| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300004585 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0114290 | Gp0111164 | Ga0066500 |
| Sample Name | Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 16_LOW5 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 40184279 |
| Sequencing Scaffolds | 7 |
| Novel Protein Genes | 8 |
| Associated Families | 6 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 2 |
| Not Available | 4 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 1 |
| 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 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001418 | Metagenome / Metatranscriptome | 698 | Y |
| F001633 | Metagenome / Metatranscriptome | 660 | Y |
| F004323 | Metagenome / Metatranscriptome | 443 | Y |
| F005001 | Metagenome / Metatranscriptome | 415 | Y |
| F014145 | Metagenome / Metatranscriptome | 265 | Y |
| F082737 | Metagenome / Metatranscriptome | 113 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0066500_101474 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 543 | Open in IMG/M |
| Ga0066500_103146 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei | 641 | Open in IMG/M |
| Ga0066500_103390 | Not Available | 628 | Open in IMG/M |
| Ga0066500_105285 | Not Available | 513 | Open in IMG/M |
| Ga0066500_105701 | Not Available | 573 | Open in IMG/M |
| Ga0066500_117703 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila | 802 | Open in IMG/M |
| Ga0066500_196324 | Not Available | 743 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0066500_101474 | Ga0066500_1014741 | F001633 | LAFAGGVLPDATLRGMRMFRSHGGTVLTVADPDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV* |
| Ga0066500_103146 | Ga0066500_1031462 | F001633 | LAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSATPCRERHARRGADTPAIFIVSRRHRYHGDGTSFWLAVGPALRV* |
| Ga0066500_103390 | Ga0066500_1033901 | F005001 | MHGMEHREQKRRTIRLSAPRWPFSPAYGSVLPGSPLAASCPEPAARNGFSLARNSCRLSATSIPGSKLPACYFAPFQIAFRARSALRLHYRPPVCAGCGRFIASGPLHFHYPVQPAAPAISTPLRDFYVPRDQSVQPRLPPAGPPDESARFPLAPRCPP* |
| Ga0066500_105285 | Ga0066500_1052851 | F014145 | STANKSAGRFASPLPVGRFLQPPDQCFLARRWPPLARNRSLVTAFRSPATATASRRPPFRGQSSQPATSLPSKFASVPVRPFGSTTASRFAPVAAVSLPLARCTSTTRFGLPRLPSPLPSGTFTSLGIKVFNRVCCLPVHLTNPPDFLSLPAARPDESWGCGSPFQVRYV |
| Ga0066500_105701 | Ga0066500_1057011 | F082737 | MLGGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLLPASLNRRSPLGFFAPPDQSARSRWPTGNLLSATPDLPSLPTGGRIRYQHQRIIVPAPLRLCQLAV |
| Ga0066500_117703 | Ga0066500_1177031 | F001633 | RHALFPGGTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVTGRDLLSEASSPGSDAPCRERRAGRGADTPAIFIVSRLHPYHGDGTSFWPAVGPALRV* |
| Ga0066500_117703 | Ga0066500_1177032 | F004323 | MPLTGFRLWEGMAAPAATNLSPVTRDYPSRALSDVFQAAALRL |
| Ga0066500_196324 | Ga0066500_1963241 | F001418 | LAAEAGFTSSSGSVRALSVNANKELGDEVRLETAPNRVK* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |