Sample 3300004589

Overview

Basic Information
IMG/M Taxon OID	3300004589 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114290 \| Gp0111154 \| Ga0066490
Sample Name	Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 2_LOW4 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	45959441
Sequencing Scaffolds	5
Novel Protein Genes	5
Associated Families	4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	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?
F001633	Metagenome / Metatranscriptome	660	Y
F004925	Metagenome / Metatranscriptome	418	Y
F010923	Metagenome / Metatranscriptome	297	Y
F042356	Metagenome / Metatranscriptome	158	Y

Family

Category

Number of Sequences

3D Structure?

F001633

Metagenome / Metatranscriptome

660

F004925

Metagenome / Metatranscriptome

418

F010923

Metagenome / Metatranscriptome

297

F042356

Metagenome / Metatranscriptome

158

Scaffold	Taxonomy	Length	IMG/M Link
Ga0066490_1004058	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	539	Open in IMG/M
Ga0066490_1007470	All Organisms → cellular organisms → Bacteria → Proteobacteria	895	Open in IMG/M
Ga0066490_1010067	Not Available	530	Open in IMG/M
Ga0066490_1011064	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	503	Open in IMG/M
Ga0066490_1014420	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	754	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0066490_1004058

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila

539

Open in IMG/M

Ga0066490_1007470

All Organisms → cellular organisms → Bacteria → Proteobacteria

895

Open in IMG/M

Ga0066490_1010067

Not Available

530

Open in IMG/M

Ga0066490_1011064

All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4

503

Open in IMG/M

Ga0066490_1014420

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei

754

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0066490_1004058	Ga0066490_10040581	F001633	ALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV*
Ga0066490_1007470	Ga0066490_10074701	F042356	VHQHGASDSGGFDQPFETAQRKPSKGGQRERTTREGHDGSAGRVKNFRAPAMLKTTPLACEQKAT*
Ga0066490_1010067	Ga0066490_10100671	F004925	LVVSRMIPGNWGKVESGWLARPLLNRIARSGSGGRIHQFLWPRSRAVSNAKKELGNEE*
Ga0066490_1011064	Ga0066490_10110642	F010923	PQLSLERAAGSERKSGEFVRWTGRQQTPLNALIPREAKVPEGSGDGGRGRPNQEVEVQRATGSEAAANRRNPEFAVVEPKGRTGTEATWEEAK*
Ga0066490_1014420	Ga0066490_10144201	F001633	AGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV*

Scaffold ID

Protein ID

Family

Sequence

Ga0066490_1004058

Ga0066490_10040581

F001633

ALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV*

Ga0066490_1007470

Ga0066490_10074701

F042356

VHQHGASDSGGFDQPFETAQRKPSKGGQRERTTREGHDGSAGRVKNFRAPAMLKTTPLACEQKAT*

Ga0066490_1010067

Ga0066490_10100671

F004925

LVVSRMIPGNWGKVESGWLARPLLNRIARSGSGGRIHQFLWPRSRAVSNAKKELGNEE*

Ga0066490_1011064

Ga0066490_10110642

F010923

PQLSLERAAGSERKSGEFVRWTGRQQTPLNALIPREAKVPEGSGDGGRGRPNQEVEVQRATGSEAAANRRNPEFAVVEPKGRTGTEATWEEAK*

Ga0066490_1014420

Ga0066490_10144201

F001633

AGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300004589: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 2_LOW4 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences