3300026185: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_C_black_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026185
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125930 | Ga0209949
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_C_black_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 367086926
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulforapulum → Desulforapulum autotrophicum	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Wetlands → Unclassified → Pond Soil → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Alternative Ecosystem Assignments

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

Location Information

• Location: South San Francisco, USA
• Coordinates
  • Lat. (^o): 37.4958
  • Long. (^o): -122.1331
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001506	Metagenome / Metatranscriptome	681	Y
F005874	Metagenome	387	Y
F011947	Metagenome / Metatranscriptome	285	Y
F027186	Metagenome / Metatranscriptome	195	Y
F056354	Metagenome	137	N
F086685	Metagenome	110	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209949_1003339	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	7010
Ga0209949_1006866	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	4488
Ga0209949_1034438	Not Available	1571
Ga0209949_1059367	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulforapulum → Desulforapulum autotrophicum	1101
Ga0209949_1067685	Not Available	1009
Ga0209949_1121445	Not Available	682

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209949_1003339	Ga0209949_100333914	F001506	TKKRKLSTRREGKPLQYPKPNEVVSKTFQIRYDKKLSPTAKLILNSFQNKYIYYAIDDILYSFKSNSRERENLLAILYSPVLSLQNNFSINFFDIWIHEIYIHEISKVNKFFKNDFSNFEQLNYITIKLLYKTRTPVKKLDSLW
Ga0209949_1006866	Ga0209949_10068661	F027186	MTTNSNFNFIDNTAVTLELPFSEHIEELRQRVFLLFWVI
Ga0209949_1034438	Ga0209949_10344383	F005874	MVEIPSVPPDDELSPQQLYDRVEQVTNLDADELRAFKQSDYNAAYLEVASDAAQPGDEPLDDAIRLLETPGYEYSAVDDGFNEVEEARELLDFQRRTQAQILSQGLGENFLTDAR
Ga0209949_1059367	Ga0209949_10593671	F011947	VEAGSSELLDGHIIRYSRGSQFIVRLEDGREIKAIPLLEALEEAECSSASIINRRVQVRMCKHPKFHRIIKIGRPNQ
Ga0209949_1067685	Ga0209949_10676853	F086685	MIELTTIPLVVWVIGCITFVILGHELTHYIAWLPVATSIEYHFEDQYIEAEYPDTPFARRWAAVAGISPVIVAIGLVLALMATGWNPTATWHHITASAAVVLYGISGGKSDFTALLALLRSRRSLG
Ga0209949_1121445	Ga0209949_11214452	F056354	MILPVFIALSITAVVITGLAIRGDIPELLGAFVGAVMSIVAAINALDLIVITNSGNVKNLDPQVDIALVLLLIFIVNIIFIFDRAFSPGE