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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 | 3300026757 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0091557 | Ga0207605 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06K5-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 21236983 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 1 |
| Not Available | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3843 | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 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? |
|---|---|---|---|
| F002616 | Metagenome / Metatranscriptome | 543 | Y |
| F005549 | Metagenome / Metatranscriptome | 397 | Y |
| F019338 | Metagenome / Metatranscriptome | 230 | Y |
| F029200 | Metagenome / Metatranscriptome | 189 | Y |
| F048976 | Metagenome / Metatranscriptome | 147 | Y |
| F063961 | Metagenome / Metatranscriptome | 129 | Y |
| F064047 | Metagenome / Metatranscriptome | 129 | Y |
| F071512 | Metagenome / Metatranscriptome | 122 | Y |
| F083408 | Metagenome / Metatranscriptome | 113 | Y |
| F095664 | Metagenome / Metatranscriptome | 105 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207605_100314 | All Organisms → cellular organisms → Bacteria | 910 | Open in IMG/M |
| Ga0207605_100689 | Not Available | 760 | Open in IMG/M |
| Ga0207605_100772 | Not Available | 743 | Open in IMG/M |
| Ga0207605_100898 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3843 | 718 | Open in IMG/M |
| Ga0207605_101158 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 675 | Open in IMG/M |
| Ga0207605_101430 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 638 | Open in IMG/M |
| Ga0207605_103223 | Not Available | 514 | Open in IMG/M |
| Ga0207605_103231 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 514 | Open in IMG/M |
| Ga0207605_103507 | Not Available | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207605_100314 | Ga0207605_1003142 | F071512 | RLMTVSLGLLGRIDEAKESLANTLALQPDFSTDHVAYNTVFAHASDRSRFLRGLQKAGLR |
| Ga0207605_100689 | Ga0207605_1006892 | F083408 | LVRVERMMDDANRALGPVAPARPTVSSGKDKQVRAPDKGEALAASLEGRAFGNRN |
| Ga0207605_100772 | Ga0207605_1007722 | F005549 | LPRGRGAAEWSVMLKFLRKCTAIPAVKYSIIAITSFLWLVGFADQLPDVEQTVKYVGISLLMLAVATMA |
| Ga0207605_100898 | Ga0207605_1008981 | F064047 | MTLMKSSRAGLFALAFGILLSLFLSVPSYDVSYAQTQAPAAAPA |
| Ga0207605_101158 | Ga0207605_1011582 | F029200 | LLNQAGPFFPLIQPTQVFVKTKDLRGAVYNSVYTVDVSQVSPA |
| Ga0207605_101430 | Ga0207605_1014303 | F048976 | VAAPSQRRVLGALFLFLAVFFIGIAVTAVMAGGSAIVIGVAAAVLGLWIGSFGLRALLVRRVR |
| Ga0207605_102528 | Ga0207605_1025281 | F095664 | MPFDRRHVLAQWGGTLPGGEIWSNSLRLASTDTGPDADVPDHDAMVEWLTTYAKDAVAAWHSDFGLKCSSAAKLTYLKMNVVDIQGHYVELNTLEHLYSPVVSGSSASNPHPTQIALAVSLTTEFSRGTAHRGRFYVPMPVHQVDPVSGLISVPDALQVATAAKTFIEALADEPGPDFV |
| Ga0207605_103223 | Ga0207605_1032232 | F063961 | IAPLVERPVRTLNQSTLCLDDQSERGHATTADAAKKVISKLGHWPNLEGLPMGCNAGWAI |
| Ga0207605_103231 | Ga0207605_1032312 | F019338 | MLRTGTGFIVGAIVCLATVQFVFAQDVDPRCKDIFDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK |
| Ga0207605_103507 | Ga0207605_1035072 | F002616 | DTPMPNSFPNWTSRIVIAGRIAEYRRPENWNESTMPGDYHLPFGRVEAQAKAARWLWQSYII |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |