3300027082: Marine sediment microbial community from Fremont, CA, USA - Pond A23 Sediment 1 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027082
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053056 | Gp0053347 | Ga0207414
• Sample Name: Marine sediment microbial community from Fremont, CA, USA - Pond A23 Sediment 1 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 197884011
• 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	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → Viruses → unclassified bacterial viruses → environmental samples → uncultured marine phage	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): 37.475383
  • Long. (^o): -121.9729
  • Alt. (m): N/A
  • Depth (m): .09

Associated Families

Family	Category	Number of Sequences	3D Structure?
F033443	Metagenome / Metatranscriptome	177	Y
F078533	Metagenome / Metatranscriptome	116	Y
F098766	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207414_1041600	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria	967
Ga0207414_1048669	All Organisms → cellular organisms → Bacteria → Proteobacteria	862
Ga0207414_1089936	All Organisms → Viruses → unclassified bacterial viruses → environmental samples → uncultured marine phage	539

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207414_1041600	Ga0207414_10416002	F098766	MSHPTCSICGREADGANHVRVEVARVPPEEPPKTYYFHPWCFENAQSWERGV
Ga0207414_1048669	Ga0207414_10486693	F078533	MTPAEFKAARNALCLSQRDLAEVWGMGQNGERTIRRWEQGDVPVNPIAAYCIRLMDEQAR
Ga0207414_1089936	Ga0207414_10899361	F033443	EHKLLYELKNLYNVLNSKNQGELYRQPINVLLETINLQTDQDRMSKVLNELSVYDWVPEIKLFVHNLTTSPEKKANLLSGGQAESVYTIVEQVEEGHIAHIKDSWFLLKEDSVEKALLEEHIKDENELRKLRMIESAMKYAQIEDDRINFRISENLTIGLGVDNKAIYINDDELNEEST