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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 | 3300027445 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072117 | Ga0207554 |
| Sample Name | Soil microbial communities from Kellog Biological Station, Michigan, USA - Nitrogen cycling UWRJ-G08K3-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 8938293 |
| Sequencing Scaffolds | 25 |
| Novel Protein Genes | 26 |
| Associated Families | 25 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. ARR65 | 1 |
| Not Available | 16 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 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 | 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? |
|---|---|---|---|
| F002315 | Metagenome / Metatranscriptome | 572 | Y |
| F002508 | Metagenome / Metatranscriptome | 553 | Y |
| F003059 | Metagenome / Metatranscriptome | 510 | Y |
| F004397 | Metagenome / Metatranscriptome | 440 | Y |
| F017166 | Metagenome / Metatranscriptome | 242 | Y |
| F017216 | Metagenome / Metatranscriptome | 242 | Y |
| F017759 | Metagenome | 239 | N |
| F020078 | Metagenome / Metatranscriptome | 226 | Y |
| F021340 | Metagenome | 219 | Y |
| F025530 | Metagenome | 201 | Y |
| F028161 | Metagenome / Metatranscriptome | 192 | N |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F034995 | Metagenome | 173 | N |
| F045439 | Metagenome / Metatranscriptome | 153 | Y |
| F048418 | Metagenome / Metatranscriptome | 148 | Y |
| F050525 | Metagenome / Metatranscriptome | 145 | N |
| F054151 | Metagenome / Metatranscriptome | 140 | N |
| F070441 | Metagenome / Metatranscriptome | 123 | Y |
| F077827 | Metagenome / Metatranscriptome | 117 | Y |
| F081321 | Metagenome / Metatranscriptome | 114 | N |
| F082926 | Metagenome / Metatranscriptome | 113 | N |
| F084203 | Metagenome / Metatranscriptome | 112 | N |
| F095448 | Metagenome / Metatranscriptome | 105 | N |
| F099776 | Metagenome | 103 | Y |
| F104619 | Metagenome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207554_100075 | All Organisms → cellular organisms → Bacteria | 2045 | Open in IMG/M |
| Ga0207554_100139 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1731 | Open in IMG/M |
| Ga0207554_100253 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1480 | Open in IMG/M |
| Ga0207554_100342 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. ARR65 | 1367 | Open in IMG/M |
| Ga0207554_100474 | Not Available | 1223 | Open in IMG/M |
| Ga0207554_100525 | Not Available | 1174 | Open in IMG/M |
| Ga0207554_100588 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1125 | Open in IMG/M |
| Ga0207554_100636 | Not Available | 1089 | Open in IMG/M |
| Ga0207554_100690 | Not Available | 1049 | Open in IMG/M |
| Ga0207554_101035 | Not Available | 902 | Open in IMG/M |
| Ga0207554_101036 | Not Available | 902 | Open in IMG/M |
| Ga0207554_101040 | Not Available | 900 | Open in IMG/M |
| Ga0207554_101157 | All Organisms → cellular organisms → Bacteria | 860 | Open in IMG/M |
| Ga0207554_101408 | Not Available | 785 | Open in IMG/M |
| Ga0207554_101560 | Not Available | 749 | Open in IMG/M |
| Ga0207554_101586 | All Organisms → cellular organisms → Bacteria | 742 | Open in IMG/M |
| Ga0207554_101639 | Not Available | 729 | Open in IMG/M |
| Ga0207554_101769 | Not Available | 702 | Open in IMG/M |
| Ga0207554_101776 | Not Available | 701 | Open in IMG/M |
| Ga0207554_101992 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 657 | Open in IMG/M |
| Ga0207554_102075 | Not Available | 643 | Open in IMG/M |
| Ga0207554_102120 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 636 | Open in IMG/M |
| Ga0207554_102217 | Not Available | 619 | Open in IMG/M |
| Ga0207554_102295 | Not Available | 609 | Open in IMG/M |
| Ga0207554_102445 | Not Available | 590 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207554_100075 | Ga0207554_1000751 | F004397 | AMSEFDLKVALIIFVTKFIDPFAAVPALVAGYFCRTWWQVVIAAAAVGIFVEMILVLFEPTPGVHQGRLLMAVLAAGVWSNLAFAFKTWRAKRA |
| Ga0207554_100139 | Ga0207554_1001393 | F048418 | MPIHLPPKARVKAVPARRQAAINSIDWLGLWALSVAFCAIVLAGIAYFMIGDNTGASCILVGAAAVIAIVVRFGTDRDEARDEN |
| Ga0207554_100253 | Ga0207554_1002531 | F003059 | MMRAGITAGMLAGAVIVTAAVPAAAQVRDAVYRGTLVCDKLPFSAGKGREAIEVTIAGGTVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDG |
| Ga0207554_100342 | Ga0207554_1003421 | F025530 | MSDMQISTGTMMRISEAARDNIAAGIWFAVLAGSLFLTAHGQSILMTAGLMLELTAAYSTFVLCGKGARSLFVHAVPYAFALAGAVLLCLAPDFPNAVQASLVFLGVTALMHGSVVYSALKNSPESEDPAYASAT |
| Ga0207554_100474 | Ga0207554_1004741 | F070441 | MRISTLDISGTTTTVRRHEALLRFARYLLVYNLAIISWVVISKLSQMPSFEGLLEWLTGPTWKFAALVLGSVGASYLILAHRLWWAYAVIMLAQVVYFFSAGSAELAVMRASVLFAYGVITLPPMRPLAPLATDIAVMVICFCYIMIVLCLYSAAWVASGGRVPQGAYGRRPTPLEPLRPSRLLDTFLPGHRSQDVTLWEGAVFALSSLLFVAASMAPFYGIRRVQNAFQSTFATQVQQVCPAQPPEAMIACWAQFYPWSRVAIDLGAPIVIAVICLVLANRLRHFGRQHFINRLA |
| Ga0207554_100525 | Ga0207554_1005251 | F017166 | RTRGSGVRFATLLALAVMVFTGWLYLGEKDAVRSTKADVVAAADRTAVALSQSADPERNTDADAEDVFKKHVQTPSALEDLAVKQSVESISAGRLRQSVKISARARTTLSEFFSMQGAEIDITATHDFDRKK |
| Ga0207554_100588 | Ga0207554_1005881 | F050525 | MRGFAGLLAYLAGVSAIFGIGIVGLMALQSPTERTPSSAPVAAASHTESLAKPVKRPVDDKKTAHRNQKHKKEHVTRKQPHEAPFTDAGRNAYGYAEEPRRIDPNRFLFFGR |
| Ga0207554_100636 | Ga0207554_1006362 | F002508 | MSNDENTQHYARWRNSEVSRNFHRLGLLVAAIILTAGLLLMAKDALGLRLWDLLPADIPILARGIAIGLTGIGLVSLAAYG |
| Ga0207554_100690 | Ga0207554_1006902 | F028554 | VLQDQVNFLKGQMRKAKQVRNRALSAGEGRRAIIVMAALTGLFFLAAFVTAGSLLSTDPRPMSSLSKVTPLPPTEGGEAASRVASIVMETDKKGRCEERQFDNRTGKMVSANYVNCDARLEPERDSTPSENINRERIRAILGAFKK |
| Ga0207554_101035 | Ga0207554_1010351 | F099776 | RHVRSHVFKTAQIVVAESAPTIECRARDLSGYGARLCLSTTYGLPQQFDVIIDGKRRSVRPVWMTYTEMGVMFAEASQKSADLVECERDIASLIELLKMAEEKWPSSESYEISETEMLCRDQALLDMWPEACRRIGFSKREFPIDVIKLWQKQMGWPN |
| Ga0207554_101036 | Ga0207554_1010361 | F002315 | MKRVAVLSMAMLTVAFAADKKTYRYTCKGGAFTVTAAVEASGRWSKAGPVVLQIGSEPLQTLTADPDAPDADSFSNKDYEFYALKAFITLTRKSHGVVVKTYNACRAE |
| Ga0207554_101040 | Ga0207554_1010403 | F082926 | PSHRREPPRRYFSRMQANVREASMPELSATEQPEQSNIVTWKVISIGTAIVVVVFLFLWL |
| Ga0207554_101157 | Ga0207554_1011572 | F021340 | IVAFRTDQGFFIKFSKAVCPLNKRHSKLQTFQAHRTIARANVARSQFWHVAIVTSFFVIVLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLQDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKPKQEKPATFTWGK |
| Ga0207554_101408 | Ga0207554_1014082 | F081321 | VRALCEAREFRYVAVVPVRSVTSGLVMRAVMCTVLRAAALISLALVLVSPTHAACRGNCEPNVEVARAAMQQIFKQTFLSPYTLVSFERLDGRSGERYGGAFYEMRIRAVLHYDGVRLRCRRPSCPELHHYLLENDAASKKATVAGWLFLQQDGEGDWQPVPLTPGPQ |
| Ga0207554_101560 | Ga0207554_1015601 | F095448 | SPVMMASTLTHQPDPAIPNIVCPKCGLRMQVAAIEPAGDNDRTVTFGCDCGHRYDLSERAIVALARDSSDRW |
| Ga0207554_101586 | Ga0207554_1015862 | F028161 | LSLAAALAVVAIQAPHAQDNKNVREDDYVRKVPLEDFKVPIVPIIPPGSSLDLRPGRTPDSSDRIYNTTPFSRDQTTPSIGLSIKSPFDDRK |
| Ga0207554_101639 | Ga0207554_1016391 | F045439 | MSRSGFSRRTFLQGSVGLTVANFVPGTTPFAHAATM |
| Ga0207554_101769 | Ga0207554_1017692 | F020078 | MHSATRFCWQSGVIALATIIFAFLVPGIALCKVVSLTSIASAIAITTLVAGFGLYLAGQLIEKRTPQSERVDHYLQASILVTAAGLLWGHVVLQTGPWRDRSIEPGVAFAIVAGCGVAGA |
| Ga0207554_101776 | Ga0207554_1017761 | F034995 | ELLAVYGSVLLGIAVQVGRAKWSGQSLFPFGLFKAGMWGVLVAASAYFVAGGVYGLISYGAFDKVIGGTLWGLLAIFWGVFGALVSAGLALLFYAWRGSAGYQPPGSAGLGTPRS |
| Ga0207554_101992 | Ga0207554_1019921 | F054151 | PDMRKVDQYTLADHFRALAEGLSLRAVSERAPAQRAELQRLAECYAELAKQQSPADHFARGVGPR |
| Ga0207554_102075 | Ga0207554_1020752 | F017759 | LLFGVVVGLLNSECPQQNRAYESKYGADSQHIELQGKVHGSASLVDARRLARNQRRPKVPAIGPVLFAGEIAYRICAMDNRLIVRLKKSEEPKILTVQNSRGTEFFMANLRQIPSILRGNDSTGFFAKEI |
| Ga0207554_102120 | Ga0207554_1021201 | F084203 | MRARVRRAMWMLGALALAVPASAQESTDVAPLTPEDSALLANALVFDPAALVTAPKKPLRLPGYRNNEYDITRTQKVDGSTTVVVKQPLQTEWSNSVGADLAPSRPATYPLPLPTEHNN |
| Ga0207554_102217 | Ga0207554_1022171 | F002508 | MPMSNDDDTHVYTRWRDSQVSRNFHRLGLLVAAIILIAGLLLMAKDALGVRFWDLIPADIPILAGGIAIGLTGIGLVSLAAY |
| Ga0207554_102292 | Ga0207554_1022922 | F104619 | MHKTPKDIARSIRAFRNAHRLGLLRSVRISPGKRACEAAMAQDRMEYLGNAVPRLP |
| Ga0207554_102295 | Ga0207554_1022951 | F077827 | VTQGGIERSALFDKPRDLFIVVYLQPLPRRCAMDSAACLVDGRKPTDIFLETDSSGNATWLNFAGPGMKASRLLHVAIATSENEDLGSFRTRCGEVPGFPMTLFDVMAPSPNLYYGPLASTLNAKNKGTGSMGDFCELIGDKPDAAIMKLGTSVAGVLGGH |
| Ga0207554_102445 | Ga0207554_1024452 | F017216 | CGAIYEVIETKGPSRESRPAKCVLCDREMFAWEGDNVGQLHLIWRPDEDRE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |