3300032953: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R3_NF_05JUN2017_LR1 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300032953
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128851 | Gp0330583 | Ga0314729
• Sample Name: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R3_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: 29382930
• Sequencing Scaffolds: 13
• Novel Protein Genes: 15
• Associated Families: 14

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 sect. Hiantes → Panicum virgatum	3
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	4
Not Available	3
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
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Arundinoideae → Arundineae → Arundo → Arundo donax	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	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): 42.3956
  • Long. (^o): -85.372
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003727	Metagenome / Metatranscriptome	471	Y
F014470	Metatranscriptome	262	Y
F018302	Metagenome / Metatranscriptome	235	Y
F025200	Metagenome / Metatranscriptome	202	Y
F026180	Metagenome / Metatranscriptome	198	Y
F030953	Metatranscriptome	183	N
F032897	Metagenome / Metatranscriptome	178	Y
F041531	Metatranscriptome	159	Y
F042666	Metatranscriptome	157	N
F044246	Metagenome / Metatranscriptome	154	N
F044879	Metagenome / Metatranscriptome	153	Y
F069563	Metagenome / Metatranscriptome	123	N
F070702	Metatranscriptome	122	N
F091151	Metagenome / Metatranscriptome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0314729_100255	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	2857
Ga0314729_104918	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	1089
Ga0314729_108336	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	843
Ga0314729_109423	Not Available	793
Ga0314729_111170	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	728
Ga0314729_111342	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	722
Ga0314729_111542	Not Available	715
Ga0314729_111799	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Arundinoideae → Arundineae → Arundo → Arundo donax	706
Ga0314729_113255	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	661
Ga0314729_115233	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	611
Ga0314729_117282	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	568
Ga0314729_118126	Not Available	553
Ga0314729_118420	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Miaviricetes → Ourlivirales → Botourmiaviridae	547

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0314729_100255	Ga0314729_1002553	F044879	MTTIIVTNEFVQLNEILSLIGSYVKEAPQFHYSKSXSRYSTQVYNKTKDLSSPKCRKIEKDT
Ga0314729_103577	Ga0314729_1035771	F030953	EARFLVNGDDTVISAYRDVTVQDYPSGYRLNNDKTIRAGNAAEVNSTVFLKSKGRWREVRHLRRGGAVADYPGMLHMAKAVTITPGFVDAYQRCRIGRRWGFLPSQLGHKTYPAYKRERGLRVRRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWKHGRWGGAKRDVFSPSCGKVRRSYHYRARPGFAYLSFVGPGRPKLSPLWEKGADWGLVPASFQSEEEERGLAELEQFRKNWDSGFISIGD
Ga0314729_104918	Ga0314729_1049181	F041531	VFLRSKGKWREVRHLRRGGAVTDFPGMLHMAKAVTVSPRFVDAYQRCRIGRRWGFLPSQLGHTTYPAYKRERGLRVRRTYTPLPEPSDGCVFPEEMVRITGRDPTPVEQEALRAVQWRHGRWGGSKRDVFSPSCGKVRRSYHYRARPGFSYLSFVGPGKTKLSPLWEKGADWGLVPADFRSEEEERGLAKLEQFRADWDSGFIAIGD
Ga0314729_108336	Ga0314729_1083361	F042666	LKETLLTWSMPCADLHKNAFQRSSSRVAHVTRPVDNPTSGSTVKRCRECLRGERDTKETIHNGLLLLRVRYGLPYAELPDCGPGDLSRFLSFLLLQGKERTSVAFPRRQRPGENGLCTMQRLCRRDRWALAHGCSSIKRNLPKGCFRHTPSVFAAWEAAALSQPPPLTPGYIEHVRRVVTGIFQPGWDKNYRSFVGSHVPNPSARACMTRADVLWRRRRDEFFTATTSESEINPSELSGRYKEIRSAGKSRPMLIFDEQIELLAPLHKTMFSHLSKQEWS
Ga0314729_109423	Ga0314729_1094231	F091151	VRPVLDNRFLLGGPSSGPRLPREDRAGWRHIGGQDVELTLYHRRGYRIVFRTQF
Ga0314729_111170	Ga0314729_1111701	F014470	RRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWKHGRWGGAKRDVFSPSCGKVRRSYHYRARPGFSYLSFVGPGRPKLSPLWEKGADWGLVPASFQTEEEERGLAELEQFRRNWDSGFISIGD
Ga0314729_111342	Ga0314729_1113421	F003727	VFIKTWTKYASKGGIELAVFKAFREVLIEVLSFGLGVAEVVLVHLLAVLLVDGHSFVHTVIYDVYKQAHNQKIEIKALSLSSIRKQIRYGDRSNIFGRFPNGMARTMLEMAW
Ga0314729_111542	Ga0314729_1115421	F091151	VRPGLDSRFLRVGPSSGPRLTREDWAGWHHIGGQDVELTLYHRRGYRIVFRTQFLNF
Ga0314729_111799	Ga0314729_1117991	F032897	AFFTRSHCQQNTIALQHVPSELQVADFFTKAQTQEQHRLHLLKLNASDPPLPP
Ga0314729_113255	Ga0314729_1132551	F069563	LPEAKLEQEGIERAGLMGDEERGVLEIGEVEEGTTHLARSMATEAGPAGVEAGSHLLVGVDCAEGSLRGPEVYGSVLPGGGSGMSWFHH
Ga0314729_115233	Ga0314729_1152331	F018302	QQSRRFAAIFTHEQGVVSAIGDPQLYGSGGRGGGFLFVTGGDALPSATAFRYRPPRGRLRWSQSRLIPGDRTRAPLSFRWSPWDPGGDICADPARGGCPPYFQESKKIKSRSLFKISRDVKGLFLGFWFASSGVIVSVIVRLQLEDELHVQVGCSVRGVKGLLGLSPLGLISRLLRGQVNLSI
Ga0314729_117282	Ga0314729_1172821	F025200	LRPLHVGDDVLGHPNGVVPTPFLLPNLVSNHLAICFHLDHIGGAIALVPPIGLGLDERILDCEFLFVLLIRKLLPWLRTLIVLVAFFV
Ga0314729_118126	Ga0314729_1181261	F026180	VHPTARHSAADCREIQKLAKRVSGRREQSSKDGSPPPRQRSGKEKASDSEAAAGEKELGYQSPARELKGIYSHNNSDSDNEERRKKLYVMYGGSWELVSRRDVKTLRREVLSAKSGVPKAAPHHKWRNTTISFGPSDCLKANGKLRMCIDYPSLNEACPRDPYPL
Ga0314729_118420	Ga0314729_1184201	F044246	GERDTKETIHNGLLLLRVRYGLPYAELPDCGPGDLSRFLSFLLLQGKERTSVAFPRRQRHGENGLCTLQRLCRRDRWALAHGCSSIKRNLPKGCFRHTPSVFAAWEAAALSQPPPLTSGYLEHVRRVVTGIFRPGWDRNYNSFVGSHVPNPSARACKTRADVLWRRRRDEFFTATTSESVIN
Ga0314729_120316	Ga0314729_1203161	F070702	EARFLVNGDDTVISAYRDVTVQDYPSGYRLNNDKTIRAGNAAEVNSTVFLKSKERWREVRHLRRGGAVTDFPGMMHMAKAVTVTPGFVDAYQRCRIGRRWGFLPSQLGHTTYPAYKRERGLRVRRTYTPLPEPADGCVFPEEMVRITGRDPTPVEQEALRSVQWRHGRWGGA