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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 | 3300026799 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0091574 | Ga0207485 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06.2A2a-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 24042988 |
| Sequencing Scaffolds | 22 |
| Novel Protein Genes | 23 |
| Associated Families | 23 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 5 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae bacterium | 1 |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 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? |
|---|---|---|---|
| F001437 | Metagenome / Metatranscriptome | 695 | Y |
| F001604 | Metagenome / Metatranscriptome | 664 | Y |
| F004034 | Metagenome / Metatranscriptome | 456 | Y |
| F005549 | Metagenome / Metatranscriptome | 397 | Y |
| F007061 | Metagenome / Metatranscriptome | 359 | Y |
| F007935 | Metagenome / Metatranscriptome | 342 | Y |
| F008396 | Metagenome / Metatranscriptome | 334 | Y |
| F017145 | Metagenome / Metatranscriptome | 242 | Y |
| F022036 | Metagenome / Metatranscriptome | 216 | Y |
| F022101 | Metagenome / Metatranscriptome | 216 | Y |
| F022675 | Metagenome / Metatranscriptome | 213 | Y |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F031938 | Metagenome / Metatranscriptome | 181 | Y |
| F034987 | Metagenome / Metatranscriptome | 173 | Y |
| F039286 | Metagenome / Metatranscriptome | 164 | Y |
| F051447 | Metagenome / Metatranscriptome | 144 | N |
| F059116 | Metagenome | 134 | Y |
| F072675 | Metagenome / Metatranscriptome | 121 | N |
| F077473 | Metagenome / Metatranscriptome | 117 | Y |
| F089000 | Metagenome | 109 | N |
| F094116 | Metagenome | 106 | Y |
| F095664 | Metagenome / Metatranscriptome | 105 | N |
| F099457 | Metagenome | 103 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207485_100124 | All Organisms → cellular organisms → Bacteria | 1234 | Open in IMG/M |
| Ga0207485_100314 | All Organisms → cellular organisms → Bacteria | 1013 | Open in IMG/M |
| Ga0207485_100437 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 940 | Open in IMG/M |
| Ga0207485_100726 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 836 | Open in IMG/M |
| Ga0207485_100801 | All Organisms → cellular organisms → Bacteria | 815 | Open in IMG/M |
| Ga0207485_101419 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 704 | Open in IMG/M |
| Ga0207485_101499 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae bacterium | 694 | Open in IMG/M |
| Ga0207485_101535 | Not Available | 688 | Open in IMG/M |
| Ga0207485_101614 | Not Available | 680 | Open in IMG/M |
| Ga0207485_101880 | All Organisms → cellular organisms → Bacteria | 654 | Open in IMG/M |
| Ga0207485_102289 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 620 | Open in IMG/M |
| Ga0207485_102570 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 601 | Open in IMG/M |
| Ga0207485_103074 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 572 | Open in IMG/M |
| Ga0207485_103078 | Not Available | 571 | Open in IMG/M |
| Ga0207485_103772 | Not Available | 538 | Open in IMG/M |
| Ga0207485_103822 | Not Available | 536 | Open in IMG/M |
| Ga0207485_103941 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 532 | Open in IMG/M |
| Ga0207485_104049 | Not Available | 527 | Open in IMG/M |
| Ga0207485_104291 | Not Available | 518 | Open in IMG/M |
| Ga0207485_104386 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 514 | Open in IMG/M |
| Ga0207485_104403 | Not Available | 514 | Open in IMG/M |
