Sample 3300004179

Overview

Basic Information
IMG/M Taxon OID	3300004179 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114290 \| Gp0111068 \| Ga0066404
Sample Name	Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 4_LOW4
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	224017928
Sequencing Scaffolds	5
Novel Protein Genes	5
Associated Families	5

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

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
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F019851	Metagenome	227	N
F060098	Metagenome / Metatranscriptome	133	Y
F085867	Metagenome	111	Y
F087391	Metagenome / Metatranscriptome	110	N
F105443	Metagenome	100	Y

Family

Category

Number of Sequences

3D Structure?

F019851

Metagenome

227

F060098

Metagenome / Metatranscriptome

133

F085867

Metagenome

111

F087391

Metagenome / Metatranscriptome

110

F105443

Metagenome

100

Scaffold	Taxonomy	Length	IMG/M Link
Ga0066404_1005405	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1953	Open in IMG/M
Ga0066404_1020371	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1064	Open in IMG/M
Ga0066404_1033492	Not Available	843	Open in IMG/M
Ga0066404_1060854	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	629	Open in IMG/M
Ga0066404_1063407	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	616	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0066404_1005405

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi

1953

Open in IMG/M

Ga0066404_1020371

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

1064

Open in IMG/M

Ga0066404_1033492

Not Available

843

Open in IMG/M

Ga0066404_1060854

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium

629

Open in IMG/M

Ga0066404_1063407

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium

616

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0066404_1005405	Ga0066404_10054051	F105443	MGGAERQFTLHLITTTKPPVAPARTSGLPIGAWLVLGFALVIGAFTAASVVSLRSTRGATADLERMQQQFEPLSRSVRDLGDGVATFDRSVLAYLRADTRDRHAATVAAAARLSGAASQMLDVDADDAAPPVGPLLQRIADHEAQGFGLLNMQDERRRAIADLESAFAALDRRVRSAGGSGIVV
Ga0066404_1020371	Ga0066404_10203712	F087391	MKLTKFALLAVAAGCTLASQGVYAQAMEVVTVEAVREIVIGKSPIGAPIKELTIRARVSYADLDLTTATGAATLEKRVRDSATSSCKEIKVDVPVEGWTVDRCIREATEGAMVQVNKAVADAKAAKK*
Ga0066404_1033492	Ga0066404_10334921	F085867	MSERKPELPVGTRAPPRDKPGPPERPLTAREVGPRRGANKIGAATDGWDAYNDWLGRVRQPAPPSRQAVISKSLYSIASYKSWADKARGAFDKGK*
Ga0066404_1060854	Ga0066404_10608542	F019851	VKRPDQVCESCWRVSRASPVPVTEIACHHNKVLATWHADTDEWTYQHRVARKRPTQKQSEQLAQMFDQASSATRRRDEP*
Ga0066404_1063407	Ga0066404_10634072	F060098	MDAPTLKRAASAVTMGLGGLLWLAAILFMAQTAQNSEQFSRLHPWILGINIAG

Scaffold ID

Protein ID

Family

Sequence

Ga0066404_1005405

Ga0066404_10054051

F105443

MGGAERQFTLHLITTTKPPVAPARTSGLPIGAWLVLGFALVIGAFTAASVVSLRSTRGATADLERMQQQFEPLSRSVRDLGDGVATFDRSVLAYLRADTRDRHAATVAAAARLSGAASQMLDVDADDAAPPVGPLLQRIADHEAQGFGLLNMQDERRRAIADLESAFAALDRRVRSAGGSGIVV

Ga0066404_1020371

Ga0066404_10203712

F087391

MKLTKFALLAVAAGCTLASQGVYAQAMEVVTVEAVREIVIGKSPIGAPIKELTIRARVSYADLDLTTATGAATLEKRVRDSATSSCKEIKVDVPVEGWTVDRCIREATEGAMVQVNKAVADAKAAKK*

Ga0066404_1033492

Ga0066404_10334921

F085867

MSERKPELPVGTRAPPRDKPGPPERPLTAREVGPRRGANKIGAATDGWDAYNDWLGRVRQPAPPSRQAVISKSLYSIASYKSWADKARGAFDKGK*

Ga0066404_1060854

Ga0066404_10608542

F019851

VKRPDQVCESCWRVSRASPVPVTEIACHHNKVLATWHADTDEWTYQHRVARKRPTQKQSEQLAQMFDQASSATRRRDEP*

Ga0066404_1063407

Ga0066404_10634072

F060098

MDAPTLKRAASAVTMGLGGLLWLAAILFMAQTAQNSEQFSRLHPWILGINIAG

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300004179: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 4_LOW4

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences