3300032917: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R3_NF_15MAY2017_LR1 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300032917
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128851 | Gp0330575 | Ga0314721
• Sample Name: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R3_NF_15MAY2017_LR1 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 50219000
• Sequencing Scaffolds: 23
• Novel Protein Genes: 28
• Associated Families: 25

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	4
Not Available	9
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 → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum miliaceum	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	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 → Dichantheliinae → Dichanthelium → Dichanthelium oligosanthes	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	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	2
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Saccharinae → Miscanthus → Miscanthus lutarioriparius	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta	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?
F000412	Metagenome / Metatranscriptome	1169	Y
F000459	Metagenome / Metatranscriptome	1109	Y
F001543	Metagenome / Metatranscriptome	673	Y
F012546	Metagenome / Metatranscriptome	279	Y
F014095	Metagenome / Metatranscriptome	265	Y
F016911	Metagenome / Metatranscriptome	243	Y
F018668	Metagenome / Metatranscriptome	233	Y
F019078	Metagenome / Metatranscriptome	231	Y
F020484	Metagenome / Metatranscriptome	223	Y
F025200	Metagenome / Metatranscriptome	202	Y
F028072	Metagenome / Metatranscriptome	192	N
F032552	Metagenome / Metatranscriptome	179	Y
F034039	Metagenome / Metatranscriptome	175	Y
F034784	Metagenome / Metatranscriptome	173	Y
F042140	Metagenome / Metatranscriptome	158	Y
F042712	Metagenome / Metatranscriptome	157	Y
F060515	Metagenome / Metatranscriptome	132	Y
F061504	Metagenome / Metatranscriptome	131	N
F063291	Metagenome / Metatranscriptome	129	Y
F065372	Metagenome / Metatranscriptome	127	Y
F076725	Metagenome / Metatranscriptome	117	Y
F086518	Metagenome / Metatranscriptome	110	Y
F089752	Metagenome / Metatranscriptome	108	N
F093512	Metagenome / Metatranscriptome	106	N
F094644	Metagenome / Metatranscriptome	105	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0314721_101859	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	1835
Ga0314721_104930	Not Available	1342
Ga0314721_112318	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	913
Ga0314721_115226	Not Available	821
Ga0314721_115351	Not Available	817
Ga0314721_116460	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	788
Ga0314721_116696	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	782
Ga0314721_118182	Not Available	748
Ga0314721_121396	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	687
Ga0314721_122486	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	668
Ga0314721_124000	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae	644
Ga0314721_125045	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Dichantheliinae → Dichanthelium → Dichanthelium oligosanthes	628
Ga0314721_125461	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	622
Ga0314721_129217	Not Available	574
Ga0314721_129531	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	571
Ga0314721_129913	Not Available	566
Ga0314721_131216	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Saccharinae → Miscanthus → Miscanthus lutarioriparius	552
Ga0314721_131756	All Organisms → cellular organisms → Eukaryota → Opisthokonta	547
Ga0314721_132063	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	543
Ga0314721_133677	Not Available	528
Ga0314721_133887	Not Available	526
Ga0314721_133894	Not Available	526
Ga0314721_136008	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	507

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0314721_101859	Ga0314721_1018592	F032552	CYHMIMGLIISCSKIGQKPAKTKYLQNICANAKTTNNWTEVRMVSDFDIKFMPLSKLNRG
Ga0314721_104930	Ga0314721_1049301	F012546	MGPSLALSCNIRSFVIELDYGYRYLLEVYSELSSICFLSWLRYYSMLALHDHPVLEMVNLFFLELYQLL
Ga0314721_112318	Ga0314721_1123181	F061504	MENPSLNLSLLCLAPKYLDLILWALSFGLHWRVDVHKHASNHHGLRSFVRALAFVFLCVI
Ga0314721_114572	Ga0314721_1145721	F094644	MKFIFLSXALRYQRYHSGIWHHCYCCSMPTKCSLHSGYCHTCALRLLCNSNTWILQIXEKDIHLPFASPSSGFQQRMXYCQNHKXLFTHSFIKDLRSMAIYIRMDALECGYHFPSENDQVXQISHFNKSVIVQIHKHRNAKSNIWLNYTSNSLETSEFFGIFXSSLQQATLEKVHISIGNNISLNSYYHMWYVVHYKNSMYLRHDIHILLPCLYMGFNQIEMKHV
Ga0314721_115226	Ga0314721_1152262	F086518	VDRSPELNKVRAIYEPRKPPVEGEAEPPQKRARPAGPMGLGWPAYPLSGSPRSHLSRVDSSHLLEFMSFTIAPLWTSLSWRYLRGKDRIGNPSLNLHLLCLIPKYLDLIFVGSVLWALLEDGCA
Ga0314721_115351	Ga0314721_1153511	F020484	MNLDAARSEIRNRLQRWDKMDITLLFGINLGRIRTRWKEKFVHFAMEQCFSICSVLEIKIKIREDEAAMGQRGIEGGDDDEKQGLGP
Ga0314721_116460	Ga0314721_1164601	F060515	NVKCLSGVDLSDYDFISCTKDGFVSAVIKPMDNRLNHLM
Ga0314721_116696	Ga0314721_1166961	F063291	MSVVAYSLAPPQRSPRAVLVLLFRFIPATQVVLILVFFKKPIGSWELIADMAHLFFSNMLLLRLVFILGPFARIGLFPLLVTAA
Ga0314721_118182	Ga0314721_1181821	F000412	XNXGIFAQTCSTCLERANRKDSSGAHPCRAIDRSXEPRIPSKLSLKDITHATRSKIGSSQSHWNRGTEYYPVAMKTHVEYPNIFFXKYNSPYHFEIGTYVLINLLXAGGSVSPVQPTSLRRNXGFFAETCSTCLEAPNRKDSSGAHPCTAIDRAXEPRIPSLCSLKAITHATGSKIRSSRSRXNRGTEYYTIGMKTHIQYPDIFFXKYNSPYHIEMGTYVLIDLLXAGGSVAPAQPTSLRXNXGIFAQ
Ga0314721_121396	Ga0314721_1213962	F025200	LSPLQVGDDIFGHPNGVVPTPFLLPNLVSNHLAIGLLFDYIGGAIAFVPPVGLGVDERTFDCELLLVLLIRKLLPWLRTLVGLVAFFVAL
Ga0314721_122044	Ga0314721_1220441	F000459	VRSGVLKRVDKVKRGRGRPKLTWDESVKRDFKDWDISEELALDRSAWRLSINVPEP
Ga0314721_122486	Ga0314721_1224861	F016911	FMAIAHYGYLVLKMPSPAGVLTVRGDRTAAVAAVEKLHALAAEAARSEEDTPSTSQARAPARAPKVQPSDPDNVPVKTVQVGADSSRTTRIAGNLEEK
Ga0314721_124000	Ga0314721_1240001	F042140	YVNKKKTNGKVFDHKVGKQERSCNHSIWVPKDVITNKKGPQMVWVPKET
Ga0314721_125045	Ga0314721_1250451	F014095	VCNNNNQFHTLYCKICGILHPLDCFVDPISSGLIGILPDSTAGLLRFKCVLTLVAVSVMVSALKPD
Ga0314721_125461	Ga0314721_1254611	F065372	VHPTARHSAADCREIQKLAKRVSGRRDQSSKDSSPPPRQRPGKEKASDSGAADGEKELGYQSPARELKGVYHDD
Ga0314721_125542	Ga0314721_1255421	F000459	PVRNGVLERVDNVKRGRGRPKLTWDDSVKRDFKDWNISKEIALDRSVWRLAINVPEP
Ga0314721_129217	Ga0314721_1292172	F034039	GTCFTRLMVYMYLLFRGTVLDREVQCLKVLGLNLRDPAVVVPDGVQVVANTTLDSVVVFHLTALADHVSPLVVIAFLKWDLACLVFFLTLFQGI
Ga0314721_129531	Ga0314721_1295311	F001543	VVFIKTGTKHASKGGIELDVFKAFREVLIEVLSFGLGVAELVLVCLIAILLVDGLSFVHSVIYDVYKQAHNQEKEIKALSLSSIRK
Ga0314721_129913	Ga0314721_1299131	F089752	MGFGQRVISAISPLTCLVKVVHLLGVPERGPGRCDNTSVGVVCPWGEYFEARASLFVCLKDKTCLRAEGGQGDDGACCSAAGAFVVLSRASGHRPWLPWLLCGAPFEGGRPEPMLYRLVSKGSAPLCFVWSCLGAVTEEILYSWSTAS
Ga0314721_130924	Ga0314721_1309241	F034784	MQAHLQAMGLNVWRVVSEGVKNNNQQGKQNDVTTKCIILSSLSDIVFNRVYSCENAKKLWQTIIENHEGMEDVANEIYHV
Ga0314721_131216	Ga0314721_1312161	F028072	ENINIRCRINSSEEHTWHTSHGQTNLIVDLIHNFYITWGKRQDDLELKFEKLQKEHKHLEEQYLVANKKLELALQAFEESKIFLGKISQNSDYIKRDISYLFNKLESTNIAEHSKEIVLSSSGILEVTRSLNSDKWKYLIASLEDTSVSK
Ga0314721_131626	Ga0314721_1316261	F000459	VRSGVLKRVDKVKRGRGRPKLTWDESVKRDLKDWDISEEVVLDRSAWRLAINVSEP
Ga0314721_131756	Ga0314721_1317561	F018668	SLHFNTTITFASSTLFTKPTQSTKMAFFKTLLIASVAAVAFASPQGASDGNTKVTGKTMASDAVCGNGQKLACCNSGEDLIGANCLSIPILAIPIQQSCGSNVAACCQTGDAKGNLINLELNCLSIPL
Ga0314721_132063	Ga0314721_1320631	F042712	MEYFLDESGCQKFLQLLADRPALELVEASQALLHRLGVGSDIKGVLGDLPRHARHVRGAPREDVCVGAEKVDEHHFLFAVEGGADLERLVVGAIRVEGHLLDTLGGF
Ga0314721_133677	Ga0314721_1336771	F093512	MSKDDWKAVYTKDDDLKLTKAGGNKIIRIMTPPIFSSGMLDILLVE
Ga0314721_133887	Ga0314721_1338871	F076725	EFSLFSNPRGTSTLVAATKICIELLDYRTGPDPLAAGEGSGPLGTYSGERVLVSWGGSEPSVAA
Ga0314721_133894	Ga0314721_1338941	F000412	ITLATGSKIGSSQSRWNWGTEYYPVGMKTHIEYPNILFXKYNSPYHIEMGTYVLIDLLXAGGSVAPAQPTSLRXNXGIFSQTCSTCLEESYRKDSSGAHPCRAIDRAXEPRIPSPCSLKAISHGTGSKIGSSRSLWKWGTEYYCVGMKTHIEYPDIFFXKYNSPYHIEMGTYILI
Ga0314721_136008	Ga0314721_1360081	F019078	LCFLFAPAQMSTEQKDLGDSAVGDGEKACPCCHFYGVPCRQVRATEDETTTRRNQSLFSGIKRKRSHQEQLTENSIFLDNPSVDELQTIQKRKDPECSRDTQVKNQALYDYVDGLTITMNVIQPHGHKESKEQATEIMQDVMLSSHGGQPSSAIHHHHMCYQCGQKGH