 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300026814 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0072037 | Ga0207586 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A3-10 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 28934770 |
| Sequencing Scaffolds | 35 |
| Novel Protein Genes | 38 |
| Associated Families | 38 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → Viruses → Predicted Viral | 1 |
| Not Available | 12 |
| All Organisms → cellular organisms → Bacteria | 6 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 7 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Candidatus Udaeobacter → unclassified Candidatus Udaeobacter → Candidatus Udaeobacter sp. | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 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 |
| F000365 | Metagenome / Metatranscriptome | 1227 | Y |
| F001033 | Metagenome / Metatranscriptome | 799 | Y |
| F002588 | Metagenome / Metatranscriptome | 546 | Y |
| F003590 | Metagenome / Metatranscriptome | 478 | Y |
| F009574 | Metagenome / Metatranscriptome | 316 | Y |
| F012900 | Metagenome / Metatranscriptome | 276 | Y |
| F012903 | Metagenome / Metatranscriptome | 276 | N |
| F015500 | Metagenome / Metatranscriptome | 254 | Y |
| F016332 | Metagenome / Metatranscriptome | 248 | Y |
| F018099 | Metagenome | 237 | Y |
| F019045 | Metagenome / Metatranscriptome | 232 | Y |
| F023740 | Metagenome | 209 | Y |
| F024436 | Metagenome / Metatranscriptome | 206 | N |
| F025086 | Metagenome / Metatranscriptome | 203 | Y |
| F026630 | Metagenome / Metatranscriptome | 197 | Y |
| F027928 | Metagenome | 193 | Y |
| F027930 | Metagenome / Metatranscriptome | 193 | N |
| F030581 | Metagenome / Metatranscriptome | 185 | N |
| F032059 | Metagenome / Metatranscriptome | 181 | Y |
| F035814 | Metagenome | 171 | Y |
| F045819 | Metagenome | 152 | Y |
| F046730 | Metagenome / Metatranscriptome | 151 | Y |
| F046924 | Metagenome / Metatranscriptome | 150 | Y |
| F048140 | Metagenome / Metatranscriptome | 148 | Y |
| F055839 | Metagenome / Metatranscriptome | 138 | Y |
| F056105 | Metagenome / Metatranscriptome | 138 | N |
| F062946 | Metagenome / Metatranscriptome | 130 | Y |
| F067256 | Metagenome / Metatranscriptome | 126 | Y |
| F074717 | Metagenome | 119 | Y |
| F078970 | Metagenome / Metatranscriptome | 116 | Y |
| F079274 | Metagenome / Metatranscriptome | 116 | Y |
| F085485 | Metagenome / Metatranscriptome | 111 | Y |
| F092662 | Metagenome / Metatranscriptome | 107 | Y |
| F093366 | Metagenome / Metatranscriptome | 106 | N |
| F105574 | Metagenome / Metatranscriptome | 100 | Y |
| F105621 | Metagenome | 100 | N |
| F105773 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207586_100192 | All Organisms → Viruses → Predicted Viral | 1186 | Open in IMG/M |
| Ga0207586_100197 | Not Available | 1182 | Open in IMG/M |
| Ga0207586_100529 | All Organisms → cellular organisms → Bacteria | 930 | Open in IMG/M |
| Ga0207586_100600 | Not Available | 903 | Open in IMG/M |
| Ga0207586_100738 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 856 | Open in IMG/M |
| Ga0207586_100775 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 849 | Open in IMG/M |
| Ga0207586_100877 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 823 | Open in IMG/M |
| Ga0207586_101091 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 783 | Open in IMG/M |
| Ga0207586_101190 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Candidatus Udaeobacter → unclassified Candidatus Udaeobacter → Candidatus Udaeobacter sp. | 769 | Open in IMG/M |
| Ga0207586_101376 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 742 | Open in IMG/M |
| Ga0207586_101435 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 734 | Open in IMG/M |
| Ga0207586_101468 | Not Available | 731 | Open in IMG/M |
| Ga0207586_101862 | Not Available | 688 | Open in IMG/M |
| Ga0207586_102278 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 652 | Open in IMG/M |
| Ga0207586_102402 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 643 | Open in IMG/M |
| Ga0207586_102915 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium | 612 | Open in IMG/M |
| Ga0207586_103154 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 599 | Open in IMG/M |
| Ga0207586_103411 | Not Available | 585 | Open in IMG/M |
| Ga0207586_103438 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 584 | Open in IMG/M |
| Ga0207586_103744 | Not Available | 570 | Open in IMG/M |
| Ga0207586_103749 | Not Available | 570 | Open in IMG/M |
| Ga0207586_103966 | All Organisms → cellular organisms → Bacteria | 561 | Open in IMG/M |
| Ga0207586_104433 | Not Available | 543 | Open in IMG/M |
| Ga0207586_104467 | All Organisms → cellular organisms → Bacteria | 542 | Open in IMG/M |
| Ga0207586_104573 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 539 | Open in IMG/M |
| Ga0207586_104737 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 534 | Open in IMG/M |
| Ga0207586_104776 | Not Available | 533 | Open in IMG/M |
| Ga0207586_104863 | All Organisms → cellular organisms → Bacteria | 530 | Open in IMG/M |
| Ga0207586_104940 | Not Available | 528 | Open in IMG/M |
| Ga0207586_104969 | Not Available | 527 | Open in IMG/M |
| Ga0207586_105611 | All Organisms → cellular organisms → Bacteria | 509 | Open in IMG/M |
| Ga0207586_105730 | All Organisms → cellular organisms → Bacteria | 506 | Open in IMG/M |
| Ga0207586_105880 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 502 | Open in IMG/M |
| Ga0207586_105904 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 501 | Open in IMG/M |
| Ga0207586_105986 | Not Available | 500 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207586_100192 | Ga0207586_1001921 | F048140 | MLLHEASIIATKERAEMKMIEFFIVRKIVVDGAGHSITERRAP |
| Ga0207586_100197 | Ga0207586_1001972 | F018099 | MPRTYIVDIAGGTASVTVQCQATQTLKSATWSGVGAAAGKWELSYSSSSQIGTAQPDSNVIARISLGVLTSGGTFGVQMPINMPVKAFQSIYVHCTGAGNLGTLTLS |
| Ga0207586_100529 | Ga0207586_1005292 | F030581 | MKTQRESRRRVSRFTKMVAKFLHIPDGAAVYVIWAAWIAVVIIIGIIVMLWR |
| Ga0207586_100531 | Ga0207586_1005311 | F105621 | IRIVEIAENQIEAAEIIAQIEWKLRVSSEEARQRTVFNRSDGIGVKSFIRDHRDMRVTKDLDSRLWMGSAQCFQRRQGQNEIAKRPAANDENSFNKRGMLERLKSRHRQKRTRVGHASVQLFC |
| Ga0207586_100600 | Ga0207586_1006002 | F067256 | MKTARYRTVVREFEHTERVIEKKHRIEVLGALLEMHQQQHEPDDEYIKGLRQRLKGAQKQLENMWPV |
| Ga0207586_100738 | Ga0207586_1007381 | F024436 | FMTLFSLIGLLTSLRLKGGLEECLVKIEAMSVQARVNDFVALGQLEGRSSRYPRFRWIFPIFYAMTTVGFITLIVYRLVTGEAIK |
| Ga0207586_100775 | Ga0207586_1007752 | F000365 | VSAPKNKKPAPAGESGNQRPKRKKDKLIRLDDLIPKQDVTGGHQLLFGATDTTETTNNPTKEN |
| Ga0207586_100877 | Ga0207586_1008772 | F046730 | VLAAMGLKSVFLSARPIVLSLARSTMPSSTTLFSNNRKVQRARPLGGLEQAKA |
| Ga0207586_101091 | Ga0207586_1010911 | F001033 | QSTPNKRRSMKFVSRTKSMAVPHQILGASTNEKRELLMCGHSLIARLTIAVFVFQMLGVTSVVHAERPDLTAGTSNAGTRKLFIDPSSTSVPLRGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQTGTAISFTGKAVTHKDGRTHIVLGRATPSSGNRGGVTFSIVTDDAKIVFNTFYHFGTQPGT |
| Ga0207586_101190 | Ga0207586_1011902 | F009574 | MPMMADRAPRLAALDETFNRLEGLSADATQLRGTLRALVAEQKSNIAPETVAALKGITQRIDTRLGEVQANIDGVQADVAALKVRLDKRESRLLFVFNLVALLSTLMLAWIVYT |
| Ga0207586_101376 | Ga0207586_1013761 | F079274 | MRHFLISIFGFLLAAFMMSAVAFGQTRLSPDDQREFDKYYTKWVNDTRKNDRDDIAKDVGHMQEIMGRNHIPANVPFDQLASTGSMSPGRMYQGWLSADEQQEFDKYYTKWVNDTRKNDRDDIAKDVRKMQEIMARKNIPASVPFDQIASTGYGAVEGYPWRHRLSADDQRDFDRYYSRWVDDGRANDRADLNRDAGYLQAIMARNNIPANVPFDQIAS |
| Ga0207586_101435 | Ga0207586_1014351 | F092662 | TMLARDADRIVLCIDASDGVRWEIAHVLQSGHAGKTLFFLNPSTDVQTRKRQLQEDFGVSAADLASIDVDRVLALRTTSTDQLILMVCDKPERDAYLVAARLAFEGRAGNLTMSAKGR |
| Ga0207586_101468 | Ga0207586_1014683 | F078970 | QASRAWVDRVQSEISLWSDLASKLSSTKSIPEAFETYTKCVSQRMQMAADDGRKLAEEAQQITQKFAQSLGNGRPGMTS |
| Ga0207586_101862 | Ga0207586_1018621 | F055839 | MKHLVLASALILAGSTAAKPSDINFGETRTRFQIQNELTVWERLHPWDVDWRHTTLWQHGRALRTEFAPPGCTITRIRPTALILI |
| Ga0207586_102278 | Ga0207586_1022781 | F012903 | MKATLIILTMLASALAASAQQPVTATTEDGRKVLLYPNGQWRLLRGSAPQVDHSVSQEGVQTHIYEFTQDYTIGSGQASIRFRRGERYPGRIFMNHHAEVDVNGVSYSVPRGVLSDKHLD |
| Ga0207586_102402 | Ga0207586_1024022 | F027928 | MKALPKKLLPLILFGVVVTLLFSVRPAQAYLVTLEQVGSNVVANGSGAINLTGLTKASTLFG |
| Ga0207586_102915 | Ga0207586_1029151 | F003590 | KLAQKVSEVVASGRVVRVEDDLGSKLTATYDGKRLYGMQFRAGDPPGRCHFPWGRCGVFNGDGNADGEIFLSCVQGVTGMLSEPMRWKVKDSWVVEVDGGGEVGEECRRLFEQVPGSNRLIEIMFGYHPKASIAHGIDDPMHWELISKMPWAGLGTERKHPNFRHMDGSVMNARLYIDDRLIVDKYGMLDRSLLHHPEVLDVA |
| Ga0207586_103154 | Ga0207586_1031541 | F012900 | RGGNQRAGTLFTPNQTQVFPPARSGVSLTRDETKASYAIIRHNIRTYESGGVVLVVKGKENAELKVKHFETGQSSEDRHAGWRYFVEKSDLKAGMDPAEATNLRQMKLEIRESEAQPDPMSVANPPRQN |
| Ga0207586_103411 | Ga0207586_1034112 | F019045 | MKKKENLWELLQRLDEEAGQFNFHLNEANRYFDNTALATKKILAKHEKRLHKLIGEVQKSLKAFQKS |
| Ga0207586_103438 | Ga0207586_1034382 | F085485 | FRSAVHGHTLYDYGSLDGGVGKVWSARQAWYVSGGIRHTQALPEIYNSDMAQQWAELARIAHRVYHRDVHFAGVMTQGTSSCRCGFRPHKAHRVLAHALNAQGIGRTVLPRGATNIIG |
| Ga0207586_103744 | Ga0207586_1037442 | F105773 | MIAELFKKFYEINDVSFKQVQKEHEFLRTYLQKMTLQIPDPALSDLTAGEMMDAFERLMEKIETA |
| Ga0207586_103749 | Ga0207586_1037492 | F093366 | MTKYERRQFFERLVQLRALYLLRGYDDSVAELPIAEAIEYGETLMAQTPSLAEVMGADDCVLKTSAATDPQ |
| Ga0207586_103966 | Ga0207586_1039661 | F002588 | FHDHISDEMNAFVLGLVPLLAGASVFLVRWFVSPYPIYMQVRRKVDSLTDTKKEERAKAVQACFERSAAILKQHPSVLLSFHALSRAEGHRLESNQEVAEVCDLIQEAGYDHPFEGISPGYVPETDWLPFLKYVRHAPNINPEEGKDYLDAADRWRQDHDYPLPPEDAGFALLVEKTLLR |
| Ga0207586_104426 | Ga0207586_1044261 | F105574 | PVVGRFGNMHMNHFRPNESTRDGDITIPRAVRVLRTIHVGLSTTAKASTQLTDTRRTKSKKSSFRIAGFVINHPILAMLVLGLIALIGVGCIFALPIGWLPFPK |
| Ga0207586_104433 | Ga0207586_1044331 | F027930 | LALAPISGAHGVIGDNPLQLAARFKTKPIVVAQMTPRTIRVVYVEDGWITDVTLLDGISKAELMARADNGFVGYEDMKAQVAHYGGKFEMWKQDKLWNEDLFAWVRPDGRLFCAVGKTTLPDGKKYNWLIIFETPEWWRDRAEKVARGLNEGKTKKHL |
| Ga0207586_104467 | Ga0207586_1044671 | F074717 | MRPACADRGCQPEEKWYALTGRVVDAKVEADGDIHLALQDADGKNAGTVSAEIPVGPKWCEIRQMVLGWTKQKFPFTVKSVHDLTIAEPVVTVTGKAFYDI |
| Ga0207586_104573 | Ga0207586_1045731 | F026630 | MNASQTRSGVGLNKTVYCRVTASALSGTTKHRRAASEREPPGHCEQLRLCEIPLPLREHLLGSLEQS |
| Ga0207586_104737 | Ga0207586_1047372 | F015500 | VEVEVCIVSVEEPPVLIDAGLKPPLVIPVGKPDSLPTLKFTVPVKPLRGVTVTVYVVSPPGTTSCAAGPTVIEKSGLVGSTVIVRVGGLGSELPVASITVSEIVYVPGAPNVTFPGFCAVDVAGEPPGNTQEYLEALVVVPK |
| Ga0207586_104776 | Ga0207586_1047762 | F056105 | MPRAERRELLSAALTHLEAVAKLLKEAEEEVLADEARELTDKVDVVALAEAA |
| Ga0207586_104863 | Ga0207586_1048631 | F000268 | MRVVAVMLLLSAGIAAEAMSYSFVSKASGRLGGPIRFEFYRDSTTRPKTDIKSFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGSSGVTFGFDKNGRMTFPDSFD |
| Ga0207586_104940 | Ga0207586_1049401 | F062946 | LFIPPTLASAADGDSAAQGAPTQGAPPPRADAGHELCKIQIWLWSMQNRTYEATGEHLEIQRLRGSRINFAWSNESERLVIINARGTNEAECAFFQVGGTFVELPERSKRLTEMKIVALAFTTYHSGIAAVCVDSERPALRRVTLLSFVDDYLELMRVNGKNSGLLADGFLPNSI |
| Ga0207586_104969 | Ga0207586_1049691 | F035814 | MMSMPHTHEVRYRELSYAQKRAIREQLEASFDWDDGKYAEGASDHSIAAEVGVGWSLIRYVRERD |
| Ga0207586_105611 | Ga0207586_1056112 | F045819 | DPVTAQSIVVPGSSRAERLDGLTHGDSPAEPQTLAIVFAVAGDELVTLSLRSWPRDDIGREVERVLASLEIIEARAPSARPAS |
| Ga0207586_105730 | Ga0207586_1057301 | F025086 | ASILRGEVERLRRKRRPLYLTMEAGALTRWASGIVRPLVERLIICEPRHNRLINSNPTKSDEADVEGMCLLLRLGKLKEVWMGTDRTREIYRALVYELLNWRDAQRELKALIKARYRGWGVLRLHGIRVFSAKGRQEYLAQLPAEEERRMMRRLYGQLDHALKQWKET |
| Ga0207586_105804 | Ga0207586_1058041 | F046924 | MPGTVDDFMQRFGGGGTMDESDAAQYHDRFVSTHPNDRDFDSNTYQQAATQYLGKLPDDKFREAARNAVTQVPPQERAGLLGTLMGALSGAGS |
| Ga0207586_105880 | Ga0207586_1058801 | F016332 | MKQWHKSAAYREALKTLLIPIFLSTEQAMEWGSHLNAKQHTTLTQTQGALSNAARSECNQQRKLNLAMQSQLMREAGQAFVPA |
| Ga0207586_105904 | Ga0207586_1059042 | F032059 | MMNMVIDNRITETPELTGQFMVFPKSFGSEDATQKSLSRMSREQLAAFLDAESGNARSAHFSAPPVESTPPTAEKGLAIGVLKQAASDLRRYRTATKAAHQELYLDA |
| Ga0207586_105986 | Ga0207586_1059861 | F023740 | MPGNPEQCRLNAARCLKLAKRARRAEMRESLTALADTWTRLAAEHESDEALLRAISELEFSKPYEALPLALKLHSWPASVTKGALSRH |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |