3300026165: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_B_D2_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026165
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125921 | Ga0209943
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_B_D2_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 382360592
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → Flammeovirgaceae → Flammeovirga → Flammeovirga agarivorans	1
Not Available	4

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): 37.4968
  • Long. (^o): -122.1333
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F022890	Metagenome / Metatranscriptome	212	Y
F050177	Metagenome	145	N
F056035	Metagenome / Metatranscriptome	138	Y
F073153	Metagenome	120	N
F086685	Metagenome	110	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209943_1088110	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → Flammeovirgaceae → Flammeovirga → Flammeovirga agarivorans	859
Ga0209943_1128478	Not Available	659
Ga0209943_1147865	Not Available	597
Ga0209943_1159384	Not Available	566
Ga0209943_1178962	Not Available	521

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209943_1088110	Ga0209943_10881101	F056035	MWRFKTTKMSLLYKPKEEQTITCEIKQEDGKIILDFYSDCGKFGTDEMLDGYKLTPERLLQILQD
Ga0209943_1128478	Ga0209943_11284782	F050177	MARIPSDPPDDALTPRQLADRVDDVVNLTVEELEAFRESEYNEEYLEYNSERAQQGNEPLDDVIRLLETPPDQWRDVDDGFNEIAEARELLDFQRRTQAQIESQGLGSNTIAEYDDMTFREAASIRWGIDPDDEREWL
Ga0209943_1147865	Ga0209943_11478653	F086685	MIDITTIPLVLWVLGCITFVILGHELTHYIAWLPVASSIEYHFEEQYIEAEYPDTPFARKWAVVAGISPVIVATGLLLALIATGWQPTATWHHITASVAVLLYGISGGKSDFDALFNLVRTLRSPAAD
Ga0209943_1159384	Ga0209943_11593841	F073153	MPVRDEIARIDGNIEGILSRLGQQGESVARLDLLVEEMKEMNQQLEHIEIRLNTLEGRIE
Ga0209943_1178962	Ga0209943_11789621	F022890	MTTRKLVNLMMKSSDNNPYSGKLSKGENVLAAIELAKKFKEFADEGYTDEAMDIESSQWVEVINKLENKRLNCA