Sample 3300024895

Overview

Basic Information
IMG/M Taxon OID	3300024895 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114290 \| Gp0111065 \| Ga0208508
Sample Name	Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 1_LOW4 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	164133483
Sequencing Scaffolds	8
Novel Protein Genes	9
Associated Families	8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans	1
Not Available	2
All Organisms → cellular organisms → Bacteria	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 Sediment → 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?
F040165	Metagenome	162	Y
F049078	Metagenome / Metatranscriptome	147	Y
F054984	Metagenome	139	Y
F055309	Metagenome	139	Y
F057450	Metagenome	136	Y
F077414	Metagenome	117	Y
F085867	Metagenome	111	Y
F087391	Metagenome / Metatranscriptome	110	N

Family

Category

Number of Sequences

3D Structure?

F040165

Metagenome

162

F049078

Metagenome / Metatranscriptome

147

F054984

Metagenome

139

F055309

Metagenome

139

F057450

Metagenome

136

F077414

Metagenome

117

F085867

Metagenome

111

F087391

Metagenome / Metatranscriptome

110

Scaffold	Taxonomy	Length	IMG/M Link
Ga0208508_1000305	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	13418	Open in IMG/M
Ga0208508_1008558	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae	2318	Open in IMG/M
Ga0208508_1011682	All Organisms → cellular organisms → Bacteria → Proteobacteria	1923	Open in IMG/M
Ga0208508_1014399	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans	1697	Open in IMG/M
Ga0208508_1028319	Not Available	1091	Open in IMG/M
Ga0208508_1044576	All Organisms → cellular organisms → Bacteria → Proteobacteria	807	Open in IMG/M
Ga0208508_1045284	All Organisms → cellular organisms → Bacteria	799	Open in IMG/M
Ga0208508_1063695	Not Available	631	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0208508_1000305

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae

13418

Open in IMG/M

Ga0208508_1008558

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae

2318

Open in IMG/M

Ga0208508_1011682

All Organisms → cellular organisms → Bacteria → Proteobacteria

1923

Open in IMG/M

Ga0208508_1014399

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter denitrificans

1697

Open in IMG/M

Ga0208508_1028319

Not Available

1091

Open in IMG/M

Ga0208508_1044576

All Organisms → cellular organisms → Bacteria → Proteobacteria

807

Open in IMG/M

Ga0208508_1045284

All Organisms → cellular organisms → Bacteria

799

Open in IMG/M

Ga0208508_1063695

Not Available

631

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0208508_1000305	Ga0208508_10003055	F057450	MINLQNHYEKLQRQSGRFVNISRLPVLGLLLLLAIVVSSCTPSKPVAEADYPTKIVGNWLGTVGDMKESITFNSDGGFVAQLRPLGFISNTLSQGVTGIIRGSWVLNGKTITLKITGAEDERVKNTTTSSTILSFTTNELEMKSNRGENSKFLRETSL
Ga0208508_1008558	Ga0208508_10085582	F055309	MVTRSCAFSKKWRLLAKDTLGLNRAKPVAKTRLRQIKSAVGPLSDFYLLQYANNVRLPLTVNPLQTLTLPRSQRINPQTRSAPKAV
Ga0208508_1011682	Ga0208508_10116822	F055309	MVTRSCTFLKKWCLLARDKLGLSLANPVAKAHLRQIKSVVGPLSDFYLLQYGNNVRLPLTVNPLQTLTLPRSQRINPQTRSAPKAV
Ga0208508_1014399	Ga0208508_10143991	F077414	CGQLAGWDWQEAARVLDVPPAKFGRLLTLQDALRAAVRNWPGTARSTV
Ga0208508_1028319	Ga0208508_10283193	F054984	MERLLKWLDDLDDLTDVFRVQAPSVIITALLVVAFVAGLGALLLLGPPDLLAAP
Ga0208508_1028319	Ga0208508_10283194	F085867	MSERKPELPVGTRAPPRDKPGPPERPLTAREVGPRRGANKIGAATDGWDAYNDWLGRVRQPAPPSRQAVISKSLYSIASYKSWADKARGAFDKGK
Ga0208508_1044576	Ga0208508_10445761	F040165	TCLNRCSSSRNVAATRTGSRFRRTTDVATHPLSGAKAGWVMYAAVLTFCVLAGEAVNLSRGSEVTALTLGNWTLSAALLTALWGYALQRRIGSAGYWRAVFWLVLFANSVMLIPVLLGDRTVAMFTAALTLLIVPAYLAAYLYAYRSPALWSPRALA
Ga0208508_1045284	Ga0208508_10452841	F087391	MKLTKFALLAVAAGCTLASQGVYAQAMEVVTVEAVREIVIGKSPIGAPIKELTIRARVSYADLDLTTATGAATLEKRVRDSATSSCKEIKVDVPVEGWTVDRCIREATEGAMV
Ga0208508_1063695	Ga0208508_10636951	F049078	MKIQVKHSLKTDVGSAFKLCTEQKSQEAIYGKLPGTDVKIKREGRAPKVKLKIARKMPANPPAV

Scaffold ID

Protein ID

Family

Sequence

Ga0208508_1000305

Ga0208508_10003055

F057450

MINLQNHYEKLQRQSGRFVNISRLPVLGLLLLLAIVVSSCTPSKPVAEADYPTKIVGNWLGTVGDMKESITFNSDGGFVAQLRPLGFISNTLSQGVTGIIRGSWVLNGKTITLKITGAEDERVKNTTTSSTILSFTTNELEMKSNRGENSKFLRETSL

Ga0208508_1008558

Ga0208508_10085582

F055309

MVTRSCAFSKKWRLLAKDTLGLNRAKPVAKTRLRQIKSAVGPLSDFYLLQYANNVRLPLTVNPLQTLTLPRSQRINPQTRSAPKAV

Ga0208508_1011682

Ga0208508_10116822

F055309

MVTRSCTFLKKWCLLARDKLGLSLANPVAKAHLRQIKSVVGPLSDFYLLQYGNNVRLPLTVNPLQTLTLPRSQRINPQTRSAPKAV

Ga0208508_1014399

Ga0208508_10143991

F077414

CGQLAGWDWQEAARVLDVPPAKFGRLLTLQDALRAAVRNWPGTARSTV

Ga0208508_1028319

Ga0208508_10283193

F054984

MERLLKWLDDLDDLTDVFRVQAPSVIITALLVVAFVAGLGALLLLGPPDLLAAP

Ga0208508_1028319

Ga0208508_10283194

F085867

MSERKPELPVGTRAPPRDKPGPPERPLTAREVGPRRGANKIGAATDGWDAYNDWLGRVRQPAPPSRQAVISKSLYSIASYKSWADKARGAFDKGK

Ga0208508_1044576

Ga0208508_10445761

F040165

TCLNRCSSSRNVAATRTGSRFRRTTDVATHPLSGAKAGWVMYAAVLTFCVLAGEAVNLSRGSEVTALTLGNWTLSAALLTALWGYALQRRIGSAGYWRAVFWLVLFANSVMLIPVLLGDRTVAMFTAALTLLIVPAYLAAYLYAYRSPALWSPRALA

Ga0208508_1045284

Ga0208508_10452841

F087391

MKLTKFALLAVAAGCTLASQGVYAQAMEVVTVEAVREIVIGKSPIGAPIKELTIRARVSYADLDLTTATGAATLEKRVRDSATSSCKEIKVDVPVEGWTVDRCIREATEGAMV

Ga0208508_1063695

Ga0208508_10636951

F049078

MKIQVKHSLKTDVGSAFKLCTEQKSQEAIYGKLPGTDVKIKREGRAPKVKLKIARKMPANPPAV

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300024895: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metagenome 1_LOW4 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences