3300017650: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 30_C Kraft BY (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017650
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191746 | Ga0182736
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 30_C Kraft BY (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 529761033
• Sequencing Scaffolds: 5
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Variibacter → Variibacter gotjawalensis	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	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): Unclassified
• 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?
F027578	Metagenome / Metatranscriptome	194	Y
F033176	Metagenome / Metatranscriptome	178	Y
F040613	Metagenome / Metatranscriptome	161	Y
F052674	Metagenome	142	Y
F097858	Metagenome / Metatranscriptome	104	Y
F102635	Metagenome / Metatranscriptome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182736_1004613	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	8543
Ga0182736_1070383	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1180
Ga0182736_1101140	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Variibacter → Variibacter gotjawalensis	920
Ga0182736_1180416	Not Available	625
Ga0182736_1219756	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	550

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182736_1004613	Ga0182736_10046133	F097858	MSTQQTTCAIERAAATSVAPAPAANLILGTLLLLIRP
Ga0182736_1070383	Ga0182736_10703831	F102635	KAECVYHLLREIVEDVPSVQITTRMPDNLTEEQLSMLTESIRQAALKGIEVAMTHSVQVLMSSIYDLCTSKLKVRPS
Ga0182736_1101140	Ga0182736_11011402	F040613	LFDAADGCKLVFERGALLHQPLRLLRVVPERGVFGELVQFRQSRARLIEVKDASSAVRPT
Ga0182736_1180416	Ga0182736_11804162	F033176	MDPKLTILFMLIGAVIVLSHISDGHFARVRRQFVQRRWRAIMPARRRS
Ga0182736_1219756	Ga0182736_12197562	F027578	MDRRSLFGLTAAAGGLLAARTVLPANAQATGPAHHGEPKLEPLPKIAQQQQFRIGYTTNTRGGWESDVFLGISEGREIGFRYFEIFGASFCATPNGMNAPPRDKQPMKAWPDGYSWKYDSVKVTKREVYYADRW
Ga0182736_1229963	Ga0182736_12299631	F052674	MAASLPMLGSAAVFAAEPGKSLLPLNTPKLDHLDVMVPNVENTARFYMSVFKTSLHAQPFQGGQRYFVLLGDLPENRQVGYIAVGDSRGRGTYIGHFCTSVFNYRENAAAITQQLTQIYERAGFGDFASAGRGRVG