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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 | 3300026943 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0056004 | Ga0207486 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-10 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 62112177 |
| Sequencing Scaffolds | 31 |
| Novel Protein Genes | 33 |
| Associated Families | 33 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462 | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 6 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 2 |
| Not Available | 8 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 5 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae → Roseimicrobium → Roseimicrobium gellanilyticum | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 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) | 43.2958 | Long. (o) | -89.3799 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000268 | Metagenome / Metatranscriptome | 1411 | Y |
| F001033 | Metagenome / Metatranscriptome | 799 | Y |
| F001592 | Metagenome / Metatranscriptome | 667 | Y |
| F001757 | Metagenome / Metatranscriptome | 641 | N |
| F002806 | Metagenome | 529 | Y |
| F006680 | Metagenome / Metatranscriptome | 367 | Y |
| F007885 | Metagenome / Metatranscriptome | 343 | Y |
| F011308 | Metagenome / Metatranscriptome | 292 | Y |
| F014986 | Metagenome / Metatranscriptome | 258 | Y |
| F017703 | Metagenome / Metatranscriptome | 239 | Y |
| F018027 | Metagenome / Metatranscriptome | 237 | Y |
| F018203 | Metagenome / Metatranscriptome | 236 | Y |
| F018633 | Metagenome | 234 | Y |
| F022685 | Metagenome / Metatranscriptome | 213 | N |
| F025511 | Metagenome / Metatranscriptome | 201 | Y |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F032172 | Metagenome / Metatranscriptome | 180 | Y |
| F034564 | Metagenome / Metatranscriptome | 174 | Y |
| F034995 | Metagenome | 173 | N |
| F037759 | Metagenome / Metatranscriptome | 167 | N |
| F038821 | Metagenome / Metatranscriptome | 165 | Y |
| F039358 | Metagenome / Metatranscriptome | 164 | Y |
| F039619 | Metagenome / Metatranscriptome | 163 | Y |
| F044560 | Metagenome / Metatranscriptome | 154 | N |
| F055706 | Metagenome / Metatranscriptome | 138 | N |
| F055942 | Metagenome / Metatranscriptome | 138 | Y |
| F070071 | Metagenome / Metatranscriptome | 123 | N |
| F072697 | Metagenome | 121 | N |
| F078356 | Metagenome / Metatranscriptome | 116 | N |
| F081321 | Metagenome / Metatranscriptome | 114 | N |
| F081605 | Metagenome / Metatranscriptome | 114 | Y |
| F097297 | Metagenome / Metatranscriptome | 104 | Y |
| F103215 | Metagenome / Metatranscriptome | 101 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207486_1003477 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1119 | Open in IMG/M |
| Ga0207486_1004362 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462 | 1001 | Open in IMG/M |
| Ga0207486_1005222 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 920 | Open in IMG/M |
| Ga0207486_1006740 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 824 | Open in IMG/M |
| Ga0207486_1007386 | All Organisms → cellular organisms → Bacteria | 791 | Open in IMG/M |
| Ga0207486_1007947 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 765 | Open in IMG/M |
| Ga0207486_1007979 | Not Available | 764 | Open in IMG/M |
| Ga0207486_1008243 | Not Available | 753 | Open in IMG/M |
| Ga0207486_1009164 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 720 | Open in IMG/M |
| Ga0207486_1009701 | Not Available | 704 | Open in IMG/M |
| Ga0207486_1009919 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 697 | Open in IMG/M |
| Ga0207486_1010141 | All Organisms → cellular organisms → Bacteria | 690 | Open in IMG/M |
| Ga0207486_1010369 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 684 | Open in IMG/M |
| Ga0207486_1010988 | Not Available | 666 | Open in IMG/M |
| Ga0207486_1011136 | Not Available | 663 | Open in IMG/M |
| Ga0207486_1013148 | Not Available | 616 | Open in IMG/M |
| Ga0207486_1013214 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 615 | Open in IMG/M |
| Ga0207486_1013754 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae → Roseimicrobium → Roseimicrobium gellanilyticum | 604 | Open in IMG/M |
| Ga0207486_1014697 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 586 | Open in IMG/M |
| Ga0207486_1016099 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 563 | Open in IMG/M |
| Ga0207486_1016316 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 560 | Open in IMG/M |
| Ga0207486_1017131 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 549 | Open in IMG/M |
| Ga0207486_1017547 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 543 | Open in IMG/M |
| Ga0207486_1017749 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 540 | Open in IMG/M |
| Ga0207486_1017751 | Not Available | 540 | Open in IMG/M |
| Ga0207486_1018613 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria | 528 | Open in IMG/M |
| Ga0207486_1018973 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 524 | Open in IMG/M |
| Ga0207486_1018998 | Not Available | 524 | Open in IMG/M |
| Ga0207486_1019166 | All Organisms → cellular organisms → Bacteria | 522 | Open in IMG/M |
| Ga0207486_1020543 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 506 | Open in IMG/M |
| Ga0207486_1020856 | All Organisms → cellular organisms → Bacteria | 503 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207486_1003477 | Ga0207486_10034772 | F037759 | MKGRGRLRPGTLAALILSGGLLAGTAGAQPPELGVSSIGILPPPDILESVSYLGLYPTGEPVRRGAYYMLHAFDRAGIELLVVVDAQFGDVLFMAPALNTSLTPPYTRAARIIQVAPESGDQQKR |
| Ga0207486_1004362 | Ga0207486_10043622 | F028554 | VLQDQVNFLKGQMRKAKQVRNRALSAGEGRRAIIVTAALTGLFLLAAFVTAGSFLSTDPQAMSSVAKVTPLPRTEGGEAASRVASIVMETDKKGRCEERQFDNRTGKMVSANYVNCDARLEPERDTTPSENINRERIRAILGAFKK |
| Ga0207486_1005222 | Ga0207486_10052221 | F001592 | MPIIEKTLRFAAIALAVLFIGLSLLGIFGAWFVDRKATDVALKGFGLIEVGVGVVDAGVSRVDDLIAASRTEVRQASETITAAGAQAQANSPVLNALNERLETSLAPRIAQMQQVLAPVRDAVGNVANAVSLLNSMPMMADRAPRLAALDETFD |
| Ga0207486_1006740 | Ga0207486_10067402 | F007885 | MRPACADRGCQPEEKWYALTGRVVDAKVEADGDIHLALGDATGNNVGTVSAEIPVGPKWCEIRQTVFGWTTQKFPFGVKTAHALKIREPHVITVTGKAFYDIGHAPADHSNRRSTPKGYAVWEIHPVMKMEVIP |
| Ga0207486_1007386 | Ga0207486_10073861 | F018633 | MSFCLKLREPLPQGLKRVFREQIDAALHCCQHPAKQRGVTVHEVRK |
| Ga0207486_1007947 | Ga0207486_10079472 | F038821 | RRRQQSGSADGHRLSQLLRTVGDLVNQRGERLLGIAWQELSVSVVVETPNGRKEIDVFRPDNLYDLWVRMYLKRDNRAVLDTPH |
| Ga0207486_1007979 | Ga0207486_10079791 | F070071 | AGTSAGFWYLLPRNGEEHPLVQNPGVGSMVTIVILTLFIVGIAVMCEGLLS |
| Ga0207486_1008243 | Ga0207486_10082431 | F022685 | LMAALQTVGVWSLQEHIKSQSDAGLPIGNTPVITNFDADALKNGILPKYGPIDTREGQRLAIEGAARRIDLQNRAVQKYLPR |
| Ga0207486_1008940 | Ga0207486_10089401 | F017703 | LVIVGLLAKTALKAYGVLDEPKAQAKPGATEVEQAATITPRNALERAKGVQDMVNQGAIEQQKRIDDAIPK |
| Ga0207486_1009164 | Ga0207486_10091642 | F103215 | SFRALLIGIPLVAVTAADERLGMAAAGVYVLAFTVELAVSLVEYFGQEARA |
| Ga0207486_1009701 | Ga0207486_10097012 | F034564 | MNRSGRLSGYWYGAVCIAGLGFSLLGERRPFGQGILAHPFIVYAFVVAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFLAGNFIAAHLIGR |
| Ga0207486_1009919 | Ga0207486_10099191 | F018203 | VDMRPAATVRVKWTRTELLALREAIEVTPNFEGRQDVRDTFRHAVRAPRIGMVELEHDLAERLGNRLVPVDLATATARAKLLRAVRGPRKRTVAQVHRPQPVLTGVSTAAAA |
| Ga0207486_1010141 | Ga0207486_10101411 | F000268 | MLMRVVAVMLLLSAGIAAEAMSYSFVCKASGRLGGPIRFEFYRDSTTRPKTDIKSFTVSTRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMTFPDSFDR |
| Ga0207486_1010369 | Ga0207486_10103691 | F055942 | LVVACNDKRAILLELFDHRIRHQDFDPRHQRAILERGHRNAVNVAEVIRLYRPNVISKATGDREAKDGR |
| Ga0207486_1010988 | Ga0207486_10109881 | F078356 | GALLARAGFDRTSRILLDAVTVGQEFIALATADREAILAVLDHATTDELVKLRTSLFAELNWRRGLLGGEPPRPSPFAKHG |
| Ga0207486_1011136 | Ga0207486_10111362 | F081321 | MRIVSRAAALVSLALMLASPARAACTGSCEPSVEVAQAAMQKIFKETFLSPYTLISFERLDGRSGERYGGVFYEMRIRAVLHYDGVKLRCRRPACPELHHYLLEDDARSKKATVAGWLFLQQDGEGDWQPVPLTPGPR |
| Ga0207486_1013148 | Ga0207486_10131481 | F032172 | VSHMDGIGRAMTMMQLEGEEPVQIIRGRFGPSGGIVPELDKDGQVVPTGHFNNRLGFHALMQAVGVDERVMTLIELFANPKLNAEITRQLAAGQRSVSISGEDAAKTGEF |
| Ga0207486_1013214 | Ga0207486_10132141 | F001757 | MMRVLKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIAVPADYGLAQYYTEEASGLFRARISQPVSNGAVTVTPLVSRGRPDRPDRTKVV |
| Ga0207486_1013754 | Ga0207486_10137541 | F039358 | ATKVGLRQPSFSVREEKQVVSVSDFKAGLWEGSFNAPKTLVYLPSAKKKPRFETQFAIKDARLQSIINSFSEARKQPAVVPLNWTGAWRISGTGEIPVDQPENFRWNGDAALGGELVYASGQTNIALQKPTFSVRVEEQAVTISDLKAGLWDGSLDVARIQVHLPSKEKKLRIETQLTLNGARSSSVRKSFSAGQKQPRVV |
| Ga0207486_1014697 | Ga0207486_10146971 | F006680 | MKISKFLWSVLVAFAAVALIAPQQVEAIIVDGRVNGQIQLTGSGTITESTGINSNGINSNGINKLDFNGQNFPHGPLSVTNATGDF |
| Ga0207486_1016099 | Ga0207486_10160991 | F044560 | TSSSRSSDPLAASHNRHRVGTDTAHIRLQVVGMDDDHPTNDALEREVARAEPAIGGRPADVPPLGAVPSWIALPVGRSEAGPSIAELVEAVRDAGGMVGGDALFDPRYEAEMRRFLIRALEMEGIPVPRGGDRP |
| Ga0207486_1016316 | Ga0207486_10163162 | F011308 | SVHLEQFVSTGGTVQVSVVVRKAASFSVLLRTRTIGRTKLFLIGKRAPKGGPLLDTATTACEGAAGSYYCKGSFEPLPAGTYTFRVVRPSGFGTHIELTVRW |
| Ga0207486_1017131 | Ga0207486_10171312 | F039619 | MPIKIGFLGSSAPSSPHHDSFRAFIPKEIVFTFAQETGDKTSLYDARGKIAPLIAQAKELIRENAWDGLIISGAPKEAL |
| Ga0207486_1017547 | Ga0207486_10175471 | F001033 | LGVTSVIHAERPDSTAGTSNAGTRKLFIDPSSTSLAVRGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDARIVFNTSYHFPAPRP |
| Ga0207486_1017749 | Ga0207486_10177491 | F025511 | MGIVDSIRRLFGRADRAMTEADYAAIDAVHDVEDRLDDATGGRFYDAVEKADEEAGELLERLHLEDEPEGERPGTG |
| Ga0207486_1017751 | Ga0207486_10177511 | F097297 | DHAKSSRQPPLKERKLTKSDASAATQDVINEKEFKKGAAHESAAVVIVDNPAPQTVVHENRNAAVAEITPDEEAAVLATVAAVLAKIDPQPPTADDNVTRPEPVREDAELSAAKRAIIHEWESWSALHSDELGDPKVAEYFFRHLQTKKPQLLNFGFQDKLMMVRRCLVD |
| Ga0207486_1018613 | Ga0207486_10186131 | F014986 | MQPFAVLVLLPIVIGIAAEGLFRDAQRASLVAAILASLEVYLSLATLDPGGEWNGLATFLVSPLAIAFSLATVLACFGFREGRRRHRR |
| Ga0207486_1018973 | Ga0207486_10189732 | F055706 | VRQTPMQNESLPDWMRPQGSMLSVCPETGCARLTMGGTCVEHDPPATVAFVRGRPYVAEAAADAVRIPVAG |
| Ga0207486_1018998 | Ga0207486_10189982 | F034995 | MTKILALIAGIFLIGFPAWMMKEMSVPLPEYRKGGYADYVLLAYELLAVYGSVLLGIAVHVGRAKWSGQSLFPFGLFKAGMWGVLVAASAYFVAGGVYGLISYGAFDKVIGGTLWGLLAIFWGVFGALVSAGLALLFYAWRGS |
| Ga0207486_1019166 | Ga0207486_10191661 | F072697 | MINTIDDFMKRFGSGETVDDQQAAQLHDRFISARAEDSQFDNRAYHEAAAEYIGRLPDDQFRNAARNAVTQVPAEQRQDLLGGLLGALKGGSAGGLGGIASMLGLSSTDPN |
| Ga0207486_1019166 | Ga0207486_10191662 | F081605 | MRTLLARMAREFPEQDLTVIAYTPSSPPQKVGTAHLDSRTKEMNYLPEY |
| Ga0207486_1020543 | Ga0207486_10205431 | F018027 | MPYRRIFVGTTILLLALVTGGAFAATGGLPLGPSSTMKARDFKGYYDGHKDTFLVTDVSNKAQARALHVNFSREIGKVKSAPAQYFVRGKAVRGQLSVFGSEPGEADYNPLWEEVWLTWKTGVKPVLIGQDDQIDALEKKGKLTEKDAHIV |
| Ga0207486_1020856 | Ga0207486_10208561 | F002806 | LLMTLGRVVWRPASKGIDWALEVAFIRLDFPPAQRIIAQQLAAGLAEIVGMKIKQLKPEHNLSQIAEWADDGIYAKDLITLFVVAFNVKCDANTTFRDLVEKVASKKIARGQSAARI |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |