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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 | 3300026711 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072032 | Ga0207489 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G09A2-10 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 15493804 |
| Sequencing Scaffolds | 14 |
| Novel Protein Genes | 15 |
| Associated Families | 15 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium | 1 |
| Not Available | 6 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 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) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000268 | Metagenome / Metatranscriptome | 1411 | Y |
| F011965 | Metagenome | 285 | Y |
| F021340 | Metagenome | 219 | Y |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F033457 | Metagenome / Metatranscriptome | 177 | Y |
| F045439 | Metagenome / Metatranscriptome | 153 | Y |
| F048216 | Metagenome / Metatranscriptome | 148 | Y |
| F052694 | Metagenome / Metatranscriptome | 142 | N |
| F053375 | Metagenome | 141 | N |
| F060311 | Metagenome / Metatranscriptome | 133 | Y |
| F063910 | Metagenome / Metatranscriptome | 129 | N |
| F078970 | Metagenome / Metatranscriptome | 116 | Y |
| F084203 | Metagenome / Metatranscriptome | 112 | N |
| F090709 | Metagenome | 108 | Y |
| F098176 | Metagenome | 104 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207489_100528 | All Organisms → cellular organisms → Bacteria | 737 | Open in IMG/M |
| Ga0207489_100560 | All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium | 727 | Open in IMG/M |
| Ga0207489_100585 | Not Available | 721 | Open in IMG/M |
| Ga0207489_100703 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 683 | Open in IMG/M |
| Ga0207489_101045 | All Organisms → cellular organisms → Bacteria | 613 | Open in IMG/M |
| Ga0207489_101048 | All Organisms → cellular organisms → Bacteria | 612 | Open in IMG/M |
| Ga0207489_101358 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 572 | Open in IMG/M |
| Ga0207489_101437 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 562 | Open in IMG/M |
| Ga0207489_101452 | Not Available | 561 | Open in IMG/M |
| Ga0207489_101523 | Not Available | 553 | Open in IMG/M |
| Ga0207489_101637 | Not Available | 541 | Open in IMG/M |
| Ga0207489_101926 | Not Available | 517 | Open in IMG/M |
| Ga0207489_102086 | Not Available | 505 | Open in IMG/M |
| Ga0207489_102094 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 504 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207489_100528 | Ga0207489_1005282 | F000268 | MRVVAVMLLLSAGIAAEAVSYSFISKASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMVFPDPFDE |
| Ga0207489_100560 | Ga0207489_1005601 | F011965 | RQIFCLNPRNPSQTKFIDILKRTINGVYQSDPNWPTSAPYQTIGIHAMYGSATGTWLDVGFHRASWGAGGDSVFNLSTNKWSLLKANRYSSGHSSIGTRFVNGSGSINGMYSGGACLRNPSNLMDATRYTFIMQPPSTATGWHDGEHSSWFNASTNPHAPVLFSRYNCTAPPGPLTWYGEIIAAATDGSNTVWRFAHNHNGGLVGFAGQSFAQISNDGRWALFSSYWDGTLGAAAGDFGFSK |
| Ga0207489_100585 | Ga0207489_1005852 | F045439 | MSRSGFSRRTFLQGSVGLTVANFVPGTTPFAHAATMEEQTIAAAKAVGKADVN |
| Ga0207489_100703 | Ga0207489_1007031 | F084203 | MRARVRRAMWMLGALALAVPASAQESTDVAPLTPEDSALLANALVFDPAALVTAPKKPLRLPGYRNNEYDITRTQKVDGSTTVVVKQPLQTEWSNSVGADLAPSRPATYPLPLPTEHNNGLPAGAAWASVGVPNLASLDARVDPTNEQGK |
| Ga0207489_101044 | Ga0207489_1010442 | F063910 | FRVNQVTNKQPNGQEVAMSERYNLELISRRRAFSFLGLTAALSVAVPATVLIATDAEARVGNPGSAVSVAGANRRDRRQDRRYKKSPTTPTTTGQGEKK |
| Ga0207489_101045 | Ga0207489_1010452 | F021340 | RTIARANVARSQFWHVAIVTLFFVIVLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLQDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKPKQEKPATFTWGK |
| Ga0207489_101048 | Ga0207489_1010481 | F028554 | NFLKGQMRKAKQVRNRALSAGEGRRAIIVTAALTGLFLLAAFVTAGSFLSTDPQAMSSVAKVTPLPRTEGGEAASRVASIVMETDKKGRCEERQFDNRTGKMVSANYVNCDARLEPERYSTPSENINRERIRAILGAFKK |
| Ga0207489_101358 | Ga0207489_1013581 | F048216 | MSPSALNPTTEVIKVVCLMSLEEMPRDVKALEERIIEKVQQSGREFYAAVFYAFERRWLQERGGDYTAVRWRTINQVTPFGLIRLPVRVVRERGAQKGGYLSLSKALFKPKATRLLSPWVEKGVLEAATCSNYRPAAAELWRWVRVKVSAWLIWKCVQFHGARLCEQLERQWWPD |
| Ga0207489_101437 | Ga0207489_1014372 | F033457 | MRNFMSYVLASAFVVLLLAVVTPPGFGVAARPSIEGQRLAPQIVDRTRKSDQLPVPKATGRRLTPPAAPVLVGCDPVFSALSKDKQANYPG |
| Ga0207489_101452 | Ga0207489_1014521 | F090709 | HAKPDDARPAYAFDDAINRHAIDPSVTLPIDKLNWMQNELVKAGNLKAPFDLTTMTAPDIRAEAAKRATK |
| Ga0207489_101523 | Ga0207489_1015231 | F053375 | MHVTPFSAATILVFATASPLHAQGIEVFGGYSVTADYVQNRPAILVVDQKVSPFFSLGSGPTGFEASFKHDVRNGLGIKVDVSGYS |
| Ga0207489_101637 | Ga0207489_1016371 | F052694 | WSGPLAKGTNTHVVDDGTVSWTLPAGQCPAAPDGLTGSGERHRVTITKVNADGSTTIIINDVVRGTAWDATGTYKFVYENHSIDQVPAGGGVHQIGMEDNFILNGNGSVGHLAVGFNWAWTYTDPNGPFDVLPLANLVEWNTRGEPLLCDGL |
| Ga0207489_101926 | Ga0207489_1019261 | F078970 | SDLASKLSSTKSIPEAFETYTKCVSQRMQMAADDGRKLAEEAQQITQKFAQSLGNGRPGMTS |
| Ga0207489_102086 | Ga0207489_1020861 | F098176 | AYWLTGGGFTGWHQIHHEDENIALSTAAQLPPQCALVASYRNTSEVTVPRGRKRNRMYLGLLRADLLENDGTIIAGDATAVRAAMNELNTALEAITDADPIFAPQGLAVVSPTAGECYEVNEVGCGEAVDTHRSRRQKEPENMIWQAAS |
| Ga0207489_102094 | Ga0207489_1020942 | F060311 | PLRRPFFFARPFVVGGRMIDYITDMVSKAQRIVLVDHARLPWRFFGRLTAVQAGL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |