3300024979: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 4_LOW4 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300024979
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111068 | Ga0208115
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 4_LOW4 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 146542960
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater → Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater lake biome → freshwater lake → lake sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Sediment (non-saline)

Location Information

• Location: USA: Lake Washington, Seattle, Washington
• Coordinates
  • Lat. (^o): 48.3807
  • Long. (^o): -122.1599
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F031715	Metagenome / Metatranscriptome	182	Y
F063813	Metagenome / Metatranscriptome	129	N
F070270	Metagenome	123	Y
F087391	Metagenome / Metatranscriptome	110	N
F090575	Metagenome	108	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208115_1024223	All Organisms → cellular organisms → Bacteria	1202
Ga0208115_1028700	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1064
Ga0208115_1035385	Not Available	911
Ga0208115_1067792	Not Available	553
Ga0208115_1074650	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	512

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208115_1024223	Ga0208115_10242231	F063813	INDFLTNEEVLPIIQKDALMSLVQWSQAHGQKLKPTELESNAQSLAKPSPSSKKPSHQFGSRTGSTPIDETKSIERGLS
Ga0208115_1028700	Ga0208115_10287002	F031715	DPSLASIRNDPEFKAVFADIERDMARQRAELAAKPQDAPLDLGSVH
Ga0208115_1035385	Ga0208115_10353852	F087391	MKLTKFALLAVAAGCTLASQGVYAQAMEVVTVEAVREIVIGKSPIGAPIKELTIRARVSYADLDLTTATGAATLEKRVRDSATSSCKEIKVDVPVEGWTVDRCIREATEGAMVQVNKAVADA
Ga0208115_1067792	Ga0208115_10677922	F090575	FPTSEAYLAGIDAWTRSVLDASVAAPDGKGWIQDNRALPEILLGIEHLFGAGSAASLIVQAVLLHQSLNVVPEWPNPGSLTEAELPLCISPALLPLLEAMMLVDSDAWQLFDPASKAKFRQGTLAVFANVRRLLGG
Ga0208115_1074650	Ga0208115_10746501	F070270	GIPIATAKKFGPIVIDYVGHHGGEDLVDKIKEALGL