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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 | 3300026708 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0053063 | Gp0054643 | Ga0208712 |
| Sample Name | Grasslands soil microbial communities from Gorham, Kansas, USA that are Nitrogen fertilized -NN628 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 15024515 |
| Sequencing Scaffolds | 36 |
| Novel Protein Genes | 38 |
| Associated Families | 38 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Pseudonocardia → environmental samples → uncultured Pseudonocardia sp. | 1 |
| Not Available | 17 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Thermoleophilales → Thermoleophilaceae → unclassified Thermoleophilaceae → Thermoleophilaceae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora radicis | 1 |
| All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Loam → Grasslands → Soil → Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | grassland biome → land → fertilized soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Gorham, Kansas, USA | |||||||
| Coordinates | Lat. (o) | 39.05 | Long. (o) | -99.1 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001339 | Metagenome / Metatranscriptome | 719 | Y |
| F001947 | Metagenome / Metatranscriptome | 613 | Y |
| F003252 | Metagenome / Metatranscriptome | 497 | Y |
| F005831 | Metagenome / Metatranscriptome | 389 | Y |
| F007194 | Metagenome / Metatranscriptome | 356 | Y |
| F008549 | Metagenome / Metatranscriptome | 331 | Y |
| F008694 | Metagenome / Metatranscriptome | 329 | Y |
| F008846 | Metagenome / Metatranscriptome | 327 | Y |
| F008894 | Metagenome / Metatranscriptome | 326 | Y |
| F009602 | Metagenome / Metatranscriptome | 315 | Y |
| F010054 | Metagenome / Metatranscriptome | 309 | Y |
| F010501 | Metagenome / Metatranscriptome | 303 | Y |
| F012394 | Metagenome / Metatranscriptome | 281 | Y |
| F012785 | Metagenome / Metatranscriptome | 277 | Y |
| F015259 | Metagenome | 256 | Y |
| F018073 | Metagenome / Metatranscriptome | 237 | Y |
| F020315 | Metagenome / Metatranscriptome | 224 | Y |
| F020437 | Metagenome / Metatranscriptome | 224 | Y |
| F024497 | Metagenome / Metatranscriptome | 205 | Y |
| F030604 | Metagenome / Metatranscriptome | 185 | Y |
| F031705 | Metagenome / Metatranscriptome | 182 | Y |
| F034332 | Metagenome | 175 | N |
| F035464 | Metagenome / Metatranscriptome | 172 | Y |
| F036583 | Metagenome / Metatranscriptome | 169 | N |
| F041595 | Metagenome / Metatranscriptome | 159 | Y |
| F045078 | Metagenome / Metatranscriptome | 153 | N |
| F049469 | Metagenome / Metatranscriptome | 146 | N |
| F053848 | Metagenome / Metatranscriptome | 140 | Y |
| F059742 | Metagenome | 133 | Y |
| F062269 | Metagenome / Metatranscriptome | 131 | N |
| F068691 | Metagenome | 124 | Y |
| F073208 | Metagenome | 120 | N |
| F082892 | Metagenome / Metatranscriptome | 113 | Y |
| F085670 | Metagenome / Metatranscriptome | 111 | Y |
| F094811 | Metagenome | 105 | N |
| F096010 | Metagenome / Metatranscriptome | 105 | Y |
| F098847 | Metagenome / Metatranscriptome | 103 | Y |
| F101452 | Metagenome | 102 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208712_100178 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1700 | Open in IMG/M |
| Ga0208712_100193 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Pseudonocardia → environmental samples → uncultured Pseudonocardia sp. | 1653 | Open in IMG/M |
| Ga0208712_100232 | Not Available | 1561 | Open in IMG/M |
| Ga0208712_100246 | All Organisms → cellular organisms → Bacteria | 1549 | Open in IMG/M |
| Ga0208712_100337 | All Organisms → cellular organisms → Bacteria | 1420 | Open in IMG/M |
| Ga0208712_100343 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1408 | Open in IMG/M |
| Ga0208712_100529 | Not Available | 1245 | Open in IMG/M |
| Ga0208712_100582 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1209 | Open in IMG/M |
| Ga0208712_100845 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1073 | Open in IMG/M |
| Ga0208712_100910 | Not Available | 1048 | Open in IMG/M |
| Ga0208712_100938 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1038 | Open in IMG/M |
| Ga0208712_101059 | All Organisms → cellular organisms → Bacteria | 991 | Open in IMG/M |
| Ga0208712_101409 | All Organisms → cellular organisms → Bacteria | 898 | Open in IMG/M |
| Ga0208712_101457 | Not Available | 887 | Open in IMG/M |
| Ga0208712_101545 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 864 | Open in IMG/M |
| Ga0208712_102189 | Not Available | 746 | Open in IMG/M |
| Ga0208712_102228 | Not Available | 741 | Open in IMG/M |
| Ga0208712_102407 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces | 714 | Open in IMG/M |
| Ga0208712_102543 | Not Available | 693 | Open in IMG/M |
| Ga0208712_102711 | Not Available | 675 | Open in IMG/M |
| Ga0208712_102734 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Thermoleophilales → Thermoleophilaceae → unclassified Thermoleophilaceae → Thermoleophilaceae bacterium | 672 | Open in IMG/M |
| Ga0208712_102849 | Not Available | 657 | Open in IMG/M |
| Ga0208712_102864 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 655 | Open in IMG/M |
| Ga0208712_102922 | Not Available | 650 | Open in IMG/M |
| Ga0208712_102992 | Not Available | 643 | Open in IMG/M |
| Ga0208712_103064 | Not Available | 636 | Open in IMG/M |
| Ga0208712_103332 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 607 | Open in IMG/M |
| Ga0208712_103345 | Not Available | 606 | Open in IMG/M |
| Ga0208712_103409 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora radicis | 601 | Open in IMG/M |
| Ga0208712_103501 | All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium | 592 | Open in IMG/M |
| Ga0208712_103522 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium | 590 | Open in IMG/M |
| Ga0208712_103879 | Not Available | 563 | Open in IMG/M |
| Ga0208712_104071 | Not Available | 549 | Open in IMG/M |
| Ga0208712_104189 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae | 540 | Open in IMG/M |
| Ga0208712_104375 | Not Available | 529 | Open in IMG/M |
| Ga0208712_104731 | Not Available | 508 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208712_100178 | Ga0208712_1001784 | F010501 | MDEGPGSMPPGAPRRRLGNFRTPELASRVRAVLAEAGIPSSGEPDPGRPERWGRLLDRLVHLAGTGGNRVWVPRDRAREAARVLAAARRRGD |
| Ga0208712_100193 | Ga0208712_1001932 | F101452 | VPASTELSEAVLGQRRLLERLLVHRRRDTGEEPSLRSPDAGDAEFVKNLQVFLRLVVDADALYLRAAHNLSGDPAQAAAVTARLAELRERIALPTEVPLTLELLLGRRFELERLLIELGDRTYLAGRLADLYDEQPGTVSTWRSLYGDELPALLP |
| Ga0208712_100232 | Ga0208712_1002321 | F008549 | VSAPRPGDIVVLHTPDGLRFQLVKGVPEGDEAEVLAAAIDRVEAWDKSQELGPWVTNTRPGIGIRAYPA |
| Ga0208712_100246 | Ga0208712_1002462 | F041595 | MTKPDDKLGTHEKLQEADPIPDAFPGQDPEVDQEWEKAKEDPMGGESPSS |
| Ga0208712_100337 | Ga0208712_1003373 | F098847 | AVLTGLLRVLGGFAAEERVGRRWTLGGIVLGTLELGLGALLLLTREVNPGLLVPIGAAWGAVSGILLLAQGLGLRRVARTWRQASGGRGMRG |
| Ga0208712_100343 | Ga0208712_1003432 | F008894 | MSEGSGAKEVPPPFTDEERGRGHELLGLGEPERQAVLTWVGENLTQVRRSVYDQRLLHWSLGIGVVVGLAAHVGGYALTSWVTTEPLGLFADLLYALGYALWTGVVVVLFVQVFPEAKRRQFKQALDAYEAAQRDDARSARDDGWGDDAAPTPT |
| Ga0208712_100467 | Ga0208712_1004673 | F034332 | VFIRILRGQAYDGAATLAAVNRWRQELGAGVLGWRRLTAGIGDGGELVLALRYDTEAAARRDRDRPELAAWQAAAERHLAGPGHWYDCPVVHTMKNGDAGEAGFVRVVQGRLADPVRLAAMRAEVERTLRDRAPHVLGVTVAEHADGTGFTELTYLTSERETRAADRQMPVEMAVQLGTVRSYVEALEEVELRRPLLAS |
| Ga0208712_100529 | Ga0208712_1005291 | F005831 | MTGTIHVADVDGDTTRTWDTADPATVREIKEVFREAQTAGRLIYRQAGNGRGEQVTLKTWNPEEDTELFMAPRLAGG |
| Ga0208712_100582 | Ga0208712_1005822 | F024497 | MTRRPNQVRPEEAHAAMARVFGVDVEVDAAPSSSTAPEPPAEEAEGRAALGRVFGTEA |
| Ga0208712_100845 | Ga0208712_1008452 | F018073 | MRRGGSLLITILLLLAAFWAGIQYERNNCKIDLPQTAGQVDQSVKCRDFQSDVDAP |
| Ga0208712_100910 | Ga0208712_1009101 | F073208 | MIAQNDEVPHRRATAVVTIAAGVTSLASLIVGLSGADFDFEAVSEAATFIALGTDAVAPVRWGLWLSMFGSYLLLVPVALHLLRWLRQDDPVVADLATVAAGFYILLGAAGASVLASTLPDLIQQYADADAAMRAGLLNDFDLARRIAEDGLQGVVQNVAGAAWFLGMGSLLRRHRPALGAAAIAVGAFLVVNAAGIMVDVEALRFIGLTGNVLLAPAWAIGM |
| Ga0208712_100938 | Ga0208712_1009382 | F007194 | VKGLLVVLTAFVFLPGSVFMLLASNFGALKGYLIAATAFFGFLVMLSAVWLFGIPGTTPLTGPKGTQPTFVHFTIDDPEAGTYDSVRDFQGGAGNGWQPAPEGEFEEGSPEATLKADLDTARQTAVQDLIEETNADIKDSSEELDVINLDAKTYYTIQDGTEVAAIVISPATPPEGSGLQRPDFAPKTTFAYRDPGSPYLPSILFLAGSLVLFVVHMLLLGVVERRRPLGVTQTPAP |
| Ga0208712_101059 | Ga0208712_1010593 | F010054 | MRRPPPGYRRGARPIYPGVLKMLLYGFILWGLALLGIELPFELPRLLFVVLQVLVIWLLWNGVKAARRAPSNHVRLFSAQENWVNAFALQALILFLW |
| Ga0208712_101409 | Ga0208712_1014091 | F062269 | MAEASDTPGFLGRVVRGLRGVATLRLRPRQRPAPRQAAPGPSPTDGLDAAEQAALEQLGAADGYATRWPVRREVARSLASRQLVVIASARPAPM |
| Ga0208712_101457 | Ga0208712_1014571 | F001947 | VSGRKTRRPGEIAIAPGSGFGKGRRCTCWPKPDDARPCTPQTCDWRCRACHVHGRPFYSHGDLQYLEHGTGPLAAELDRLWQAKGTMKGGTAREARGGDGWQALPRGAAGLAPDRPHVRPVRDLYYPGLQAPRPGHDGRSTGRGQ |
| Ga0208712_101545 | Ga0208712_1015451 | F045078 | KHRGLHRKPRHADAHRRMDIDVDTELAPLSLAAARALFRAPQAEDACWADVHMPDGTVRACGRPEATNLGLCAEHRVELFGLEAS |
| Ga0208712_101592 | Ga0208712_1015922 | F094811 | MFSDADHEVIDSPEALFRHLYDEHGVEEARDLDPETAPLQFW |
| Ga0208712_102189 | Ga0208712_1021892 | F031705 | MLVPIHRAVSAVLQVMLVAFVTLSARVQHGVLRSKHWFSWHWFAPAGTAVVAVAWLWSVSRTYAWLW |
| Ga0208712_102228 | Ga0208712_1022282 | F008846 | MTDPMLVRRLALDLRNLADKTLELRGVVEDYRHDLVRTLEDDWCDPDELQALHRQIQELWESMDRAEAKLRSGTRRMSPLLWLE |
| Ga0208712_102407 | Ga0208712_1024071 | F036583 | MLMRTTIGPDDAATVGELLREIGLGRSTPEELRDAAIYWSAAIDPDMECADLQTIAWLLRDASSHRRVPTPDRDRARYWAAYLEGRMAS |
| Ga0208712_102543 | Ga0208712_1025431 | F030604 | MNALSASGLADLAGLTEAEVERMVDLGILVARDGPGPFLETDVQKVRLAAACEQAGLPMDAIAVAIR |
| Ga0208712_102711 | Ga0208712_1027111 | F012785 | MVIHYPPARLRSNSDQPTAITNVLVATSGSFSTGEIPLGAPTCSARSRRGRWALYPSGEEVVVVWPGGVLTGRPAEVAAELNRLGGDR |
| Ga0208712_102734 | Ga0208712_1027341 | F009602 | MADPRRMTPEEHGEAHALLVRVVTDPNWQAASQALDDLMRKLLVLRRLLEAEERLPK |
| Ga0208712_102849 | Ga0208712_1028491 | F085670 | MRCASGTGGTAPSGFSYADNFRAWMLSRGPAVIPWSWFGPPHSADGVASADALSDIAPGQHAYVVEVGPGTPPDQVMAFAARLRQREPIAAIGFSTWPTRAEAEQAAVPWDACVDAFDFGLPQVCT |
| Ga0208712_102864 | Ga0208712_1028642 | F059742 | MSGVPVVPARRLPSMLCELPAVLGPERVAVLADQAR |
| Ga0208712_102922 | Ga0208712_1029221 | F096010 | MGRDDRTTDTGMLGSDAEDPGPGRDTRQTDLDPAATSSEHPTRTVGMSGSDPERTRLGTQETSGRPLAGAPQDMTSSGQADTGMVGSEAENPGPGRDTRRTDPDPAAASGADDPETTTAMSDDDPDRTRLGSHETGHPRQ |
| Ga0208712_102992 | Ga0208712_1029922 | F012394 | VGETSAATARELEETRKQMEDKVAKLSERAPEEARKLIKRVAFAVITAVVVLAARKLVDKLWERATGEL |
| Ga0208712_103064 | Ga0208712_1030641 | F035464 | VPRTRVIAAGLIMAALVIGVAVPGGADDLATAKSRQKKMQAALDDATRELNQIESERHFAEQRLQAANGRLGIVRDDLAKARRALSGHVSSLYKAGGTRPLSGILGSSADVVVSRVEFETILQEGQVAAVADAGAVGMVPAQMLPADVLAGLLDDLAARTDG |
| Ga0208712_103332 | Ga0208712_1033322 | F008694 | PPGFRARTRQTYNATVIEELREPRRVFTVRSQTPSAPLPQASRDYRAWARRNLTGFRELRYQENQTYADHKGAVVFEYEAVRDGRRVHVSHINVKGRTWGYNVEFIVPAGRWDDSQALARQFEQAFEPLG |
| Ga0208712_103345 | Ga0208712_1033451 | F015259 | MWRDRDRYPDHQYVPDTFWLVVAALLFAACGLVWLIGQVAAILFGAHEHLPVRLVDMLGVLLRLP |
| Ga0208712_103409 | Ga0208712_1034091 | F068691 | EAVTARVRAATPEDERKLLSSFLGFVDRHSGDQVATITIHYR |
| Ga0208712_103501 | Ga0208712_1035012 | F003252 | MGPAAKPTRENRTITVDFQNEATYFQLLGDGKAFVECVLAFVL |
| Ga0208712_103522 | Ga0208712_1035221 | F049469 | EAFRTIHFPESLEAAQAARRRFEEGVREVVQRLSGEFARVCQTAGAEGELRLLAGDRPEEYGVDVLVAHRATERRRSYRDAAHSGGQRATIAILLLLATMGTAEAADLLIMDEHIAHLDSTNIDHVAALMHALADRVQFVLATPTNAESLRLSWCDLQLAFLPRDPGRAYSPPIRLLSRLGVGDLEERAPERELSP |
| Ga0208712_103879 | Ga0208712_1038792 | F020437 | MTEPQKLTDLVPVEVLTAVHTAIAALEIQGPAITEALRQLDRATTMAWKAVNMLGVTDDEWELVKRELGIERGWDAAYQLVSTFDLPSMQPSAGVTADGP |
| Ga0208712_104071 | Ga0208712_1040711 | F082892 | MRRWWWGLAPGDRRLAALFLAWLTVDGPGSERAAPTTTTPEQRAIADGEQALADWAEFAVSNDLADVKESFWANGPQYKQLAKEAKARKGEGAGPPPYTMTMTGVQVIEPRPDQRILRGRVEMTRPGERPQTFNW |
| Ga0208712_104189 | Ga0208712_1041891 | F020315 | VDERSLQLLRVMREQLGESTGRSVDAGAAANSLGMYPETLDRSLLYLVRAGYIEEYADRAMSSRNGMFLITLQGIAAIDNA |
| Ga0208712_104375 | Ga0208712_1043751 | F053848 | MDVRLTGVYIADARLVSEGVAQPEDAMAVFVGRAGKGRIAPFSVRRSYTGAGGWYREAMAVLAPNGDVVWRSPERPLTLRGSSKIDTFTDEVHGVVVDSDDDHELVLLVNGDEVGRVPVAVLDEDPPWSSGSETDVLDEALK |
| Ga0208712_104731 | Ga0208712_1047311 | F001339 | VGTKTITMYVSDLDQSEIPADQAYQLSIRHPDGSTQQLDISEQNYRDLKLAGVGKTLKKRGRKPGSTTKATKAASTPPTRRRRQN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |