3300029651: Soil microbial communities from Anza Borrego Desert, Southern California, United States - Methanotrophic co-culture R2-M

Overview

Basic Information

• IMG/M Taxon OID: 3300029651
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128792 | Gp0307469 | Ga0268362
• Sample Name: Soil microbial communities from Anza Borrego Desert, Southern California, United States - Methanotrophic co-culture R2-M
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 22386889
• Sequencing Scaffolds: 3
• Novel Protein Genes: 3
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: California
• Coordinates
  • Lat. (^o): 33.0544457
  • Long. (^o): -116.3577702
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001736	Metagenome / Metatranscriptome	644	Y
F037757	Metagenome / Metatranscriptome	167	Y
F076629	Metagenome / Metatranscriptome	118	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0268362_102147	Not Available	925
Ga0268362_102976	Not Available	778
Ga0268362_103713	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	693

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0268362_102147	Ga0268362_1021471	F076629	VIRTATVYALVVLSLAAARPAFSYSLVSLEPNERTHMLTTCGRLPGNDQALCRSVVDDSRVIANYKRSCLHAMTLLLKGTAWDAVKSLPATLTCREGLGKAGYPVKDIMKRLTGGG
Ga0268362_102976	Ga0268362_1029761	F037757	VLNTALRRNTPFWISILIGLAIWEIAGRSTSAAFMVPFSTTMVRLWQLVAGGSFLTQFLDSAVLFLTGFVLAV
Ga0268362_103713	Ga0268362_1037131	F001736	MPEGYRRPHIHERVQTVERMRRAWEAEQDALATVREFNARLSSNRAVWAWPKVTAAMTAKHPWVSIMCDSCGGITDMDLRMKPRDPEASVRVVLRDVRCPRCNGHGRPRIIGLTQLPST