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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 | 3300027443 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072110 | Ga0207477 |
| Sample Name | Soil microbial communities from Kellog Biological Station, Michigan, USA - Nitrogen cycling UWRJ-G05K4-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 19542208 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → unclassified Hyphomicrobiales → Hyphomicrobiales bacterium | 1 |
| Not Available | 5 |
| 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 | USA: Michigan | |||||||
| Coordinates | Lat. (o) | 42.4 | Long. (o) | -85.37 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F010550 | Metagenome / Metatranscriptome | 302 | N |
| F017166 | Metagenome / Metatranscriptome | 242 | Y |
| F019338 | Metagenome / Metatranscriptome | 230 | Y |
| F033862 | Metagenome / Metatranscriptome | 176 | N |
| F035945 | Metagenome / Metatranscriptome | 171 | Y |
| F050357 | Metagenome / Metatranscriptome | 145 | N |
| F052573 | Metagenome / Metatranscriptome | 142 | Y |
| F058652 | Metagenome / Metatranscriptome | 134 | N |
| F087168 | Metagenome / Metatranscriptome | 110 | N |
| F094026 | Metagenome / Metatranscriptome | 106 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207477_100016 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 2145 | Open in IMG/M |
| Ga0207477_100521 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 962 | Open in IMG/M |
| Ga0207477_101590 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 687 | Open in IMG/M |
| Ga0207477_101839 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → unclassified Hyphomicrobiales → Hyphomicrobiales bacterium | 658 | Open in IMG/M |
| Ga0207477_102726 | Not Available | 577 | Open in IMG/M |
| Ga0207477_102989 | Not Available | 561 | Open in IMG/M |
| Ga0207477_103108 | Not Available | 554 | Open in IMG/M |
| Ga0207477_103308 | Not Available | 543 | Open in IMG/M |
| Ga0207477_103873 | Not Available | 514 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207477_100016 | Ga0207477_1000163 | F033862 | MPRDPFAELEAARATVLEESERFVGELQPVLGPSLHAGFERLRLAQPEHVGRLDGPTLAALGTAVDRAIELGVAETVERLHSPEIWLSPLTAPELPPRVDPARPLGLPEWVARLGGSTREGSSLGRLDDMTNRIWVAISAAARPLDPVLEEFGFRPERRRLGGGSFGVAARTLPQLDPSGAVAQRWKRYRAAYERLTTLAAFDA |
| Ga0207477_100521 | Ga0207477_1005212 | F052573 | VRRARALAAAPVFAIVLFAACSTGETQVQGGSTSPTGPTETGPTATGPTGTTAEAGLGGAVQLDLSQVDNSTGATMFSCDGVEGTWTYDPGQLDIEGVEITMEPAQVDMSGGTGTLVISGQVQLPGAGGAGFTDTVKLRITGTADAPALEAAGVHVEATGAL |
| Ga0207477_101590 | Ga0207477_1015901 | F058652 | STAMSGERGDSWNSSWKPLGCRADVVTCAELSAVGSPDHALVMCDLCDRESLVRLGEQFLCASCAMDVLREGVEDLDAVAGARSADQIEILTWGEPETVLAHGLEVGRMVREGTMQLVDAAAAHHQALARSMKRAREAAECVRRVEAGAVLFNVWAFSFDARLEDLEEQNRALRLVVRELERHVARIPIVRTPA |
| Ga0207477_101839 | Ga0207477_1018391 | F087168 | MGDLFGNDAWLTLVLGAAFVATFLLGVMLLSTRTKGQQRRSLATLMGRGGKKQEAKESSWIPAGMAEAGDRLATASGFSGRLEAMLEQAELPMKAGEFAALIVLCAVAGGILGALLLE |
| Ga0207477_102726 | Ga0207477_1027262 | F035945 | MSDFSHEPERISRLEAWSLALATALVALIAIGIVPHMH |
| Ga0207477_102989 | Ga0207477_1029891 | F050357 | VEGIRLWRANRQKLVGMVYLDKGVLDLDIQDDHERALVEEVFEQTGQVTWSFSRFDEGEWQENVAEPRTERWLWFVVANILYPMGYQADLGVGEDG |
| Ga0207477_103062 | Ga0207477_1030621 | F094026 | TDAMKPCPNSCATRVSSFGVDGIPDARGVHRIATAQDIEVAGTESEQPSDSYWVGFTVGSVVYVMELHGPPGGSVSEEQSQEIASAYYDRLKGN |
| Ga0207477_103108 | Ga0207477_1031082 | F017166 | GEMSDVRSIKAAVTAAADSTAVALSQSANPERNTDADADGIFIKHIQTSSTLEDVSVKQSVEPISAGRLRQSVKVTARARTTLSEFFNMQGAEIDITATHDFDRKK |
| Ga0207477_103308 | Ga0207477_1033081 | F019338 | GAFLIVGAIVCLSTAQFVFAQEVDPRCKDIYDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEAAGGTQTLDGGRVAFPKYYRREGLKFRRSDAIEGYLGCMRAAGRK |
| Ga0207477_103873 | Ga0207477_1038731 | F010550 | VGDRPRRHDEIKGATVLLTGWSEGREREVADALGTISTEPVDLDDVELPFVALPKTTLEKAEAARDLLVEAGGSVDLQDAWVTRDAPRPVAARPTCPFCGSTKTQPYTHAGPAARTSMKCTTCGQR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |