2084038017: Soil microbial communities from Hopland, California, USA, that is PCE polluted - amended with soybean oil

Overview

Basic Information

• IMG/M Taxon OID: 2084038017
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0046478 | Gp0051958 | Ga0010980
• Sample Name: Soil microbial communities from Hopland, California, USA, that is PCE polluted - amended with soybean oil
• Sequencing Status: Permanent Draft
• Sequencing Center: GATC-Biotech AG, Konstanz, Germany
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 6498500
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Acidobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Community From Hopland, California, Usa, That Is Pce Polluted
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Contaminated → Soil → Soil Microbial Community From Hopland, California, Usa, That Is Pce Polluted

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → land → contaminated soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Hopland, California, USA
• Coordinates
  • Lat. (^o): 38.9727
  • Long. (^o): -123.1145
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000534	Metagenome / Metatranscriptome	1044	Y
F044722	Metagenome	154	Y
F089255	Metagenome / Metatranscriptome	109	Y
F098882	Metagenome / Metatranscriptome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
SPCE_SO_FSPRUNR02F0SI1	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	508
SPCE_SO_FSPRUNR02FP5J2	Not Available	504
SPCE_SO_FSPRUNR02GM2PJ	Not Available	512
SPCE_SO_FTC1UFH01B7KWC	All Organisms → cellular organisms → Bacteria → Acidobacteria	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
SPCE_SO_FSPRUNR02F0SI1	SPCE_SO_00093620	F089255	LPPPYALEGHPERAAAELAEARRLVGDDRYSSLARVRAASSWGAPEVTALAETTYFAGLRKAGVPEE
SPCE_SO_FSPRUNR02FP5J2	SPCE_SO_00046260	F044722	MYALSRLVQFAGLVVAGSALFVGLMQHDARRELLILGIGAGIFFAGYTLQKVRR
SPCE_SO_FSPRUNR02GM2PJ	SPCE_SO_00140860	F098882	ASACHIGVMADPVKLTLRPKADVKILDAASADRIGRVARAESVELGEGGAAAVFCFSPSAGSAATVRGNLELAARFELGAHWHTRYELIG
SPCE_SO_FTC1UFH01B7KWC	SPCE_SO_00048070	F000534	MPQEISVSYQAIKSKVYRLIDALVVGEKSESEVQESVRRWWALIHPADRPIAQKYLLMVLGRSNSALDAMGTEMLSVSGCDVAPPRMADSSLESKRMRI