3300013064: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5am-4 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013064
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0090294 | Gp0175823 | Ga0154013
• Sample Name: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5am-4 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 4865871
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	7

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?
F001233	Metagenome / Metatranscriptome	741	Y
F003383	Metagenome / Metatranscriptome	490	Y
F030315	Metagenome / Metatranscriptome	185	Y
F033016	Metagenome / Metatranscriptome	178	Y
F057921	Metagenome / Metatranscriptome	135	N
F076133	Metagenome / Metatranscriptome	118	Y
F096734	Metagenome / Metatranscriptome	104	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0154013_100758	Not Available	501
Ga0154013_100760	Not Available	565
Ga0154013_103735	Not Available	952
Ga0154013_104895	Not Available	504
Ga0154013_108768	Not Available	593
Ga0154013_109037	Not Available	508
Ga0154013_111669	Not Available	590

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0154013_100758	Ga0154013_1007581	F033016	MEVAERRQPLRASERPLRATGSGQEAASGEPGRIDPAAGENSHRGAERRIVRRFCSQC
Ga0154013_100760	Ga0154013_1007601	F096734	LQVARSSFAPRCAATVLFIAQRFGSSFQIRYFLPGSL
Ga0154013_103735	Ga0154013_1037351	F003383	MSRRVAPLPASSRPSRVAFPGCPFRAPFLLSRRPKPWVAPWLQSFGCAGDGCSSCPEPRMPLTLPVSAGIRVAPVAPASSCLASDAGLGLPLVLHLRLYRRWIIESPRCSHLSAVPSCQFSSCPANQPFGIADDSSFELPRTSNPPAPIDGYPSYPGSRTYRFALVESPSCPGSSSLATAIDQFPGCPKSWVSHRSPIRRVSSYPESWLLG*
Ga0154013_104895	Ga0154013_1048951	F076133	RFDPCADAVTPEGFGCYCADQNAITAPGGPTPPKGFTRRTGEARKGAVIAGSERTWQSP*
Ga0154013_108768	Ga0154013_1087681	F030315	VIKYNEFIIIIKYENILLIRNDVEALKYKYQIGLDTLLVYTIKYEY*
Ga0154013_109037	Ga0154013_1090371	F001233	LRWKAAVNRLKLKVSRMIPGNWGKAESGWLARPLLKRTARFGSGGRIHQFLWRCSRTVSNAKRNLAVRGDKKPPSAE*
Ga0154013_111669	Ga0154013_1116692	F057921	FQVTRQAACSPAGMHGQNVASGDGVTLSPLLPVAGFARQRINALVRVR*