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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300027115 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0055660 | Ga0207488 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-11 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 21808038 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1 |
| Not Available | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1 |
| All Organisms → cellular organisms → Archaea | 2 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts) |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts) |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | terrestrial biome → agricultural field → agricultural soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Wisconsin, United States | |||||||
| Coordinates | Lat. (o) | 43.2958 | Long. (o) | -89.3799 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F033457 | Metagenome / Metatranscriptome | 177 | Y |
| F033996 | Metagenome / Metatranscriptome | 176 | N |
| F050525 | Metagenome / Metatranscriptome | 145 | N |
| F055942 | Metagenome / Metatranscriptome | 138 | Y |
| F062531 | Metagenome | 130 | N |
| F064703 | Metagenome / Metatranscriptome | 128 | Y |
| F078898 | Metagenome | 116 | N |
| F094116 | Metagenome | 106 | Y |
| F097297 | Metagenome / Metatranscriptome | 104 | Y |
| F105773 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207488_100193 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1010 | Open in IMG/M |
| Ga0207488_100501 | Not Available | 816 | Open in IMG/M |
| Ga0207488_100509 | Not Available | 808 | Open in IMG/M |
| Ga0207488_100937 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 694 | Open in IMG/M |
| Ga0207488_101898 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 579 | Open in IMG/M |
| Ga0207488_101983 | Not Available | 573 | Open in IMG/M |
| Ga0207488_102232 | All Organisms → cellular organisms → Archaea | 555 | Open in IMG/M |
| Ga0207488_102667 | All Organisms → cellular organisms → Archaea | 529 | Open in IMG/M |
| Ga0207488_103178 | Not Available | 505 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207488_100193 | Ga0207488_1001933 | F050525 | GFAGLLAYLAGVSAIFGIGIVGLMALHSPTGRTPSSPPVAAAEPLAKPAKRPLDDKKTAHRNQTHKKVHVTRKQHEAPSIDAGRNAYGYAEELRRIDPNRFLFFGR |
| Ga0207488_100501 | Ga0207488_1005011 | F097297 | MLVTERMRSLGDHAKSSRQPPLKERKLTKSDASAATQDVINEKEFKKGAAHESAAVVIVDNPAPQTVVHENRNAAVAEITPDEEAAVLATVAAVLAKIDPQPPTADDNVTRPEPVREDAELSAAKRAIIHEWESWSALHSDELGDPKVAEYFFRHLQTKKPQLLNFGFQDKLMMV |
| Ga0207488_100509 | Ga0207488_1005091 | F033457 | AFVVLLLAVVTPPGFGVAARPSIEGQRLAPQIVDRTRKSDQLPVPKATGRRLTPPAAPVLVGCDPVFSALSKDKQANYPGRCLA |
| Ga0207488_100620 | Ga0207488_1006201 | F064703 | PRPCSKFTVRVTHDCRSIGPSRIVLMRKGLTVLIVAVLGVFAVKSVIGPGKMSLSEAVKYPVPTYDLHVAQPVDMKNFPSDVIPLP |
| Ga0207488_100937 | Ga0207488_1009372 | F078898 | MDLSKRQLLQEALAKAEAHHAYIAVSTPSGTRILLRPDFTCYETYVEGTGADGQLLT |
| Ga0207488_101898 | Ga0207488_1018982 | F055942 | RLVIACNHKSAILLELLDHGIGDQDFDARHQRAILERGHRNAVNVPEIVRLYRPDVISKATGDREAKDCR |
| Ga0207488_101983 | Ga0207488_1019831 | F094116 | DVAATQIRIADLEERTGLDFADIKKFDHFATGGASGTLELPGVEGMVRRAKIVRNGSDIV |
| Ga0207488_102232 | Ga0207488_1022321 | F033996 | MELNLTAKDKHALKSLSVDLRDMLRMKKVDDRTGNPEYRRVFDATFFKVTDGNYLDEMLNWVEDFSNRMADAESEQSKDELNLETKR |
| Ga0207488_102667 | Ga0207488_1026671 | F062531 | EPSPTNNSTTMIWFQNSTKSIFAIIKAPDDLVFPLFIAGPFMTGYLKYKGVLESADRLTFGHSNYGYRYFLNLSSPSQLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLILTQKHNELYAIIFLNPKEKFDSMLNQIQPTLDSIQLSG |
| Ga0207488_103178 | Ga0207488_1031781 | F105773 | MIAELFKKFYEINDVSFKQVQKEHEFLRTYLQKMTLQIPDPALSDLTAGEMM |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |