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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 | 3300026976 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072064 | Ga0207525 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A4-11 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 29394354 |
| Sequencing Scaffolds | 18 |
| Novel Protein Genes | 20 |
| Associated Families | 20 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 1 |
| All Organisms → cellular organisms → Archaea | 2 |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 1 |
| All Organisms → cellular organisms → Bacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2 |
| All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon | 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? |
|---|---|---|---|
| F002896 | Metagenome / Metatranscriptome | 522 | N |
| F005305 | Metagenome / Metatranscriptome | 405 | N |
| F010036 | Metagenome | 309 | Y |
| F017530 | Metagenome / Metatranscriptome | 240 | Y |
| F024580 | Metagenome / Metatranscriptome | 205 | Y |
| F025757 | Metagenome | 200 | N |
| F036770 | Metagenome / Metatranscriptome | 169 | Y |
| F042410 | Metagenome / Metatranscriptome | 158 | Y |
| F053878 | Metagenome / Metatranscriptome | 140 | Y |
| F063305 | Metagenome / Metatranscriptome | 129 | N |
| F063830 | Metagenome | 129 | Y |
| F068280 | Metagenome / Metatranscriptome | 125 | Y |
| F079360 | Metagenome / Metatranscriptome | 116 | N |
| F083875 | Metagenome / Metatranscriptome | 112 | N |
| F084287 | Metagenome / Metatranscriptome | 112 | Y |
| F087642 | Metagenome | 110 | Y |
| F088474 | Metagenome | 109 | Y |
| F089138 | Metagenome | 109 | N |
| F097305 | Metagenome / Metatranscriptome | 104 | N |
| F100610 | Metagenome | 102 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207525_101781 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans | 978 | Open in IMG/M |
| Ga0207525_102053 | All Organisms → cellular organisms → Archaea | 930 | Open in IMG/M |
| Ga0207525_102117 | Not Available | 918 | Open in IMG/M |
| Ga0207525_102737 | Not Available | 833 | Open in IMG/M |
| Ga0207525_102836 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 823 | Open in IMG/M |
| Ga0207525_103089 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 796 | Open in IMG/M |
| Ga0207525_103284 | Not Available | 777 | Open in IMG/M |
| Ga0207525_105920 | All Organisms → cellular organisms → Bacteria | 617 | Open in IMG/M |
| Ga0207525_106144 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 608 | Open in IMG/M |
| Ga0207525_106499 | Not Available | 595 | Open in IMG/M |
| Ga0207525_106858 | Not Available | 583 | Open in IMG/M |
| Ga0207525_107030 | Not Available | 576 | Open in IMG/M |
| Ga0207525_107091 | Not Available | 575 | Open in IMG/M |
| Ga0207525_107272 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 569 | Open in IMG/M |
| Ga0207525_108084 | Not Available | 546 | Open in IMG/M |
| Ga0207525_108245 | All Organisms → cellular organisms → Archaea | 541 | Open in IMG/M |
| Ga0207525_108644 | Not Available | 531 | Open in IMG/M |
| Ga0207525_109713 | All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon | 506 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207525_101781 | Ga0207525_1017811 | F068280 | MNRSIANWLATNPGGAVFATGLLGLLPFFGIGFFFFL |
| Ga0207525_102053 | Ga0207525_1020531 | F002896 | MDKMNEDTILHFYRILENSLLESDISKINEEDIDAWSQSFKKVVRESRENSGKGVFVPFLMWKLGEISPVEASKYLVNRKQDECRVSYDHNNVEYILRVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQDLYNECVKTFKDLLIHSDAQHH |
| Ga0207525_102117 | Ga0207525_1021172 | F063830 | MRTALVTASVLGLVFIGGTSARSDQASGQSRSHADFQGYWMGVDPVDGGDARRSLILRSDGKYALAARDSMLTLCDSTDRGFASFDDGSVVSRTVMQSNSLIIECFNNGATVQLHLRFELVERGLMIETATLPDGSPVSTIVLHKVSTN |
| Ga0207525_102737 | Ga0207525_1027372 | F083875 | MKGIFRAACLAILIAPAISAAQEYGCDKVNWGEEVLKAFPNASKGCHSVMMKNNQPYAKYVAEVESVDKNTKEVTLHMLDTKDKAFSKVVIAPKEGASVKIDGKDTPVAKLKKGDRVSFYVQHKKWGLYANPDGTAPLTVLSREQM |
| Ga0207525_102836 | Ga0207525_1028361 | F088474 | MELILEIDDDGCGRLQFELPADATAEDVAYIESLVPRIETGLLELRDPGTGQVVFSCRPSLTGESLLKTATRSEVKL |
| Ga0207525_102836 | Ga0207525_1028362 | F089138 | PPTAEPAGSARMLKEGMAKAHIVTVLQRYAHDIKRISALIPQGGGTTAQKAQSRLKQLKDAIHSDYKHRHAIVRSTQLTPLEQANLARTIRDVFFALQAIGVNTNPGREWRNALYGADMEIQRYVAELRGPSVEADGEDSDD |
| Ga0207525_103089 | Ga0207525_1030891 | F053878 | ARAAAPRVMAVILRDVSALDRQRLATLEWATRERREAIADIHRELAESIAALRAERAIVVDDVRQIVDAVLLRTAIFLIAGVLLAPVVAHVYALVWPRRWRKART |
| Ga0207525_103284 | Ga0207525_1032842 | F079360 | MRRTLTVAAIAVLVLTGIAKLVAAPSRTAAGTDTSIQPTISTYDLHTGYPGMNTLPVAEIPQP |
| Ga0207525_105920 | Ga0207525_1059202 | F017530 | PRRPAELAEEGKAGPMAQAFGQGLADRLTTGYPPSKVAEQVFHGIHDKRFYIVPAQPEVRQWATIRAQDIIELRNPTPRR |
| Ga0207525_106144 | Ga0207525_1061441 | F087642 | DVASEAFGRTMRVTLKTGPPADGDLGMAAQEVPRATIARERASSRAETDPVVRSAMELFRAELTEVKEEE |
| Ga0207525_106499 | Ga0207525_1064991 | F063305 | VSLRPVRSTESASGRAKPERRFVSRETARLLPIVVPVALSGFAVLAFAIGRFAASNPEPEVLAGVFALLLAATFVEAHPVPIEGISSEGISLAAVFIVGTAVIYGWAPAVVMGFLTRALIEMFQ |
| Ga0207525_106858 | Ga0207525_1068581 | F024580 | MKTLFNRNTAIATFAAVVIVGLAGFTLDRGHDGALPKGIIEVGNPTSLAVGDTLVASLPAVEVIGSREVTLADASKHADPQG |
| Ga0207525_107030 | Ga0207525_1070301 | F010036 | MQHDPKDDSSDSMLVPFLTAKSESISDELLRAIIDEHADPIIKKILRSKLRVSLNGRGTQQNQDALELAGDLRASIIATLRALRQNPNQTAIANFSDYVAIKTYSACADYFREKHPQRWRLKSLLRRRLRQNPRFALWQAEDKRWYASFSRHEVTRSAAEEPDASESVT |
| Ga0207525_107091 | Ga0207525_1070911 | F042410 | PEAVEVSRRLVEQMREIGGSIAVSPEARVEFERKYIEPWLAEHPLRDITFVRESPIARFADQSRASGDMVQSVGTMEELAVSLSQQARIYLGDLPRQVRGEVDLMRSDILPPEGLAAMQGDLHVSAAAADRIASTAEGMLPLALNERRIVLEEISRQRALVMEAVSAEQERAVGTLVRSFAQERTEMLRSF |
| Ga0207525_107272 | Ga0207525_1072721 | F084287 | LKNFSLAAPHFPEDPTFSQQMAAASTKVSELTPAVKLYNDGEFETAIPMLWRIYQAGRDNQDARSYLLRSYFNQGIAQLQNGLYEKAQESFGEVLALDAQDEEATRHRRFAERYRSGNLDLLGQIYVRYVSP |
| Ga0207525_107912 | Ga0207525_1079123 | F036770 | QQATPTSRQAVIAKSLYSVSSYKNWADKAKDAFDKDR |
| Ga0207525_108084 | Ga0207525_1080841 | F097305 | KKSDSRSQRLAAELRENLRRRKAQVRGRKAPAAGEGTKRPGLPPRGG |
| Ga0207525_108245 | Ga0207525_1082451 | F005305 | MEDLEKELGPLIENFQNLVKDAKSKKLESLREDEDFKKEFNQLSKDVIEPVMRKFESYLESKDVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRLIKS |
| Ga0207525_108644 | Ga0207525_1086441 | F025757 | VGLALSATRAPMSYSASLSLFWLEMAVLIGCVALSIGMRSRPAMWVALGIVAHCAMWLAMHDEEILIRLVASTLVYLGLLKFSPNAARVWLCAGGALAGAFLLGTMALSLLMSFPGRWSVFGLSMGATLLFLTSGLLIGFWVVHRWTEPAQRRESQPGQKA |
| Ga0207525_109713 | Ga0207525_1097131 | F100610 | MMPVIISLFGNEDMDITEFPLTNKPVFYRCSYGECFRFIADKCMHCCANPIPDTEMHINYLRRLPDIKKAVTDLGI |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |