| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300021262 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0131209 | Gp0238801 | Ga0213904 |
| Sample Name | Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Shaw_1 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 10515613 |
| Sequencing Scaffolds | 21 |
| Novel Protein Genes | 22 |
| Associated Families | 22 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 12 |
| All Organisms → cellular organisms → Bacteria | 9 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | terrestrial biome → land → soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: West Virginia | |||||||
| Coordinates | Lat. (o) | 38.083 | Long. (o) | -81.98 | Alt. (m) | N/A | Depth (m) | .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001750 | Metagenome / Metatranscriptome | 642 | Y |
| F002064 | Metagenome | 597 | Y |
| F002279 | Metagenome | 575 | Y |
| F002324 | Metagenome | 571 | Y |
| F002338 | Metagenome / Metatranscriptome | 569 | Y |
| F004159 | Metagenome / Metatranscriptome | 450 | Y |
| F004903 | Metagenome / Metatranscriptome | 419 | Y |
| F006090 | Metagenome | 382 | Y |
| F007132 | Metagenome / Metatranscriptome | 357 | Y |
| F007509 | Metagenome / Metatranscriptome | 350 | Y |
| F009712 | Metagenome | 314 | Y |
| F010196 | Metagenome / Metatranscriptome | 307 | Y |
| F010716 | Metagenome | 300 | Y |
| F011178 | Metagenome / Metatranscriptome | 294 | Y |
| F013826 | Metagenome / Metatranscriptome | 268 | Y |
| F020065 | Metagenome | 226 | Y |
| F025567 | Metagenome | 201 | Y |
| F040704 | Metagenome | 161 | Y |
| F056041 | Metagenome | 138 | Y |
| F058376 | Metagenome | 135 | Y |
| F061939 | Metagenome / Metatranscriptome | 131 | Y |
| F079081 | Metagenome / Metatranscriptome | 116 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0213904_100028 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2921 | Open in IMG/M |
| Ga0213904_100065 | All Organisms → cellular organisms → Bacteria | 2479 | Open in IMG/M |
| Ga0213904_100067 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2456 | Open in IMG/M |
| Ga0213904_100089 | All Organisms → cellular organisms → Bacteria | 2313 | Open in IMG/M |
| Ga0213904_100160 | All Organisms → cellular organisms → Bacteria | 1977 | Open in IMG/M |
| Ga0213904_100177 | All Organisms → cellular organisms → Bacteria | 1931 | Open in IMG/M |
| Ga0213904_100207 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1841 | Open in IMG/M |
| Ga0213904_100252 | All Organisms → cellular organisms → Bacteria | 1757 | Open in IMG/M |
| Ga0213904_100297 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1699 | Open in IMG/M |
| Ga0213904_100308 | All Organisms → cellular organisms → Bacteria | 1674 | Open in IMG/M |
| Ga0213904_100471 | All Organisms → cellular organisms → Bacteria | 1471 | Open in IMG/M |
| Ga0213904_100615 | All Organisms → cellular organisms → Bacteria | 1347 | Open in IMG/M |
| Ga0213904_101069 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1085 | Open in IMG/M |
| Ga0213904_101241 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1002 | Open in IMG/M |
| Ga0213904_101723 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 842 | Open in IMG/M |
| Ga0213904_102041 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 766 | Open in IMG/M |
| Ga0213904_102205 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 730 | Open in IMG/M |
| Ga0213904_102871 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 606 | Open in IMG/M |
| Ga0213904_103006 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 587 | Open in IMG/M |
| Ga0213904_103518 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 526 | Open in IMG/M |
| Ga0213904_103742 | All Organisms → cellular organisms → Bacteria | 503 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0213904_100028 | Ga0213904_1000284 | F013826 | MAVCWRCPVCEEVSCETDVNAAGMPLACDHCERAVLPAEALCAVCDNPNPWARKDSLHFVCRECGQTQTFYGLAVTSLH |
| Ga0213904_100065 | Ga0213904_1000651 | F079081 | MIESFKQLEEVGRDRDLAEVFLEVDEQEHGIPGEQILAALRKRREVMRDCIERGKSGGLSMGKLVGNEAKKLN |
| Ga0213904_100067 | Ga0213904_1000673 | F002324 | MGEIKLFQICYEGELTVDVSHAMRRLGAEPNFDQSWQVWLHESRHAAPIVRWMRSHIADDARLLVATTQFSTTRDFLLIRHSLTPGADYRELHDAIERLGIVVELPFESTFVVRSSDSTHPAIDVQTLGRALGELCPDESLMVTGVSHDWAFCNSGVSRMYVADEGEQRILLRSF |
| Ga0213904_100089 | Ga0213904_1000891 | F006090 | PNPEICKVKGVMFGGRKQFLIDSAGEQGFYNLIAHLSPRTMTYARTPLASSWCEFESLIELDRTIYNTLKAQFPNVLALIGAASAELGIGRVYKSLDSAELLKFLENNALFHSQYQKFGNVRVEKTPNGAKMVYTDYPCYSPIYCASAHGFFFESMLRHGANDPTVSETKCQTLGDSSCTFEMTWR |
| Ga0213904_100160 | Ga0213904_1001602 | F061939 | MRRARYILVAAILAAFATGCFDIEESIDLKKDMSGTANLKLGVDMEPMITIMAMVQRGMEGKKGPPTKEEIAAAKADFKKNMKTSKSEAPPDPKKDMDKNLPPGIKLLDASVTEKEFGMVTNMKFAFDKLAHLVDVKMPSKADAKGGPPDPTKSNVLDSPFQGLDVVETASTITIRTKPQNPADKVKSETSSQGPPMDPETQKMMEDAFKGMRFAWKITAPFEVVSSNAHRREGNTLIWEYDFKKLQALGDNPKAMDDLAVKVVYKK |
| Ga0213904_100177 | Ga0213904_1001774 | F009712 | MSVLFGRLFQMIGMVLLPYGLLVGLLRDNIQLEVRLLFIGGAFFVVGWFMARK |
| Ga0213904_100207 | Ga0213904_1002072 | F004159 | MATHKQSDDFERSAAGMDYEDPIRERAASIGAAIAENGPEAIFEEIENLLPEQWREQIKTFPIAAVLLGLGVGIFLGMKKGDEIISAGTALVTSAAMSNVNEIFGKSGE |
| Ga0213904_100252 | Ga0213904_1002522 | F025567 | AAPVVVKAAKAVEKRARRPRTRVTSSGPVVANWFSQEKARPSSFIPAPPRAEAPSLVAAPPASSDRLIRPEELHELAVRTVPVRVDVEQGAGRVFISVNPQEATLRTGEGIEWDFRYLNGADVIVDEIIIEFDRPSPFGTQSFKSRKPGAARPHRQMSGGVSQASAGKRLQYTIRAMTAFKTELANIKPFVTIV |
| Ga0213904_100297 | Ga0213904_1002971 | F001750 | MPKVSAEVPADLARQIDRIIRDGWYADEEAVVREALLQFLDAKSFLGDSPRMLHRFAADALNDSKPDVALKFVDRAVSLLNAQQMTDFTLYQSLVELRVQILLILGRESDALTTLEEAREKMPNNPSIAKWIEKVRKSQ |
| Ga0213904_100308 | Ga0213904_1003083 | F002064 | MTAVDTATSSLTEQQLGVLYQYTIEAYKTFEKLAENLPNPMAAMTFKQFAVDERGNRDLLELKIAGAGPRGVRATLGADMQFDEIHEGDLSYREAAEFLVAREKTLQRRIEELTKDAAPADRNLLIYLSGVKRAHIVELERELVLIRGDADWWKREDAEWRIVHGHRE |
| Ga0213904_100471 | Ga0213904_1004712 | F020065 | MSTKKSQIQQIKEGLAMRQKTYGGRLQPFGPKAPLPTKNAVNLSTVPASSEEKYNGGKDE |
| Ga0213904_100615 | Ga0213904_1006152 | F010716 | MNPGEKKQIEAEIERARDGVGDRIDELDAQLRRKLDFDAMAREHAPQIIAGGAVVGFLVGFGFPKLLKRAIQIGVPLALIAYKVKTSRDGHESEGFAEV |
| Ga0213904_101069 | Ga0213904_1010693 | F002338 | MQELKAEKPTESPAGTNVVTRLMARLAEEGFTTDQSPEEWEEFGEIIFKRDEKISIAAGETVFIFTRIPDLNDRILRQTSDAVVHTYAAKSVQQKVLSVLQSTTVYHCLVCTTEQPYSEMLDNYVIRRGGATFIPVILVPEINQALYPMLEEGVGTVRPRIDYLQYLLGERRETVNMHRTTVQAFYVSIAVVAVLLIAIGFSFVMH |
| Ga0213904_101241 | Ga0213904_1012412 | F010196 | VSGPRLIVGIIVMGIAVPLAIVFLLDLSTLTQFLTVAATTFLSWGVADLFATILEKPRLKGRSPTAAIREDWERRTTE |
| Ga0213904_101723 | Ga0213904_1017232 | F002279 | MAANPSPAPVPDWARLVTDSMRQYGSWHTYNKLVEARDMYSNDLGLRGYLEIIRTAIVREFLNTPRGLQAVPRLSAEFLTNFDRFNLNAQEGYLVSLIDGRLDLQKLTILSPFDAFNTFFILAKLQQERAITVPQ |
| Ga0213904_102041 | Ga0213904_1020411 | F056041 | MAVRGEEVASSIDAHVREAVERMVSEIRTSIEDIRTAVDSQLKAALQSVQADVNSFSFLPHIQKTIGELEETFQAEQPAPVVAPAGGGDVSRLKRAVQAVERGKSQVDILNALLE |
| Ga0213904_102205 | Ga0213904_1022051 | F007509 | NAALEHAIADIANEAKVKFEPRAIAALRQRLGIDRLLADKFSREVPEIRVAVSEAERLATLAGEGGRVDAAMVEREVTAVEGGARYEFGSLFSEGKIIEAIAKLRELVAQGRREDPRASIDIQYGKFLFPLADELRQLIAIHSFARAANLNLRQSIQYNRFKDTIAEKLGDYMKNAGIVRQRPHPFPLHKKWSAAGAQREEDLWRALALVADLEVKRKSGGLPVDVGMETFLLSRLRA |
| Ga0213904_102871 | Ga0213904_1028712 | F011178 | MRIAVNERGLGLRERLRDRLDQAAQLRCKEHNAPVIAVTIHGRENGWFDSIWTTCCSSLEQRAISIVKDRC |
| Ga0213904_103006 | Ga0213904_1030061 | F004903 | MGRYLQKISLRPYSDSEIWTGWELEGRTDEIEGLLLADGMSAEELSAYGVTEFQMIPAEYLERERRPRR |
| Ga0213904_103381 | Ga0213904_1033811 | F058376 | MPTEVEKLRDIARKFWRGEDIFCEKHPGVKMAGTFVQTTFADHVFLTCPKGRETITLPQRPRQVEFHPQQVIGMVENIQRGDSNLCYRCQAKLEIEAVEN |
| Ga0213904_103518 | Ga0213904_1035181 | F007132 | MTREAVRATAGKVLRSEDLIGDEKQAAADILQANPHFGNPHVVRCGWCHQTKTLFRDEDEKPFKHIPHGWLCETCDLRASSQEVKF |
| Ga0213904_103742 | Ga0213904_1037422 | F040704 | NSVDHDRSIAEEVANTTRCDVNIPMNEVGVDLSSVWRRALRYRAEREGTANALRVREGQQIEPRSRCSEGRWTFDGTTLRFSHEIATAPPDNPMPLTMKLVVGPSGIAPSSLLP |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |