3300001136: Marine sediment microbial community from Fremont, CA, USA - Pond A23 Sediment 2

Overview

Basic Information

• IMG/M Taxon OID: 3300001136
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053056 | Gp0053348 | Ga0000192
• Sample Name: Marine sediment microbial community from Fremont, CA, USA - Pond A23 Sediment 2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 176553391
• Sequencing Scaffolds: 3
• Novel Protein Genes: 3
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Halobacteriales	1
All Organisms → Viruses	1
Not Available	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: Alviso Ponds, San Francisco, CA, USA
• Coordinates
  • Lat. (^o): 37.474067
  • Long. (^o): -121.973033
  • Alt. (m): N/A
  • Depth (m): .075

Associated Families

Family	Category	Number of Sequences	3D Structure?
F022890	Metagenome / Metatranscriptome	212	Y
F087432	Metagenome	110	Y
F098766	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI1684J13235_1001955	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Halobacteriales	6870
JGI1684J13235_1006244	All Organisms → Viruses	3166
JGI1684J13235_1056678	Not Available	591

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI1684J13235_1001955	JGI1684J13235_100195510	F098766	MSHPTCSICGREADGANHVRVEVARVPPEEPPKTYYFHPWCFENAQSWERGV*
JGI1684J13235_1006244	JGI1684J13235_10062443	F022890	MTTRKLVNLMMKSSDHNPYTGKLSESDNVLAAIELAKKFKEFADEGYTDEAMDVESSQWIEVINKLEEKRLNCA*
JGI1684J13235_1056678	JGI1684J13235_10566782	F087432	MIIYEDGXYTPCTYKVILKNNGKEETHYANFRTYWEDMVAKHDHLTDLAFEEITFTPEQDTRLQEIAELEIPQGFQSEVRQYVEAGEFPEGYQHPLADLKQKKEKEKYD