3300032826: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R2_MAIN_26JUN2017_LR1 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300032826
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128851 | Gp0330586 | Ga0314732
• Sample Name: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R2_MAIN_26JUN2017_LR1 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 43397660
• Sequencing Scaffolds: 27
• Novel Protein Genes: 32
• Associated Families: 30

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	2
Not Available	8
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	3
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae → Ourmiavirus → unclassified Ourmiavirus → Erysiphe necator associated ourmia-like virus 88	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 → Panicum miliaceum	2
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 → Opisthokonta	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 → Panicum sect. Panicum → Panicum hallii	2
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	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 → Panicum sect. Hiantes → Panicum virgatum	4
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Diversisporaceae → Diversispora → Diversispora epigaea	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	1

Ecosystem and Geography

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): 42.3951
  • Long. (^o): -85.3736
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000459	Metagenome / Metatranscriptome	1109	Y
F001543	Metagenome / Metatranscriptome	673	Y
F002654	Metagenome / Metatranscriptome	539	Y
F002974	Metagenome / Metatranscriptome	516	Y
F012546	Metagenome / Metatranscriptome	279	Y
F012944	Metagenome / Metatranscriptome	275	Y
F014470	Metatranscriptome	262	Y
F015691	Metagenome / Metatranscriptome	252	Y
F016911	Metagenome / Metatranscriptome	243	Y
F018302	Metagenome / Metatranscriptome	235	Y
F018668	Metagenome / Metatranscriptome	233	Y
F019078	Metagenome / Metatranscriptome	231	Y
F020484	Metagenome / Metatranscriptome	223	Y
F026180	Metagenome / Metatranscriptome	198	Y
F030953	Metatranscriptome	183	N
F034039	Metagenome / Metatranscriptome	175	Y
F040414	Metagenome / Metatranscriptome	161	Y
F040444	Metagenome / Metatranscriptome	161	Y
F041531	Metatranscriptome	159	Y
F042712	Metagenome / Metatranscriptome	157	Y
F053748	Metagenome / Metatranscriptome	140	Y
F075544	Metagenome / Metatranscriptome	118	Y
F078016	Metatranscriptome	116	N
F078111	Metagenome / Metatranscriptome	116	Y
F079454	Metagenome / Metatranscriptome	115	Y
F084981	Metagenome / Metatranscriptome	111	Y
F093512	Metagenome / Metatranscriptome	106	N
F102419	Metagenome / Metatranscriptome	101	Y
F104214	Metagenome / Metatranscriptome	100	Y
F106076	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0314732_102498	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	1630
Ga0314732_105892	Not Available	1205
Ga0314732_107028	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	1122
Ga0314732_107220	Not Available	1109
Ga0314732_109268	Not Available	993
Ga0314732_111096	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	907
Ga0314732_111926	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae → Ourmiavirus → unclassified Ourmiavirus → Erysiphe necator associated ourmia-like virus 88	877
Ga0314732_113539	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	821
Ga0314732_113872	Not Available	809
Ga0314732_115317	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	767
Ga0314732_118249	All Organisms → cellular organisms → Eukaryota → Opisthokonta	697
Ga0314732_118993	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	681
Ga0314732_119663	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	667
Ga0314732_121079	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	641
Ga0314732_121923	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	627
Ga0314732_122176	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	623
Ga0314732_123509	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	601
Ga0314732_123945	Not Available	595
Ga0314732_126503	Not Available	560
Ga0314732_126965	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	554
Ga0314732_127184	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	551
Ga0314732_127768	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	544
Ga0314732_128466	Not Available	536
Ga0314732_128802	Not Available	532
Ga0314732_129490	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Diversisporaceae → Diversispora → Diversispora epigaea	525
Ga0314732_129745	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	522
Ga0314732_131895	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0314732_101620	Ga0314732_1016201	F002974	VQRRPPDAPVHSGIIRRNNDVKRGRGRPILTWKEVVKRDLKDWNITREIALDRATWKAAIHVPEP
Ga0314732_102498	Ga0314732_1024981	F015691	VFIKLGQKHASKDGIELAVFVAFGEVLSFGLGVAELVLVLLLTVRLVDGFSFVHSVVYNVHKQAHNQNTENKDLSLSSNRIHIKCGAQSNIFEWFLNGMAGTKLREA
Ga0314732_105892	Ga0314732_1058922	F020484	MARTLDVARSEIRRDRLQCWDEMDITLLFRINFGRMRTRWKGKFVHFLMEQCFSTCSVLEIERKIREDEAAMGQRGIEGGDDDVKQ
Ga0314732_107028	Ga0314732_1070281	F001543	VFIKTRKKYASKGGIELAVFKAFREVLIEVLPFGFGIVKLVLIDLLAVLLVDEFSLVHTVIYDVYKQTHNSEKEIKVLSLSSN
Ga0314732_107220	Ga0314732_1072201	F104214	VWTVRLGTMSGMYCIEPLGRIYRSTWLGGQVASPRDKEGYPGITINPKLTISRVA
Ga0314732_109268	Ga0314732_1092681	F034039	LKVLGLRLWDHAVVVPDGVQVVANTTLDSVVVFHLTALADHVFPLVVIAFLKWDLICLVLFLTFFQEK
Ga0314732_111096	Ga0314732_1110961	F014470	GHTTYPAYKRERGLRVRRTYTPLPEPSDGCVFPEEMVRITGRDPTPVEQEALRAVQWRHGRWGGSKRDVFSPSCGKVRRSYHYRARPGFSYLSFVGPGKTKLSPLWEKGADWGLVPADFRSEEEERGLAKLEQFRADWDSGFIAIGD
Ga0314732_111926	Ga0314732_1119261	F078016	TMFHRSVFSLNSTYFVTSKSNGPRFAPFIRSSCLFDKIEDCGEVAGRLKGCVVGTGVFRDKVQTFLLTNISSGVFSTQRSLRRGMGCSISTRAIRWSQMDKREEFYLSFPSEPSIPLRKSHWMHNSIPDGYVRSAGVPDSESFNSDMVETAWSRGPISTKYQKDDEYWEYVREGTYRYNPFSAYRFWTMAGGVGEIPRSTLQCARPQKMGWRKQNEGGIAFVSAGFQ
Ga0314732_112508	Ga0314732_1125081	F030953	DDTVISAYRDVTVQDYPSGYRLNNDKTIRAGNAAEVNSTVFLKSKGRWREVRHLRRGGAVADYPGMLHMAKAVTITPGFVDAYQRCRIGRRWGFLPSQLGHKTYPAYKRERGLRVRRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWKHGRWGGAKRDVFSPSCGKVRRSYHYRARPGFSYLSFVGPGRPKLSPLWEKGADWGLVPASFQTEEEERGLAELEQFRRNWDSGFISVGD
Ga0314732_113539	Ga0314732_1135393	F079454	LALTLTKLVLRTKDLIFMFLDGLDVFLDVYEMSWDSSNLQMAGGAHIYRPPTRTSC
Ga0314732_113872	Ga0314732_1138722	F093512	MSKDDWKAVYAKDDDLKLTKAGGNKIRRTTTPPIFSSGLLDILLIE
Ga0314732_115317	Ga0314732_1153173	F040444	GEAELSGHPGKEVEEGGEGLRLGAQRESPRVMRKIINNDQIISIARHAEYRRCPQVTVNEIKSMRSMRRRKRKRKSNMTT
Ga0314732_117137	Ga0314732_1171371	F000459	ERVDNVKRGRGRPKLTWDESVKRDLKDWNISKEITLDRSAWRLAINEPEP
Ga0314732_118249	Ga0314732_1182491	F018668	GCSNNQSNPTTPHSLLSTPPPKQHQTIKMAFFKSLIIASVAAVAFAAPQGASDKNTEVKVSGQDNSPKCGNGQKIACCNSGEDLIGLNCLSIPILAIPIQQACGSNVAACCQTGDAEGNLINLEANCLAIPL
Ga0314732_118993	Ga0314732_1189932	F026180	GNGGSCTVHPTARHSAADYREIQKLAKQVGGRREQAFKDGSPTPRQRPGKEKASDGEATAVEKGLGYQSPARELKGVYSHVDTDSGKDERRKKLYVMYGGSSELVSRRDVKTLRREVLSVKPGVPRAAPHHRWRNTTISFGPSDCPENMAGAGVLPLVTAPVISDVRLYHVLIDGGTGLNVISYAAFKQR
Ga0314732_119663	Ga0314732_1196631	F002654	LNYQTFNDKVGCQKGNSPEQVFKVPKFLLSESKEVFKRYNQEIGLEAAIF
Ga0314732_121079	Ga0314732_1210792	F018302	GKKKSFAWEDACHVFAAVRLQAAARGLLARRGLQKMRLEMQEAALTAIDLGNWGRNLGKWGRDLVPSEGRQRSRQLAVVFKRALGSELQFCSSDKGGAFLLVIGGGTSPSAITFRHRPPRGRLRWSLLRLISGGDTCPPLSFRWSPWDPGGYFRAGPAQGGCPPYLQESKIKNCSLFKISRDVKRLVLRSSVCV
Ga0314732_121209	Ga0314732_1212091	F000459	VPVRGGVLKRVDKVKRGRGRPKLTWDESVKRDLKDWDISEELALDRSAWRLAINVPEP
Ga0314732_121499	Ga0314732_1214991	F000459	VRSGVLKRVDKVKRDRGRSKLTCDESVKRDLKDWNISEEVALDRSAWRLAINVPEP
Ga0314732_121923	Ga0314732_1219231	F019078	MSTEQKDLGDSAMGDGEKACPCCHFYGVPCRQIRATEEEATTRRNQRLFSSTKRKRSHQEQLAEDSLFLDSPSVEELQTIQKRKNPKCSRDTQVENQALHDYVDGLTITMNVIQPHGRKESKEQAAEIMQDVTLSSQGGQPSSAIH
Ga0314732_122176	Ga0314732_1221761	F102419	QVQSAINEGRLVLSEMQIDKAHFPVHTLELNNPKVLIRPEQAEGAKGKNVVIGDPRPMDTSDKILAREVIKEKTDDGKDTLKIIVRNPRLGGQGSSPPENWSADQARPVRLVSPTDPTGPTGQTGSSSRSDRSGDRPRTFKPKHLEVGTWKTNEVKV
Ga0314732_123509	Ga0314732_1235091	F016911	RFMAIAHYGYLVLKMPYPAGVLTVWGDRTAAVAAVEKLHALMAEATRFEEDPSTSRARAPAKAPKVLPSDPDNVPVKTVQIGVDSSRTTCIAGNLEEK
Ga0314732_123945	Ga0314732_1239451	F012546	SLVLSCNSRSFVIKLDYDYRYLLEVYSELSDIYFVIWLRYHSMFALHDRPVLAMVNILALEL
Ga0314732_126503	Ga0314732_1265031	F084981	SGAAHLAPDAQQCPYGTLRARPLGPRLYELLLLRTCEAVVAGDLLASSVQCDSRSLAKSLLLGTSAECGLTDVESVTRVCSAPETARTALPLNLILQLYLTDLTLLLLPLSWLWWPWHL
Ga0314732_126965	Ga0314732_1269651	F012944	PKSSTSEGSNKVARSHDRGVMLLPDLAKEIELKLENNSSSIQTQIDLKPKSTRIGTLIAQHVFGLRNSSSVYKQMIRSSYENSSDRLLHVENQSATASREAPVFDVYPDPIESSQDSLDFITNALIKMQLKSCRDHTLAELLDNLREVASIDDLPFQHGAPLVTERETGSGRTVLADYGSDLES
Ga0314732_127184	Ga0314732_1271841	F041531	REVRHLRRGGAVTDYPGMLHMAKAVTVSPRFVDAYQRCRIGRRWGFLPSQLGHTTYPAYKRERGLRVRRTYTPLPEPSDGCVFPEEMVRITGRDPTPVEQEALRAVQWRHGRWGGSKRDVFSPSCGKVRRSYHYRARPGFSYLSFVGPGRTKLSPLWEKGADWGLVPADFRSEEEERGLAKLE
Ga0314732_127768	Ga0314732_1277681	F075544	LRPLHIGDDVLGHPNGVVPTPFLIPNLVSNHLAICLLLDYIGGAIVFVPPVELGVDERTLNFEFLF
Ga0314732_128466	Ga0314732_1284661	F053748	MRCCDQGAHIRERLTANRSDLTLQGGPNQHGTYLPRRTIRTNHSPPRLELQEPAQRHMVSRAQ
Ga0314732_128802	Ga0314732_1288021	F078111	MGWMNSIPWVDCHALEARTIVVEQGGWEIAILSQLRTELMCHLA
Ga0314732_129490	Ga0314732_1294901	F106076	AQVTVIPDDKSNTVLSKGNSKGFIASIPIGGQIAPNSTVGDKALWKNAQKIAKKNKASETINKATPIFNPLXTAAVXLPRYVPSEITSRHQNDIDNTTEINANKTKTLELLKPCIVNTPLVVKVNKEIQVYNGQGDGETKXKGWCXNILLLKASKFILFIILR
Ga0314732_129745	Ga0314732_1297451	F040414	SVDLVAASDGLDLRVSEAILDALFFTSVKIPRTLRAFAKSSLRPWFKGSRGEAVRVNHGQMQGAYLSFPLLCLHSYCAATWAARFDREARFLVNGDDTVISANRDILVQDYPSGYRLNMDKTIRAGNTVEVNSTVFLWSKGKWREVRHLRRGGAVTDFPGMLHMAKAVTVSPR
Ga0314732_131895	Ga0314732_1318952	F042712	MEYLLDESGRQKFLQLLADRPALELVEASQALLHRLGVGSDIKGMLGDLPWYARRVRGAPREDVCVGAEKVDEHHFLFAV