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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 | 3300026687 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0053063 | Gp0054783 | Ga0208212 |
| Sample Name | Forest soil microbial communities from Willamette National Forest, Oregon, USA, amended with Nitrogen - NN413 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 10439355 |
| Sequencing Scaffolds | 17 |
| Novel Protein Genes | 17 |
| Associated Families | 17 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 5 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1 |
| Not Available | 8 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidisarcina → Acidisarcina polymorpha | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. CCGUVB1N3 | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → land → fertilized soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Willamette National Forest, Oregon, USA | |||||||
| Coordinates | Lat. (o) | 44.20517707 | Long. (o) | -122.1284473 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002272 | Metagenome / Metatranscriptome | 576 | Y |
| F002784 | Metagenome / Metatranscriptome | 530 | Y |
| F005285 | Metagenome / Metatranscriptome | 406 | Y |
| F007243 | Metagenome / Metatranscriptome | 355 | Y |
| F014431 | Metagenome / Metatranscriptome | 263 | Y |
| F018599 | Metagenome / Metatranscriptome | 234 | Y |
| F020230 | Metagenome / Metatranscriptome | 225 | N |
| F022062 | Metagenome / Metatranscriptome | 216 | Y |
| F037870 | Metagenome / Metatranscriptome | 167 | Y |
| F040663 | Metagenome / Metatranscriptome | 161 | Y |
| F045938 | Metagenome | 152 | Y |
| F057773 | Metagenome / Metatranscriptome | 136 | Y |
| F077738 | Metagenome / Metatranscriptome | 117 | Y |
| F080445 | Metagenome / Metatranscriptome | 115 | Y |
| F092431 | Metagenome / Metatranscriptome | 107 | Y |
| F092648 | Metagenome / Metatranscriptome | 107 | Y |
| F099687 | Metagenome / Metatranscriptome | 103 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208212_100034 | All Organisms → cellular organisms → Bacteria | 1986 | Open in IMG/M |
| Ga0208212_100127 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1401 | Open in IMG/M |
| Ga0208212_100174 | All Organisms → cellular organisms → Bacteria | 1277 | Open in IMG/M |
| Ga0208212_100315 | All Organisms → cellular organisms → Bacteria | 994 | Open in IMG/M |
| Ga0208212_100745 | All Organisms → cellular organisms → Bacteria | 722 | Open in IMG/M |
| Ga0208212_100882 | Not Available | 686 | Open in IMG/M |
| Ga0208212_100903 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidisarcina → Acidisarcina polymorpha | 681 | Open in IMG/M |
| Ga0208212_100921 | Not Available | 678 | Open in IMG/M |
| Ga0208212_100977 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 666 | Open in IMG/M |
| Ga0208212_100985 | All Organisms → cellular organisms → Bacteria | 665 | Open in IMG/M |
| Ga0208212_101033 | Not Available | 653 | Open in IMG/M |
| Ga0208212_101188 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. CCGUVB1N3 | 623 | Open in IMG/M |
| Ga0208212_101424 | Not Available | 588 | Open in IMG/M |
| Ga0208212_101676 | Not Available | 556 | Open in IMG/M |
| Ga0208212_101747 | Not Available | 548 | Open in IMG/M |
| Ga0208212_102200 | Not Available | 511 | Open in IMG/M |
| Ga0208212_102333 | Not Available | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208212_100034 | Ga0208212_1000343 | F080445 | METTNEQTPERVTVNSVKIDDEVLALDVVKRGEKRFVFEITRDNGNRMVASSDEHKKAKRAARAGKPIWKRTVKAALKEKLDQ |
| Ga0208212_100127 | Ga0208212_1001274 | F077738 | LTSRLVSLSYPGETDAKKINNAKAWTSDEDKRLRELVISNVSVIDIAADLGRTVKAVRARAHALRIALGRSRFRVKANAK |
| Ga0208212_100174 | Ga0208212_1001743 | F018599 | TGLNIYGKAVALNMPHQKLIRVLNYVWLLVVFPVAVAILVGVLGHSANLGFKTFLLIECGMAVLSPLLNAVISDGNHTHHHRRE |
| Ga0208212_100315 | Ga0208212_1003151 | F045938 | YTGMGAAFGAAPRQTLHNARKGYLRILYPYHPYYGQTFEVFGSNGGLRDLVYIRMPNNATRGIPAWMFDEAICASIRCADRPTIDCRALLRLAQLLDLQAESRSIGGHESSIPESKIASKISSSSADTGAGQVAFKRSDAKRRSK |
| Ga0208212_100745 | Ga0208212_1007451 | F005285 | VSSKIGMHRVVGDRMVGSWSDMNQGSRTGKGTALKVCSRPEELYPGGDRASVVAKKRSNARGAKGGRKVEA |
| Ga0208212_100882 | Ga0208212_1008821 | F057773 | ARLSFDAKLELEARDTGNEADDGLRKVDVEIVADNVPLCGGSGAAEQVAEKPREILFRPGIAYDAFDPARGDVKSSDKGLSAVALIFELASLDLARHQRQPRRHALQRLNAGHFVDGDRAMSVIRTGCGLVNRTDIRALAIKGGIRFRGQPVTDAMGLEVCLFFKKRPTERCEIFGTRPRRMASSAISRWLHWLIGRSLSDGFSHVIATTAQICSGVYVAGAPDRGAS |
| Ga0208212_100903 | Ga0208212_1009031 | F099687 | CRFLRSSLTKAPSLHRHYPASSVVRASPPPHTARPVSRELPVDRYHDHRWGFPCCVWSPMRTCHRHYPGRFNEACSLVYLHCQRPSPCNSKVGSCNYFFGACSAFTHVTACTLAESPSDPLHRELRQLCCLRCRLDCYRVERTSSRAGVAPAEVQRLSRRTFSPTAGTPSPLSS |
| Ga0208212_100921 | Ga0208212_1009211 | F014431 | MSFNLEEAQSCSEIPACRGPEILSILIEVDPITGKISEEYPDSYPKDYPERVEKFCRNYIWRKITGDITVEFLEAVLDRMFNADEVTCVVDLARLERLKHQIVSLFFRR |
| Ga0208212_100977 | Ga0208212_1009771 | F022062 | MVSMDIHRRPVPKASRDLLPNLTEVMPFGRYGAGLWTGHPIGLVIVVGLLLMGFVGLPEARWFLALTVPLGGICGFFLWLHHR |
| Ga0208212_100985 | Ga0208212_1009851 | F002784 | MNEFTDKNEQAFLDACEAIGVEPNATVNKQKERYLVSEFLKHPVSWLETEILYHSYTTRGEAQEVANGIDRMINEGAPVGKSKLFPRPKHSSALSDTAFGS |
| Ga0208212_101033 | Ga0208212_1010331 | F020230 | MSNPHLYRRFKLLRLGGIPPPKPVGGFVVGVPTKDVRTFQTENPTVAIDGVFLKLVSADELDEVRRRLQIPLGTDLKYQQSRYQANAETIKGNATFEWRNGNKYWIEPKGYNKPL |
| Ga0208212_101188 | Ga0208212_1011881 | F092648 | MILLFLIMRCTPTIHDLIVLTLPPRHRCPLDRMPASRLLLPRSGLERSDF |
| Ga0208212_101424 | Ga0208212_1014242 | F092431 | RQQQITAALTQVRIQMQNEASRLRRTLDVKQHILASIKNHPWEWTSCAAIFGWILAGLPARKKKIFIHSSSQKPPNARVNGPVGKVWKEVWKISKPLIAAYLAKLVADQTSVPKTEVT |
| Ga0208212_101676 | Ga0208212_1016761 | F007243 | MTSIRAKVASAVQERDHFRLIIDLVPSEFLGPFERLRFKKNPFCGSFSTSLTANWLTLTYRTDPGFKAGDLFPLSRID |
| Ga0208212_101747 | Ga0208212_1017471 | F037870 | MDNILIALAFVGGLTGLIIVGMMVTMYFYSRDALGPGRSRKAHDLHTLTARSVPVQVTTSAGQSEINLGLSTDPGARYARGSMLVMACFILLMVIALVSVLNASLH |
| Ga0208212_102200 | Ga0208212_1022002 | F040663 | LKEDRQLIQMAAASATLEEAAAILRTSVETIERKAERLGIKLKRKRPKLGLKAKK |
| Ga0208212_102333 | Ga0208212_1023331 | F002272 | MNAEYWERRTALIRDGAVRVLSLFTPEEVDYWRDQLKSRRRNSREIELVTWAKHAATLRGRAHYGRIDEIAEYVFQFIRTSEGELLKFGAVAFSKSEDRALAR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |