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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 | 3300027440 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072116 | Ga0207571 |
| Sample Name | Soil microbial communities from Kellog Biological Station, Michigan, USA - Nitrogen cycling UWRJ-G08K2-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 7669901 |
| Sequencing Scaffolds | 12 |
| Novel Protein Genes | 13 |
| Associated Families | 13 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae | 1 |
| Not Available | 8 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 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 | 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? |
|---|---|---|---|
| F022731 | Metagenome / Metatranscriptome | 213 | Y |
| F024822 | Metagenome / Metatranscriptome | 204 | N |
| F031088 | Metagenome / Metatranscriptome | 183 | Y |
| F031960 | Metagenome / Metatranscriptome | 181 | Y |
| F034172 | Metagenome / Metatranscriptome | 175 | Y |
| F042319 | Metagenome / Metatranscriptome | 158 | Y |
| F043066 | Metagenome / Metatranscriptome | 157 | Y |
| F054151 | Metagenome / Metatranscriptome | 140 | N |
| F075090 | Metagenome / Metatranscriptome | 119 | N |
| F092372 | Metagenome / Metatranscriptome | 107 | N |
| F094081 | Metagenome / Metatranscriptome | 106 | Y |
| F095448 | Metagenome / Metatranscriptome | 105 | N |
| F105318 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207571_100272 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 976 | Open in IMG/M |
| Ga0207571_100351 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae | 910 | Open in IMG/M |
| Ga0207571_100446 | Not Available | 846 | Open in IMG/M |
| Ga0207571_100463 | Not Available | 839 | Open in IMG/M |
| Ga0207571_100520 | Not Available | 808 | Open in IMG/M |
| Ga0207571_100766 | Not Available | 714 | Open in IMG/M |
| Ga0207571_101023 | Not Available | 647 | Open in IMG/M |
| Ga0207571_101162 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 621 | Open in IMG/M |
| Ga0207571_101295 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 599 | Open in IMG/M |
| Ga0207571_101325 | Not Available | 594 | Open in IMG/M |
| Ga0207571_101367 | Not Available | 587 | Open in IMG/M |
| Ga0207571_101686 | Not Available | 546 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207571_100272 | Ga0207571_1002721 | F092372 | MRARAAIVAGLLAAAVPLDSPAQAQFSPQGIIGGVTRPLRQMLGNFGHYPRSHRHRSSGGARAAAPVPDRDAAQSTVKSRLGHAGPAAWVTAYEDVLGFAFWPDDYGAQFRSHGFDVVVDAITGRFDRMRAP |
| Ga0207571_100351 | Ga0207571_1003512 | F042319 | MTDITYQTATAGIACPSALLSRIAAWCTHFAEGTREGREIAARYHALSRLSTPELARRGLNRQTIARAALTSY |
| Ga0207571_100446 | Ga0207571_1004462 | F031088 | GAFSANAQVVIEERRDPAVVIEHDRPNTSVTVEKRDGFLGTEKKTITKETTGSGDCSSKTVHKEDITGSKTVQKTNCD |
| Ga0207571_100463 | Ga0207571_1004631 | F094081 | MADDHRKTLKEEFTDRLEKAKGRLQQSFPEIQQSIKTSGAVEAARKIIDPAQSIFKQFADDIQLKDLIAKAEALVANANLTLTKAASKDAAPTEARPIGALSNEPSAKKAGVKKTPSRG |
| Ga0207571_100520 | Ga0207571_1005202 | F054151 | MRLAECKFPSGNSPDMRKVDQYTLADHFRALAEGLSLRAVSERAPAQRAELQRLAECYAELAKQQSPADHFARGVGPR |
| Ga0207571_100568 | Ga0207571_1005683 | F105318 | WVMPMEKFIHQQNLERYRKMLSEKTHEPQRQTIVRLLADEENRDDPLSKLDS |
| Ga0207571_100766 | Ga0207571_1007662 | F095448 | PDPAIPNIVCPKCGLRMQVAAIEPAGTDDRTVTFGCDCGHRYDLSERAIVALARDSSDRW |
| Ga0207571_101023 | Ga0207571_1010231 | F034172 | MRTIFVFLVAGLIVLLGGASYAADVRLDHKRAHARGAGTFDQRLRVVEQRPYCGNCEAPFGRTHSANVVRLRFINWPFWQESCAVGACGVYYPVMRSCAFWGLGCT |
| Ga0207571_101162 | Ga0207571_1011622 | F024822 | VRQLFIRVAGVILCALALSGCVDSAGPLLSEAQPVLGERLRLQFYSLSKGTADEPEQATYKWDRGTYQRTGGGMTDIGSFSVHPLARDIFVVQSASAKRPGMFEYAIARRLVDGVYQVIAVDEADAGQVTRARFCKRASDSSCRIEKRN |
| Ga0207571_101295 | Ga0207571_1012952 | F022731 | MGTDAIDRVKKELLRAFDNTRAELDRIEILAAGLAAFNAPIPGYEPMFRHLPQLNR |
| Ga0207571_101325 | Ga0207571_1013252 | F043066 | QHRYEPGHSITRFCCGESMKLVKAIPRIGSYPELQTYRCERCHNVETIEVT |
| Ga0207571_101367 | Ga0207571_1013671 | F031960 | ADSFTNKDYEFYALKTFITLTRKSHGVVVKTYNACRVE |
| Ga0207571_101686 | Ga0207571_1016861 | F075090 | AIVQEAFSLAGAIVAEGEIAKAAALKPDEIPDGVSGDTVWKVADNLFTISVLPKDAVPAEIGDLNDLIVGGNAQKCRGDFFAGAMLDVVESTTIARAYTTCQTQQAATSTYYFAMPRKQGGGLYLTKIIATGVEVPPTIERAIKELDAKVRGVITAALARL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |