3300013073: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - RNA 5th pass 37_C Kraft OP (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013073
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191766 | Ga0164283
• Sample Name: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - RNA 5th pass 37_C Kraft OP (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 66962496
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → anthropogenic environment → compost
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: USA: Emeryville, California
• Coordinates
  • Lat. (^o): 37.83
  • Long. (^o): -122.29
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F008634	Metagenome / Metatranscriptome	330	Y
F012606	Metagenome / Metatranscriptome	279	Y
F017885	Metagenome / Metatranscriptome	238	Y
F034415	Metagenome / Metatranscriptome	175	Y
F052044	Metagenome / Metatranscriptome	143	N
F064047	Metagenome / Metatranscriptome	129	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0164283_1007092	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	3413
Ga0164283_1018415	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1896
Ga0164283_1019996	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1603
Ga0164283_1027328	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2073
Ga0164283_1061218	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	570
Ga0164283_1073706	Not Available	751
Ga0164283_1097349	All Organisms → cellular organisms → Bacteria	2254

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0164283_1007092	Ga0164283_10070922	F052044	MADADRLEKIATIGQDLITTQLTMATQTPSQALEGTWVLGYCFGIFDALAQQADLDDGAEVFGLVTLGFLGLFADPADPEAAAFIRRSLDRQDNPRFQEGAAAGGTDVFVWVADRIKAPNALFEHLSR*
Ga0164283_1018415	Ga0164283_10184152	F012606	MAISAGRDVTILLSDEHLRKIAEDHLLAGKDLEDRVKLARVVQKLVDASLGLPDRPWHEWDEWVKGLE*
Ga0164283_1019996	Ga0164283_10199964	F034415	MSAAATHTGHKRLQHLVEHEAYRRIMAGEAPETLSEFARELQGWLQRTHPDAAPTTPDAIENQIRETWHRRHELIRGG*
Ga0164283_1027328	Ga0164283_10273283	F017885	MANPNADVAGFQCPKCGQELEQTIGQLKSSEHMICSGCGIGINIDTNRLADVADELQKATAKVQSEITIKFYR*
Ga0164283_1061218	Ga0164283_10612182	F008634	SPSHRADFHSDVEDGMYGHGRELEVGNATSAILVSLLRTLIEKSVLSNGDVRTLLTDAAATLAPHEYTAPFQGAIGIILEDILPKFPENGGD*
Ga0164283_1073706	Ga0164283_10737061	F064047	MTLKKVSRAGLLALALGVLLGLFLSVASFDAASAQTP
Ga0164283_1097349	Ga0164283_10973494	F034415	MTGAPGHKKSQHLIEAEAYRRIIAGEAPETLGAFAQQLLDWLQTAYPGAVPGSLATVEEQIRETWDRRHDLIRGG*