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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 | 3300027477 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0091565 | Ga0207456 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10.2A4w-11 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 27955499 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 9 |
| Associated Families | 9 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| Not Available | 5 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Nitrobacter → unclassified Nitrobacter → Nitrobacter sp. Nb-311A | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
| 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) | 43.3 | Long. (o) | -89.38 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004992 | Metagenome / Metatranscriptome | 416 | Y |
| F018027 | Metagenome / Metatranscriptome | 237 | Y |
| F022904 | Metagenome | 212 | Y |
| F024822 | Metagenome / Metatranscriptome | 204 | N |
| F061030 | Metagenome / Metatranscriptome | 132 | Y |
| F063305 | Metagenome / Metatranscriptome | 129 | N |
| F079360 | Metagenome / Metatranscriptome | 116 | N |
| F087420 | Metagenome / Metatranscriptome | 110 | Y |
| F101797 | Metagenome | 102 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207456_100341 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 916 | Open in IMG/M |
| Ga0207456_101583 | Not Available | 660 | Open in IMG/M |
| Ga0207456_102572 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 591 | Open in IMG/M |
| Ga0207456_102743 | Not Available | 581 | Open in IMG/M |
| Ga0207456_103144 | Not Available | 562 | Open in IMG/M |
| Ga0207456_103162 | Not Available | 561 | Open in IMG/M |
| Ga0207456_103331 | Not Available | 554 | Open in IMG/M |
| Ga0207456_103912 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Nitrobacter → unclassified Nitrobacter → Nitrobacter sp. Nb-311A | 532 | Open in IMG/M |
| Ga0207456_104044 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 528 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207456_100341 | Ga0207456_1003411 | F061030 | CKDIFDKVACTCAVRNGGHVIPPPVGVRREGLKLRPKKEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK |
| Ga0207456_101583 | Ga0207456_1015831 | F063305 | VSLRPVRSTESASGRVKPERRFVTRETARLLPIVVPVALSGFAVLAFAIGRFVASNPEPEVLAGVFALLLAATFVEAHPVPIEGISSEGISLAAVFIVGTAVIYGWAPAVVMGFLTRALIEMFQRRPAIRLS |
| Ga0207456_102572 | Ga0207456_1025721 | F004992 | MSNETPAAIDPDMFAAVFSQNWDNARHIKSERISFMNAYSVICAGVLALLQSVQASDLIRIALLFFMTLFSLVGLLTSLRLKSELEECLAKIEAMTVQAKVSQFVALGQLEGKPARYPRFRWIFPIFYTMTTAGFITLIVYRLVTGEAMK |
| Ga0207456_102743 | Ga0207456_1027431 | F022904 | MELTRTDSVPKGDTLSAYDFAMEEVTGASSRLADALLARTQKRADATTTEQECSNARSVYERMIHLFPRVRLDATQRASLLKELGLLRSRLEGCKAAEGKSQPT |
| Ga0207456_103144 | Ga0207456_1031441 | F101797 | LFQNQVDRRWFGPPGKCSTGLDVDTNVQNPKVSSIGAWGAEEVDRSRNQKIFDERRFAIRPTPVVQQSADAGGLIDRQGCKSDKSVPRNANVRILVQSGAWSSVDIDEDGNADGQVKTADLTSNLATMPPWG |
| Ga0207456_103162 | Ga0207456_1031622 | F079360 | MRRTLTVAAIAVLVFAGIAKLVAAPSRHAAGRDTSVQPTISTYDLHTGYRGMDTLPVAEIPQP |
| Ga0207456_103331 | Ga0207456_1033311 | F024822 | VRQLFIRVAGVILCALALSGCVDSAGPLLSEAQPVLGERLRLQFYSLSKGTADEPEQATYKWDRGTYQRTGGGMTDIGSFSVHPLARDIFVVQSASAKRPGMFEYAIARRLVDGVYQVIAVDEADAGQVTRARFCKRASDSSCRIEKRDQLY |
| Ga0207456_103912 | Ga0207456_1039121 | F087420 | MGPKLGTRAKRSATGVAIALALSALPHTPASAAKPPYGSCVAVTKQEYDSAKKQHMLQTRYTQYVRT |
| Ga0207456_104044 | Ga0207456_1040441 | F018027 | MKARDFKGYYDGHKDTFLVTDVSNKAQARALHVNFSREIGKVKSAPAQYFVRGKAVRGQLSVFGSEPGEADYNPLWEEFYVSWNPGVTPVLLVKDDQITALAKSKKLTLKDARIVLNAPITKVGK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |