3300032891: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R1_MAIN_15MAY2017_LR1 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300032891
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128851 | Gp0330569 | Ga0314715
• Sample Name: Metatranscriptome of switchgrass phyllosphere microbial communities from Michigan, USA - G5R1_MAIN_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: 21971387
• Sequencing Scaffolds: 7
• Novel Protein Genes: 8
• Associated Families: 7

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	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 → Anthephorinae → Digitaria → Digitaria exilis	1
Not Available	2
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	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	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): -85.3757
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000459	Metagenome / Metatranscriptome	1109	Y
F006329	Metagenome / Metatranscriptome	376	Y
F016911	Metagenome / Metatranscriptome	243	Y
F042357	Metagenome / Metatranscriptome	158	Y
F060513	Metagenome / Metatranscriptome	132	Y
F082073	Metagenome / Metatranscriptome	113	Y
F084981	Metagenome / Metatranscriptome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0314715_100381	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	2147
Ga0314715_106319	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Anthephorinae → Digitaria → Digitaria exilis	792
Ga0314715_106903	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	761
Ga0314715_107819	Not Available	717
Ga0314715_111242	Not Available	598
Ga0314715_112112	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	575
Ga0314715_112688	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	562

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0314715_100381	Ga0314715_1003812	F016911	VQGDRTAAVAAVERLHALAAEAARSEEDPSTSRARAPAKVPKVQPSDPDDVPVKTVQIGAGSSRTTRIAG
Ga0314715_106319	Ga0314715_1063191	F082073	NPGSLLCQRILAAAKELFLKESMPSKKQSQSSVKPTGDVGTKTIQLQEGDDSKTAIIGAGLGDK
Ga0314715_106903	Ga0314715_1069032	F060513	MSTTEIPEETGQTASADRSDRSCLVQHTGSTGQTGHPDRSDRSNAEWLQQRLDQYRARTNDMCEAIEDSGDLDKLGQGFTSADPLEKVDIGDGTIPRPTFVNK
Ga0314715_107819	Ga0314715_1078192	F006329	NLVEKENEYLKEKLKKVEEEKMILELYVADVVGDHKNKMDAMRMKIRKIRKYAVTTEAWYHYVVGAIVTFVAILIAFIVAFKCFR
Ga0314715_109959	Ga0314715_1099591	F000459	VRNGVLKLVDKIKRDRGRPKLTWDESVKRDLKDWDISEEVALDRSAWRLAINVPES
Ga0314715_111242	Ga0314715_1112422	F084981	SGAAHLAPDAQQCPYGTLRARPLGPRLYELLLLLRTCEAPVAGDLLASLVQCDARSLAKPLLLGTSAVCGLTVVESETRVCSAPETAQTALPLNLNLQLYLTDLTLLLLPQSWLWWPWHL
Ga0314715_112112	Ga0314715_1121122	F042357	MDLKPTRNSLGRNPLSDALHRNPGVVINGQGPGRHPPKGASYHDLGTMISEQGSGRHLNGALHLRPGVVKNEQGSLHFPRRVRRVRKLAEPTRIRIGSWNVGSLTGKLRELVDVAI
Ga0314715_112688	Ga0314715_1126882	F016911	AIIGRPALYRFMAIAHYGYLVLKMPSPAGVLTVQGDRTAAVAAVERLHTLAAEAARSEEDPSTSQPRAPAKAPKVQPSDPDQVPVKSVQIGADTTRTTRIAGNLEEK