga0066492_1010642	Ga0066492_10106421	F014854	ARKLSSGSRIIPGDWGKVGPGWLARPLSSRSASFGSGGRIHQFLWHVRACQLREARNLAVRNDKKPFRIESSSSGRFRA*VKRSYPEGIRLLLCISTGRATLADSINRLKPPKENHRKVDNKSTRTGKDTQTRQVA*KPSKRRRC*
Ga0066492_1010958	Ga0066492_10109581	F053640	NSRSAAALKNVAESTAGIIPGDRGMVGDNWCRPPLQAAKAVERHISPVPLAGVVSGQYTHEVGTERRGAIRNRVEPSQAHGAFRPVRRRSYPRGFWLLLRRPERSHGFRRANPAKRPRSQHERGAQGNRDGGEGADLAKSVKPPQWGGAKNRVTPLQKRKQP*
Ga0066492_1012816	Ga0066492_10128161	F001633	RLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVASCRKRHAGRGADTPAIFIVSRRHRYHGDGTSFWLAVGPA*
Ga0066492_1020160	Ga0066492_10201601	F033437	ALFPGGTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDTPCRERRAGRGADTSAIPIFASSTFATGTAPAFDRPLAPRTGLTS*
Ga0066492_1027994	Ga0066492_10279942	F001633	RLGALAFAGCVLPDATLRGMRMFRSHGGTVLTVAGRDLLSEASSPSSVAPAGSGTPDVVRTRLQSYFASARYHGDGASLWLAVGPALRV*
Ga0066492_1083037	Ga0066492_10830371	F094695	SVRDPCFRETWDDVQRFSDESIGSSWVQPSTVRRSPFPVASFRDSLSAVVQRFSRPRHSSLRLTCLLEALPPINRPRMRTREHLSYGFVPYSAQQKQASVSPGASNLRHCPSSGFLTLSTSCSACNPDQFVSPGLRSWGSTKSVYSPPSFDEGRVRRAWVSSPKLSPFP*
Ga0066492_1100380	Ga0066492_11003802	F001418	PSQAGSQGSGAEAGFTSSSGGVRAPSVNAKKGLSDEGRLETVPNRIK*
Ga0066492_1108260	Ga0066492_11082601	F011719	GSGGRIHQFLWRRSRAVSKREKGTER*GAMRNRSESSQVARASFEPGRIAVTQRVSGCYCASARADGSGGLRKEVSQMKDAERRDKLSVRTGKDTRSRQDP*KPSIKSAMLKTIPPTCERKAT*ELRGETRGTGQTRCQKQRLTRR*