3300027055: Groundwater microbial communities from S. Glens Falls, New York, USA - Naphthalene biodegradation metagenome 12C3dose (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027055
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0069861 | Gp0054756 | Ga0209516
• Sample Name: Groundwater microbial communities from S. Glens Falls, New York, USA - Naphthalene biodegradation metagenome 12C3dose (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 71829846
• Sequencing Scaffolds: 6
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium RIFCSPHIGHO2_12_FULL_66_14	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium CSP1-8	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Groundwater Microbial Communities From Coal-Tar-Waste-Contaminated Well In S. Glens Falls, New York, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Groundwater → Contaminated → Groundwater → Groundwater Microbial Communities From Coal-Tar-Waste-Contaminated Well In S. Glens Falls, New York, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater biome → anthropogenic contamination feature → contaminated water
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: S. Glens Falls, New York, USA
• Coordinates
  • Lat. (^o): 43.099444
  • Long. (^o): -73.604444
  • Alt. (m): N/A
  • Depth (m): 98

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000926	Metagenome / Metatranscriptome	832	Y
F002104	Metagenome / Metatranscriptome	593	Y
F006565	Metagenome / Metatranscriptome	370	Y
F008792	Metagenome / Metatranscriptome	328	Y
F016837	Metagenome / Metatranscriptome	244	Y
F025322	Metagenome / Metatranscriptome	202	Y
F026036	Metagenome / Metatranscriptome	199	Y
F030538	Metagenome / Metatranscriptome	185	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209516_1007985	Not Available	1160
Ga0209516_1013392	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium RIFCSPHIGHO2_12_FULL_66_14	849
Ga0209516_1016117	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	759
Ga0209516_1016607	All Organisms → cellular organisms → Bacteria	745
Ga0209516_1024473	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	594
Ga0209516_1030318	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium CSP1-8	524

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209516_1007985	Ga0209516_10079852	F002104	SEVQLIEQLRQHPEMMARVQSILELTRNANGPLKTADEVEGLLVRAMRQLGNTSMAEWAKQAEERVSNELQGLDASVRSRKKKR
Ga0209516_1013392	Ga0209516_10133922	F025322	IDQLRGKLGDRFLRLELADHLAPRSTPFRVPSGLGEAIDKRIAPAGMDALHLFRALRDVNKDVPDNPDKLDTLVAAIGKLKQSLIPLTAEVAIQVGFR
Ga0209516_1014741	Ga0209516_10147412	F016837	MPDPAEELRTQIRTLQTQRRALESKLMQPQSMLPASLIERFLRAGDSSRAAPAYYLSHSEQGRSKLTYVRKENLPVVRQRCAAYRAFQQNRQEWRRVTAALQQRWKQLQQAQSR
Ga0209516_1016117	Ga0209516_10161171	F030538	MKDKVAQLIASRKLIVQQMPDPATVLSGSLLSRMVRCNKAGCRYCEKGKGKGHGPIWILSVSLGNRQVRQTPIPSEMKKEVEESLRAFAQMRKLLKQIAQVNLDLLKERKRQRP
Ga0209516_1016607	Ga0209516_10166071	F000926	MARFEASEPNGVAVQQLEGLVRTAIFKPATALVGHLLQGAADRMDAAYPPKPGEQRKGRVPLTIHCIFGSFILERDYYYHEGKKQGHYPADAALGLEQGNTPALAR
Ga0209516_1016607	Ga0209516_10166072	F008792	GRTTEIFENAERACFFRDIISMYIDILLMNSPKPAQLFEQIAQIHRMERGKLSVMREGPQGTHYKHQVWEDGKNLSRYVSGDQAEALQQAIDGYHRFEDLTEQYAQQVIDVTRAELSARSKKKKYRLRRKSSWPKTRKSSS
Ga0209516_1024473	Ga0209516_10244731	F006565	MVTQGYTATLVAATLAISRSSLYYRKQPRGSRADRRYDEQIVVACGEKLAYGYRR
Ga0209516_1030318	Ga0209516_10303182	F026036	MKFDSKRESPPTSDIGGIPALFFLVCAILFSVIAVPSAANAGLSLPEMSRLEASDAMSFDDTCSLFNGYLSFGLHSEAASLLERRVRLGVFPAKAAAPLFDEVVGAQGVDDSEGLVAVCETAIRSGIRTPLILYSYGTGLRRIKGRLGDASNILA