| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300032827 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0128851 | Gp0330584 | Ga0314730 |
| Sample Name | Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R4_NF_05JUN2017_LR1 (Metagenome Metatranscriptome) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 54843670 |
| Sequencing Scaffolds | 17 |
| Novel Protein Genes | 27 |
| Associated Families | 21 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum miliaceum | 1 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Salicaceae → Saliceae → Populus → Populus trichocarpa | 1 |
| All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae | 2 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum | 4 |
| Not Available | 6 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Panicum → Panicum hallii | 1 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae | 1 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Phyllosphere Microbial Comminities From Bioenergy Crops Switchgrass And Miscanthus From Michigan, Usa |
| Type | Host-Associated |
| Taxonomy | Host-Associated → Plants → Phyllosphere → Unclassified → Unclassified → Switchgrass Phyllosphere → Phyllosphere Microbial Comminities From Bioenergy Crops Switchgrass And Miscanthus From Michigan, Usa |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | Unclassified |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Michigan | |||||||
| Coordinates | Lat. (o) | 42.3941 | Long. (o) | -85.3741 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000459 | Metagenome / Metatranscriptome | 1109 | Y |
| F001543 | Metagenome / Metatranscriptome | 673 | Y |
| F007513 | Metagenome / Metatranscriptome | 349 | Y |
| F010664 | Metagenome / Metatranscriptome | 300 | Y |
| F014095 | Metagenome / Metatranscriptome | 265 | Y |
| F020484 | Metagenome / Metatranscriptome | 223 | Y |
| F026908 | Metagenome / Metatranscriptome | 196 | Y |
| F030953 | Metatranscriptome | 183 | N |
| F032517 | Metagenome / Metatranscriptome | 179 | Y |
| F042666 | Metatranscriptome | 157 | N |
| F061504 | Metagenome / Metatranscriptome | 131 | N |
| F068338 | Metagenome / Metatranscriptome | 124 | Y |
| F070755 | Metagenome / Metatranscriptome | 122 | Y |
| F079454 | Metagenome / Metatranscriptome | 115 | Y |
| F082070 | Metagenome / Metatranscriptome | 113 | Y |
| F088053 | Metagenome / Metatranscriptome | 109 | Y |
| F089752 | Metagenome / Metatranscriptome | 108 | N |
| F094790 | Metagenome / Metatranscriptome | 105 | Y |
| F096410 | Metagenome / Metatranscriptome | 104 | Y |
| F100085 | Metatranscriptome | 102 | N |
| F100243 | Metagenome / Metatranscriptome | 102 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0314730_104583 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum miliaceum | 1392 | Open in IMG/M |
| Ga0314730_111084 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Salicaceae → Saliceae → Populus → Populus trichocarpa | 970 | Open in IMG/M |
| Ga0314730_111504 | All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae | 955 | Open in IMG/M |
| Ga0314730_111911 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum | 938 | Open in IMG/M |
| Ga0314730_113198 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum | 894 | Open in IMG/M |
| Ga0314730_113622 | Not Available | 881 | Open in IMG/M |
| Ga0314730_116314 | Not Available | 805 | Open in IMG/M |
| Ga0314730_117267 | Not Available | 781 | Open in IMG/M |
| Ga0314730_117965 | All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae | 765 | Open in IMG/M |
| Ga0314730_119395 | Not Available | 735 | Open in IMG/M |
| Ga0314730_120671 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Panicum → Panicum hallii | 711 | Open in IMG/M |
| Ga0314730_121777 | Not Available | 691 | Open in IMG/M |
| Ga0314730_122617 | Not Available | 677 | Open in IMG/M |
| Ga0314730_127110 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae | 615 | Open in IMG/M |
| Ga0314730_130417 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum | 577 | Open in IMG/M |
| Ga0314730_132327 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum | 558 | Open in IMG/M |
| Ga0314730_138775 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0314730_104583 | Ga0314730_1045831 | F100243 | LKASIEILVPRADVVSDSVLARKCVPPHGTAVVGGKW |
| Ga0314730_106592 | Ga0314730_1065921 | F030953 | SVCVNARQTSVDLVAASDGLDLRVSEAILDSLFFTSVKIPRTLRAFAKSSLRPWFKGSRGEAVRVNHGQMQGAYLSFPLLCLHSYCAATWAARFDREARFLVNGDDTVISANRDILVQDYPSGYRLNMDKTIRAGNTAEVNSTVFLRSKGKWREVRHLRRGGAVTDYPGMLHMAKAVTVSPRFVDAYQRCRIGRRWGFLPSQLGHTTYPAYKRERGLRVRRTYTPLPEPSDGCVFPEEMVRITGRDPTPVEQEALRAVQWRHGRWGGSKRDVFNPSCGKVRRSYHYRARPGFSYLSFVGPGKTKLSPLWEKGADWGLVPADFRSEEEERGLAKLEQFRADWDSGFIAIGD |
| Ga0314730_111084 | Ga0314730_1110841 | F068338 | MCLVDSDTTNSILRDTKCFQTLTKRQGNVLTIAGRDATIVGSGCATITLPMGTQITIEDALLYPDSTRTLLSYRDIRKNGLHVETDEEHKEEFPLLIKDTRYGKQLLEKIPSLPSGIYYTYIKPVPHVA |
| Ga0314730_111504 | Ga0314730_1115041 | F042666 | ETLLTWSMPCADLHKNAFQRSSSRVAHVTRPVNNSTSGLTVKRCHDCSKSERDTKETIHNGLLLLRVGYGLPYSELPDCSPGDLSRFLSFLLLQGKERTSVAFPRRQRHGENGLCTLQRLCRRDRWALAHGCSSIKRNLPKGCFRHTPSVFAAWEAAALSQPPPLTSGYIEHVRRVVTGIFQPGWDKNYRSFVGSHVPNPSARACMTRADVLWRRRRDEFFTATTSESEINPSELSGRYKEIRSAGKSRPMLIFDEQIELLAPLHKTMFSHLSKQEWSLCGPPTEEKVSSVCVNARQTSVDLVAASDGLDLRVSEAI |
| Ga0314730_111911 | Ga0314730_1119112 | F032517 | MNLSLSSSSFDKIINPYYEFLGLYGGGADDLVERRGGGIPSVNLMEELLGSLIPPRSNMLLLGAGLSSSMLRGDSETECLREELADASDVDERVLLLPVTNLMMPLMVTPCCTHSKTNTPGVSCRRENNISKSGAN |
| Ga0314730_112469 | Ga0314730_1124692 | F000459 | VRNGVLERVDNAKRGRGRPKLTWDELVKRDFKEWNISKEIALDRSAWRLAINVSEP |
| Ga0314730_113198 | Ga0314730_1131981 | F089752 | MGFGQRVISVIFPLTCLVKVVHLLGVPERGPGRCDNTSVGVVCPWGEYFEARASLFICLKDKTCLRAEGGQGDDGACCSAAGAFVVLSRASRHRPWFPRLLCGAPFEGGRPEPMLRRLASRGSAPLYFVRSRLS |
| Ga0314730_113622 | Ga0314730_1136221 | F082070 | MGVNLRLLVVVLGLQSLLVVRDVLLGPLGVRGVDQLLLAKGRSGSWRTEA |
| Ga0314730_116314 | Ga0314730_1163141 | F026908 | VKTRKRIRRRVLTWFASRWRNHQFKRAEKPHSKFSRSNALDGPATRPKTPLAVENSVGKLAAPETRRQMSAREREHGELP |
| Ga0314730_117267 | Ga0314730_1172671 | F001543 | VFIKLGRNMQSKDEIELVVHKAFREVLIEILSFRFGLVVLVLGHLLAVLLIDGFSLSHFVIYGAHK |
| Ga0314730_117612 | Ga0314730_1176121 | F000459 | RVDNVKRGRGRPKLAWCESVKRDLKECNISKELAMDRSTWRLAINVLEL |
| Ga0314730_117965 | Ga0314730_1179651 | F042666 | WSMPCADLHKNAFQRSSSRVAHVTRPVDNPTSGSTVKRCRDCLRGERDTKETIHNGLLLLRVRYGLPYAELPDCGPGDLSRFLSFLLLQGKERTSVAFPRRQRPGENGLCTLQRLCRRDRWALAHGCSSIKRNLPKGCFRHTPSVFAAWEAAALSQPPPLTSGYLEHVRRVVTGIFRPGWDGRYNSFVGSHVPNPSARACKTRADVLWRRRRDEFFTATTSESDINPSELSGRYKEIRSAGQTRPMLIFDEQIEL |
| Ga0314730_119395 | Ga0314730_1193951 | F079454 | ALTLTKLVLMTKDFIFMLLDGLEMFLGVCGMFSNSSNLQMAGGAHIYRPPSRTSRL |
| Ga0314730_119397 | Ga0314730_1193972 | F070755 | VAAPTSSEHFAEAPEIWLPLEAVGTEVVYNPSGAVLAYNLTAVVEADMWSDTVLVGTPADTDKAHEGVRPKSDETSDLPD |
| Ga0314730_120671 | Ga0314730_1206712 | F094790 | GRSEQNMVFSYCRDWGSTSSPFLHTPVPGLSEALLSNCFTADRGCGSCLSLDCSDLLQSYRELCLLGSMGLFPQQVGLLVKELIQAG |
| Ga0314730_121777 | Ga0314730_1217771 | F020484 | LDVARSEVRRDRLQRWDKMDTTLLFGINFGRIRTRWKVKFVHFAMEQCFSTCSVLEIERKIREDEAAMGQRGIEGGDDDVKQ |
| Ga0314730_122406 | Ga0314730_1224061 | F096410 | DKAPLIDKLSWVGSTVHAVNSNRSRILVKIRLAWFVISINLEIGFLRVKSGFLKGQVSPS |
| Ga0314730_122617 | Ga0314730_1226171 | F014095 | MLHALNCFVDPVSSGLIGILPDSTAGLLRFKCVLT |
| Ga0314730_123051 | Ga0314730_1230511 | F030953 | WAARFDKEARFLVNGDDTVISAYRDVTVQDYPSGYRLNNDKTIRAGNAAEVNSTVFLKSKGRWREVRHLRRGGAVADYPGMLHMAKAVTITPGFVDAYQRCRIGRRWGFLPSQLGHRTYPAYKRERGLRVRRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWKHGRWGGAKRDVFSPSCGKVRRSYHYRARPGFAYLSFVGPGRPKLSPLWEKG |
| Ga0314730_124309 | Ga0314730_1243091 | F030953 | FDKEARFLVNGDDTVISAYRDVTVQDYPSGYRLNNDKTIRAGNAAEVNSTVFLKSKERWREVRHLRRGGAVTDFPGMMHMAKAVTVTPGFVDAYQRCRIGRRWGFLPSQLGHTTYPAYKRERGLRVRRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWKHGRWGGAKRDVFSPSCGKVRRSYHYRARPGFAYLSFVGPGRPKLSPLW |
| Ga0314730_127110 | Ga0314730_1271101 | F061504 | MENPSLNISLLCLAPKYLNLILWALSFGLHWRVDVHERASNHHGLRSFVRALAFVILRVI |
| Ga0314730_127890 | Ga0314730_1278901 | F088053 | LTISEKDLADLAFNGLRSYLKEKLEGFEYHTVNFLQVKVMGLEFKLKNAKDTFKPHRSNTHILDHDSDGSDDDSKEVYAAEFVWPSKAKPGSVPSLKPIQK |
| Ga0314730_130417 | Ga0314730_1304171 | F007513 | MVLIGMVVGKMLGHAVLVEVRETVVITGLQRVVAFPVMLLVVFSTAMDHGTEALEEVSRHHAFLAVVFVSHAVDGTRDTFCLVLLTLL |
| Ga0314730_131135 | Ga0314730_1311351 | F100085 | FSWNIGKIRPLGLTTYDLGFRGPLAYRATRRFGLSTTVTHTPIPSLVVDNGLSLAASGCEFVDPSELSDEDKERNLCELAAWKWRTKFNISDQCRSNLRFMLAVSATRVDRPDFRPLLWGSDSCLLSRKWHSAKMFRKPVEKRERGFPVLAGYAGRLPSYEEVLAGETDVGSVELIVKADKKN |
| Ga0314730_132327 | Ga0314730_1323271 | F010664 | MANQGMVLLQMGNNNAANRGNGGQGAQPPPSPSLAQAIAVLIADRNEQTELLRQLVQSNAGRGRQAPPAETDYVGFLATQPPLFHKAEDPLETDAWIRTMED |
| Ga0314730_133734 | Ga0314730_1337341 | F100085 | TTFDLGFRGPLAYRATRRFGLSTTVTHTPIPSLVVDNGLSLAASGCEFVDPSELSDEDKERNLSELAAWKWRTKFNISDQCRSNLRFMLAVSATRVDRPDFRPLFWGSDSCLLTRKWHSAKMFRRSIDKRERGFPVLAGYAGRLPSYEEVLAEEIDVGSVELITKSDKKRLKLQPPLEVY |
| Ga0314730_138775 | Ga0314730_1387751 | F032517 | MNLSLSSSSFDKIINPYSEFLGLYGGGADDLVERRGGGGIPSVNLMEELLGSLIPPRSNMSLLGVGLSSSMLRGDPETECLREELADASGVDERVLLLPVTNFMKPLMVTLCYTHSKINTLGVSCQWENNISKSGAN |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |