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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 | 3300027482 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0091573 | Ga0207460 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05.2A2w-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 29167954 |
| Sequencing Scaffolds | 20 |
| Novel Protein Genes | 21 |
| Associated Families | 21 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 2 |
| Not Available | 12 |
| All Organisms → cellular organisms → Bacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 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? |
|---|---|---|---|
| F000412 | Metagenome / Metatranscriptome | 1169 | Y |
| F004960 | Metagenome / Metatranscriptome | 417 | Y |
| F012497 | Metagenome / Metatranscriptome | 280 | Y |
| F015863 | Metagenome / Metatranscriptome | 251 | Y |
| F017166 | Metagenome / Metatranscriptome | 242 | Y |
| F018801 | Metagenome / Metatranscriptome | 233 | Y |
| F020078 | Metagenome / Metatranscriptome | 226 | Y |
| F020986 | Metagenome / Metatranscriptome | 221 | Y |
| F021340 | Metagenome | 219 | Y |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F038480 | Metagenome | 166 | Y |
| F050353 | Metagenome / Metatranscriptome | 145 | N |
| F051249 | Metagenome / Metatranscriptome | 144 | Y |
| F052029 | Metagenome | 143 | Y |
| F065229 | Metagenome / Metatranscriptome | 128 | Y |
| F071396 | Metagenome / Metatranscriptome | 122 | N |
| F080327 | Metagenome / Metatranscriptome | 115 | Y |
| F083399 | Metagenome | 113 | N |
| F089000 | Metagenome | 109 | N |
| F097297 | Metagenome / Metatranscriptome | 104 | Y |
| F097964 | Metagenome / Metatranscriptome | 104 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207460_100093 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1520 | Open in IMG/M |
| Ga0207460_100391 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1069 | Open in IMG/M |
| Ga0207460_100646 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 939 | Open in IMG/M |
| Ga0207460_101253 | Not Available | 777 | Open in IMG/M |
| Ga0207460_101332 | Not Available | 764 | Open in IMG/M |
| Ga0207460_101531 | All Organisms → cellular organisms → Bacteria | 732 | Open in IMG/M |
| Ga0207460_101819 | Not Available | 695 | Open in IMG/M |
| Ga0207460_101975 | Not Available | 677 | Open in IMG/M |
| Ga0207460_102006 | Not Available | 674 | Open in IMG/M |
| Ga0207460_102246 | Not Available | 653 | Open in IMG/M |
| Ga0207460_102760 | Not Available | 613 | Open in IMG/M |
| Ga0207460_102919 | Not Available | 602 | Open in IMG/M |
| Ga0207460_103167 | All Organisms → cellular organisms → Bacteria | 587 | Open in IMG/M |
| Ga0207460_103350 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 577 | Open in IMG/M |
| Ga0207460_103745 | Not Available | 559 | Open in IMG/M |
| Ga0207460_104104 | All Organisms → cellular organisms → Bacteria | 543 | Open in IMG/M |
| Ga0207460_104401 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 531 | Open in IMG/M |
| Ga0207460_104470 | Not Available | 529 | Open in IMG/M |
| Ga0207460_104788 | Not Available | 518 | Open in IMG/M |
| Ga0207460_104826 | Not Available | 516 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207460_100093 | Ga0207460_1000932 | F028554 | MRKAKQVRNRALSAGEGRRAIIVMAALTGLFFLAAFVTAGSLLSTDPRPMSSLSKVTQLPPTEGGEAASRVASIVVETDKKGRCEERRFDNRTGKMVSANYVNCDARLEPERDSTPSENINRERIRAILGAFKK |
| Ga0207460_100391 | Ga0207460_1003912 | F038480 | MKTVLVSIGLCLAATAVHSMPLSLLNANGTQLVVTVADQCGDRCGSSRSYVKDRRTVMAGYSGGYVLVRDPLIQRRPYCPFGSYVACIMSGTYCIDLCH |
| Ga0207460_100646 | Ga0207460_1006461 | F018801 | ARAGRNVTMGLTILSIPFIALGVFLKPYALENSRCIGFAGLGPYCFEQASSMPEVIKYGSVAVGFAFLYGGRLQIKRRRNGR |
| Ga0207460_101253 | Ga0207460_1012531 | F015863 | GLVFGASYASALINRVMGPWSSTAIHQDGSLSHMQFGVDLPRPEWVPVYPGAWVVGGSKITSVEHPAGFHGLDLGTRASLDEVKRFYTEQLTAAGFEVSDLGLMGLNPMTAAYLGVDGMLSAKRHATDDAIDVQIRTPDGIIPSRLLQIHWRKISATPG |
| Ga0207460_101332 | Ga0207460_1013321 | F020078 | MRAGIRFCWQSGAIALAAIIFAFLVPGVALCKLVSLASIASAITITTFVAGFGLYLAGHLIEKRDPQCERVDHYLQASIPVTGAGLLWLHVILQTGPWRDRSIEPGVAVVIVVACGVAGALLMIRRAK |
| Ga0207460_101531 | Ga0207460_1015311 | F021340 | MRHSKLQTFQAHRTIARANVARSQFWHVAIVTLFFVIVLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLQDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKPKQERPATFTWG |
| Ga0207460_101780 | Ga0207460_1017802 | F097964 | LELLLYTTDRLELIVERVTFAHHALRSRLIVPEIGVFRFLAQFGETSGRGVDVKDASSAAARTA |
| Ga0207460_101819 | Ga0207460_1018191 | F052029 | DSVAEQEINNTGALSEQFVTIGAASLALLVVAAIAVLIGMA |
| Ga0207460_101975 | Ga0207460_1019752 | F083399 | MAEESAVSGDTRSWGFFATFVLGAIALLAGQLAGMAALVGWYGFDLRNVPVLSQHGGAIIVFIFVSAPVQVAILALAAGYKGNIADYLGYKLPRRGEVVLCLAILAAMIAVGDAMSWLAGRSVVDRFQTDIYQAANSVGQLPLLLAAVVFLIPI |
| Ga0207460_102006 | Ga0207460_1020062 | F089000 | MGEPTPATPASKYFAATVAMIAGACFFAVGAGLLPIPGGPSNLHGPLLLVLCVGLAFFLAGLAIIIQLLGHANDSGDLPAGAPLWLRAMQYLIGLCIFVCFGAISSWIAFGPG |
| Ga0207460_102246 | Ga0207460_1022461 | F051249 | MTDPPDEAERIQASSRGAADERVAVVATLKPGSRERAGAILAQGPPYGIDRAGFRRHSVFLAEETVVFMFEGPGIERLVGDLVNDPARSGGFGVWAPLLDGTPALAREEFYWEA |
| Ga0207460_102760 | Ga0207460_1027601 | F017166 | DVRSIKAAVTAAADSTAVALSQSANPERNTDADADGIFIKHIQTSSTLEDVSVKQSVEPISAGRLRQSVKVTARARTTLSEFFNMQGAEIDITATHDFDRKK |
| Ga0207460_102919 | Ga0207460_1029193 | F071396 | MNSALAQVVIPFGDFDDGFEKYLVATITFLLLCFAVWQY |
| Ga0207460_103167 | Ga0207460_1031672 | F012497 | FKSSKDPEAAMSLIAHLLSPEETVAVMKDSYGQFGPVLDKARAASKDYFNKNDNYRTFGRAAEWFAPTGWPGPTTAPAAEVQASNVLTDAPAKVIVDKWSVDQAIDWADKKIKEIYDTLK |
| Ga0207460_103350 | Ga0207460_1033502 | F004960 | NIKVSVANSTTYCIVNTVPGTVKYHKSGPGADIKSGSC |
| Ga0207460_103745 | Ga0207460_1037451 | F020986 | ARPGRQMKTRAIATELDRAFAAARVKGRMGGVVLCDTIAPLYAIHKALKATHASGELTDQQYTEKGRELLEILGNAVVSLLIQQAMSKHNH |
| Ga0207460_104104 | Ga0207460_1041041 | F080327 | IHRDRARRFIGQRCTRYNFSPVNRRTCSAQFSTESVVITVLAMVRFGMRIRSRADLLKICFRQRRLVRRQCVVCGAAARKENEGDEDRQQD |
| Ga0207460_104401 | Ga0207460_1044012 | F065229 | AIILSDTIPAMLLIRFAISIFALTLLGLAISLSVAQSEQETNAARAAALIHQ |
| Ga0207460_104470 | Ga0207460_1044701 | F097297 | KLTKSDASAATQDVINEKEFKKGAAHESAAVVIVDNPAPQTVVHENRNAAVAEITPDEEAAVLATVAAVLAKIDPQPPTADDNVTRPEPVREDAELSAAKRAIIHEWESWSALHSDELGDPKVAEYFFRHLQTKKPQLLNFGFQDKLMMVRRCLVD |
| Ga0207460_104788 | Ga0207460_1047881 | F050353 | ERPHKAPKRAVRLSILGRAAQEARMRRALNVALVVAGVLLNVLASRSTTVANSQAAQRSAQNGTIVYGLHVALPSNMKNFPPELVPLP |
| Ga0207460_104826 | Ga0207460_1048261 | F000412 | QIPSPCSLKAITHATXSKIGSSRSRWNRGTEYYPVGMKTHIEYPDIFFXKYNSPYHIEMGTYVLIDLLXAGGSVAPAQPTSLRXNXGIFAQTCSTCLEGPYRKESSGAHPCRAIDRAXEPRIPSPCSLKAITHATGSKIGSSRSR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |