3300013041: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-3 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013041
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0090294 | Gp0175827 | Ga0154017
• Sample Name: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-3 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 3740944
• Sequencing Scaffolds: 9
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium 5G12	1
Not Available	7
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → rhizosphere → soil
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant rhizosphere

Location Information

• Location: USA: Michigan
• Coordinates
  • Lat. (^o): 42.3948
  • Long. (^o): -85.3738
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001296	Metagenome / Metatranscriptome	728	Y
F028810	Metagenome / Metatranscriptome	190	Y
F030315	Metagenome / Metatranscriptome	185	Y
F035772	Metagenome / Metatranscriptome	171	Y
F035850	Metagenome / Metatranscriptome	171	Y
F061214	Metagenome / Metatranscriptome	132	Y
F069734	Metagenome / Metatranscriptome	123	N
F073595	Metagenome / Metatranscriptome	120	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0154017_10581	All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium 5G12	502
Ga0154017_12829	Not Available	576
Ga0154017_13538	Not Available	578
Ga0154017_13676	Not Available	585
Ga0154017_14311	Not Available	936
Ga0154017_15990	Not Available	572
Ga0154017_17441	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum	663
Ga0154017_18710	Not Available	502
Ga0154017_19026	Not Available	577

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0154017_10581	Ga0154017_105811	F035850	MSVGVSRQVVEPMPPRKASREWERARTKTDTGGQVEHTEVIEITLVKELGKIVP*
Ga0154017_12829	Ga0154017_128291	F028810	FQVTYPTIQLPSGMHGRSCAIRVIVRLGLSLPATEFRPPRLNAPDRACRITPVRNPLLGTAFRSLEMTARSRATFPRSVLLAYPFGSTL*
Ga0154017_13538	Ga0154017_135381	F001296	MEVAERRQPLRASERPLRATGSGQEAASGEPGRIDPAAGENSHRGAERRIVRRFCSQCSMPCMPVESQAGNQVT
Ga0154017_13676	Ga0154017_136761	F035772	MLLARCKTADQLYRLLFRFPLPFGIFESLRIKAFHRTRNRSARLPNPPDHLSLPAASSISRFGYGSSFLVRYVSGGLLF
Ga0154017_14311	Ga0154017_143111	F069734	MSPWLNRTLHPRLAPRMNLRVHTGHGNLGVPSGAFSVPIRRSTIGKPTMNSPIGTFTYAFHHASVTVPTS
Ga0154017_15990	Ga0154017_159901	F035772	MLLARCKTADQLHRLLFQLPLPFGTLTSLQIKAFRQIRNRSARLPNPPDSLSLPAAGSISRVGYGSSFLVRYVSGGLLF
Ga0154017_17441	Ga0154017_174411	F061214	VLSVISARCRLVNGFAKLTNTGLALKETPINGGFTDEGPKVAEYPGR*
Ga0154017_18710	Ga0154017_187101	F073595	VVRARSVKTFRNVGDVKNTTAGLRTKSNLREKRRDPWHRANVPT
Ga0154017_19026	Ga0154017_190261	F030315	VIKYNEFIIITKYENILLIRNDVEALKYKYQIGLDTLLVYTIKYEY*