3300000892: Marine sediment microbial community from Union City, CA, USA - Pond 2C Sediment 2

Overview

Basic Information

• IMG/M Taxon OID: 3300000892
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053056 | Gp0053725 | Ga0000194
• Sample Name: Marine sediment microbial community from Union City, CA, USA - Pond 2C Sediment 2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 67889334
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea	3
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Unclassified → Unclassified → Enviromental → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine biome → pond → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Eden Landing Ponds, San Francisco, CA, USA
• Coordinates
  • Lat. (^o): 37.569017
  • Long. (^o): -122.102433
  • Alt. (m): N/A
  • Depth (m): .11

Associated Families

Family	Category	Number of Sequences	3D Structure?
F024682	Metagenome / Metatranscriptome	205	Y
F028081	Metagenome / Metatranscriptome	192	Y
F038920	Metagenome / Metatranscriptome	165	Y
F058721	Metagenome / Metatranscriptome	134	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI1678J12821_1000360	All Organisms → cellular organisms → Archaea	2781
JGI1678J12821_1002711	All Organisms → cellular organisms → Archaea	1579
JGI1678J12821_1005353	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1226
JGI1678J12821_1010767	All Organisms → cellular organisms → Archaea	905

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI1678J12821_1000360	JGI1678J12821_10003601	F028081	MDKEKALQKLQKTRNENEQAYLKAKAFLEGFRARGQLSKKDNEFLFLLEFVIKGFKNHGNDIITAFENQVRFTEAFNNLQAKVNDLEHDIRQLRKTLDKMYQDR*
JGI1678J12821_1002711	JGI1678J12821_10027113	F058721	MLKTTLPCADPQCADKMRLVFQNERFLGYRCLLKPKSHNFRYDIERKRWEKIIIKTKPIIGYKKSPYDVALDEDVAIETI*
JGI1678J12821_1005353	JGI1678J12821_10053533	F024682	LSAEDELISKLKEEIGKTVPPMFAEIAKDMMEKNKEVIINLLKDNKNLVKEVIES*
JGI1678J12821_1010767	JGI1678J12821_10107672	F038920	LLTEILTDQQLIDLYTTPGYLVAVDYPKKEIKLHMVDCMLADPISSVGVKPSKARENKTGEFWFSESREEANSKAEEIAKNKEYTYKICPICNR*