| Ga0207485_104451 | Not Available | 512 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207485_100124 | Ga0207485_1001241 | F031938 | MQKRLVTRYAMRSAEAAAENQRRVEGVFEELAAAKPDNVSYIVLRLA |
| Ga0207485_100314 | Ga0207485_1003141 | F022036 | MLMRVVAVMLLLSAGIAAEAMSYSFVSKASGRLGGPIRFEFYRDSTTHPKTDIETFTVSM |
| Ga0207485_100437 | Ga0207485_1004371 | F007061 | RGLRQATWTAVLAAVVLAVATGCGGGGGESGNEESELNQQAVAACNGSALSEAPNLPASFPMIENVTYTKQSTQGPTTVVEGFFEGSLEDAYDEYKKELEAAGFKILFDEIEEHDSEVSWEGEGRSGQVALREECGSDDKIYVHITNRPASE |
| Ga0207485_100726 | Ga0207485_1007261 | F039286 | VLREVAEYPNCFGPLGPGAERIETDRYTLCLGPGSTWNTVQRQRFALEEL |
| Ga0207485_100801 | Ga0207485_1008012 | F022101 | PFALECAELAQSPATRGAVVISIWFDPADDGNPRQNISYERAE |
| Ga0207485_101419 | Ga0207485_1014192 | F001437 | MAGFLFRLETVDGAPAEPPTFATAVPNWSPGDEIPLGHRALRVIGKRDDDADQPPMLIVEHEE |
| Ga0207485_101499 | Ga0207485_1014992 | F089000 | MGEPTPATPASKYFAATVAMIAGACFFAVGAGLLPIPGGPSNLHGPLLLVLCVGLAFFLAGLAIIIQLLGHANDSGDLPAGAPLWLRAMQYLIGLCIFVCFGAISSWIAFGPGERHFSGT |
| Ga0207485_101535 | Ga0207485_1015352 | F004034 | TVCSIVEHGGELLMVQQLNREGEVRWNFPTGWMEPLDEDGTLQVPEHVVNRNLLVETGYAASGATLVGLALVREHDAEGRRIGTSTRLNYLSSQPRQTSYAVADSDILGAPEWFSPAEVEGMIQRGEVKGELTTAAYRHWQAYRRDGRISADVIDTPN |
| Ga0207485_101614 | Ga0207485_1016141 | F007935 | LVLALVSALVAVSAAVAKDHPGKGPKPNHGCKPAVTVMLAGTLAADVDPQDGDTSFVLTVKHSNRHGRAYKATGTATILVDAKTHVRRQGAKTLGALAPNDRVHVTAKACKADLKNGGTPDLTARKIGAHPVAAPTQPSS |
| Ga0207485_101880 | Ga0207485_1018802 | F094116 | EAFDVAATQIRIADLEERTGLDFADIKKFDHFATGGASGTLELPGVEGMVRRAKIVRNGSDIVV |
| Ga0207485_102289 | Ga0207485_1022892 | F028554 | NYVRTALLLAALTGLFFLAAFVTAGSLLSTDPRPMSSLSKVTQLPPTEGGEAASRVASIVVETDKKGRCEERRFDNRTGKMVSANYVNCDARLESERDSTPSENINRERIRAILGAFKK |
| Ga0207485_102570 | Ga0207485_1025702 | F051447 | MCAVCRRNLLAGESFRTWQVRHERTAGRIVCLLCEHEAVREGWLRSGDPLRHENAVGLRGSVRRVA |
| Ga0207485_102860 | Ga0207485_1028601 | F095664 | DTGPDADVPDHDAMVEWLTTYAKDAVAAWHGSFDLKCSNQAKLAYLKMNVVDIAGRYIEQNTLEYLYSPVVPGGSASNIHPTQIALAVSLTTEFSRGHAHRGRFYVPMPVHVVDATTGLISVSDAIQVATAAKTFIEALADEPGPDILPGMRVCVMSQRGTGATNVVTGVDVGRVLDTQQRRRNALKETYQHVT |
| Ga0207485_103074 | Ga0207485_1030741 | F072675 | RRKHPPVVRHAALERGDTMRGIVKAVAMGLGLTAAAALASAPAFSKDYVRYRIYRQNPAAWYWFGPPGRGEHIAPKARVAAQGYYIGPHYRSDIAPGYHTNGPGIGIMK |
| Ga0207485_103078 | Ga0207485_1030781 | F034987 | VDVRITPEPDDRDAVLAAVQALLARDRVPAAYRSGWREAGIRENLGYERPQGATGLP |
| Ga0207485_103772 | Ga0207485_1037721 | F059116 | MFTKPRLLAVCAAIVLGSLVLVVGAIGASDSGTSDKIAFRSGANASTPSGSFIDIPGGARTVASTAGGPLVIRFSAEGSVRDLNSGGAFAGHRFAAMFVRVLVNGSQVGPAVRFFDNTGKVGVQKPRPTTTSYEWAKTVSGGPQNVKVQFKNLNTFDNANIK |
| Ga0207485_103822 | Ga0207485_1038221 | F001604 | MTNILDSARASDEGPRLIVRKASHAPIWSVWAVLEGTPSEEIFEGSSEEDASSWINTGGRSWLEE |
| Ga0207485_103941 | Ga0207485_1039411 | F008396 | PRYVEALEELRPLVDRRDGHTPELAPLWEEMTSVRRSQPAGTVW |
| Ga0207485_104049 | Ga0207485_1040491 | F077473 | MSLFTRRKVIGLFRLAGLAVPFKFSPLLAAEAQAATNTSDVHLLSQDARPPPSVPLQDARLCAPASDRPRSDSNLPNVNWLRGNEARAEWTWAAQLSDGSPEAVPNNLGRYLVQIPGVLEKQLDYS |
| Ga0207485_104291 | Ga0207485_1042911 | F017145 | WCPRFGHAMIAHRSSHRRWMLRDIPRTYVLLTWLAFGAALLIYSNDWHPSGWTALRKEATAPKPPVSVTEQYTGSIIIVPTRGEDCRQMMLDNRTGRMWDKGIVNCYEAVSRPEKGQRGGMSSLRMNAIGKAFNRRDE |
| Ga0207485_104386 | Ga0207485_1043862 | F099457 | LEVVRPHGQWIPQQMVFLAVLIIPLVGLWQIVSPMKLTGLWTLMAPLVGAYLVAHYYAFDVYDGAPYYRNSEAGDMPGWAILGGASVAAATGALTWFHRRLGVGLTAPVCLGCAVLIFFSNVFH |
| Ga0207485_104403 | Ga0207485_1044032 | F005549 | MLKFLRKCTAIPAVKYSIIAITSFLWLVGFADQLPDVEQTVKYVGISLLMLAVAAMA |
| Ga0207485_104451 | Ga0207485_1044511 | F022675 | MRNLRRNWFIKRIALGLAIAAFAAPVAQAKVDEGSSIQANGYQAFVTDFPSYANGVNASDYGMPRPTATDYAISRGDLIEVVRSTPNGTSSDKIEFVRTQPRSIGEPQVVAAGFDWKDAGIGAGFALALVLLGG |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |