Sample 2006207004

Overview

Basic Information
IMG/M Taxon OID	2006207004 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0055738 \| Gp0050987 \| Ga0029407
Sample Name	Sediment methylotrophic communities from Lake Washington - Formate enrichment
Sequencing Status	Finished
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	Y
Use Policy	Open

Dataset Contents
Total Genome Size	17570569
Sequencing Scaffolds	11
Novel Protein Genes	13
Associated Families	13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria	2
Not Available	2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta	2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Sediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa
Type	Environmental
Taxonomy	Environmental → Aquatic → Freshwater → Lentic → Sediment → Sediment → Sediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa

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	Lake Washington, Seattle, USA
Coordinates	Lat. (^o)	47.676484	Long. (^o)	-122.228394	Alt. (m)	N/A	Depth (m)	63
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F004076	Metagenome / Metatranscriptome	454	Y
F017845	Metagenome / Metatranscriptome	238	Y
F018387	Metagenome / Metatranscriptome	235	Y
F024397	Metagenome	206	Y
F036084	Metagenome / Metatranscriptome	170	Y
F038804	Metagenome / Metatranscriptome	165	Y
F039184	Metagenome / Metatranscriptome	164	Y
F047750	Metagenome / Metatranscriptome	149	Y
F051216	Metagenome	144	Y
F056700	Metagenome	137	Y
F062281	Metagenome / Metatranscriptome	131	Y
F087557	Metagenome	110	Y
F098288	Metagenome	104	Y

Family

Category

Number of Sequences

3D Structure?

F004076

Metagenome / Metatranscriptome

454

F017845

Metagenome / Metatranscriptome

238

F018387

Metagenome / Metatranscriptome

235

F024397

Metagenome

206

F036084

Metagenome / Metatranscriptome

170

F038804

Metagenome / Metatranscriptome

165

F039184

Metagenome / Metatranscriptome

164

F047750

Metagenome / Metatranscriptome

149

F051216

Metagenome

144

F056700

Metagenome

137

F062281

Metagenome / Metatranscriptome

131

F087557

Metagenome

110

F098288

Metagenome

104

Scaffold	Taxonomy	Length	IMG/M Link
lwFormate_BCIX10707_g1	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	834	Open in IMG/M
lwFormate_BCIX18975_b1	All Organisms → cellular organisms → Bacteria	841	Open in IMG/M
lwFormate_BCIX19348_b1	Not Available	807	Open in IMG/M
lwFormate_BCIX20766_g1	All Organisms → cellular organisms → Bacteria	824	Open in IMG/M
lwFormate_BCIX2578_b1	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	746	Open in IMG/M
lwFormate_BCIX3473_b1	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta	759	Open in IMG/M
lwFormate_BCIX4645_b1	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	753	Open in IMG/M
lwFormate_BCIX4899_b1	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	685	Open in IMG/M
lwFormate_BCIX7371_b1	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta	790	Open in IMG/M
lwFormate_BCIX768_g1	Not Available	883	Open in IMG/M
lwFormate_BCIX_C2403	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1499	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

lwFormate_BCIX10707_g1

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium

834

Open in IMG/M

lwFormate_BCIX18975_b1

All Organisms → cellular organisms → Bacteria

841

Open in IMG/M

lwFormate_BCIX19348_b1

Not Available

807

Open in IMG/M

lwFormate_BCIX20766_g1

All Organisms → cellular organisms → Bacteria

824

Open in IMG/M

lwFormate_BCIX2578_b1

All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium

746

Open in IMG/M

lwFormate_BCIX3473_b1

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta

759

Open in IMG/M

lwFormate_BCIX4645_b1

All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage

753

Open in IMG/M

lwFormate_BCIX4899_b1

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium

685

Open in IMG/M

lwFormate_BCIX7371_b1

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta

790

Open in IMG/M

lwFormate_BCIX768_g1

Not Available

883

Open in IMG/M

lwFormate_BCIX_C2403

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria

1499

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
lwFormate_BCIX10707_g1	LWFOR_30052	F087557	VARAALTARGQRLRVAAAVPALAAIFLFGLALLDRRGWRLDLTPGRRYTLSDHAERVLEALPADVRILAFLRSQDPRNVVIRDL
lwFormate_BCIX18975_b1	LWFOR_38548	F018387	MIGVEVPLLDQGSVQFILLGVMILAVFALLWITIAK
lwFormate_BCIX19348_b1	LWFOR_39464	F004076	MMKHVCVAARIGDGKAPGEANTHCIRKTSNAASADSGCNPSGWHEFWPMALSKAPCLE
lwFormate_BCIX20086_g2	LWFOR_40294	F062281	MSKDLVLLQVLREHTLILVGFDRRTMAMHAGDLTKAGAGHTGVILYRRNVAQMDYGKQARLLVEFWKAAQYRDWNDLIIYLPGGTEASA
lwFormate_BCIX20766_g1	LWFOR_40988	F024397	MDDIGRLVLSQEQASANYATRQVRCRRTAEVSWEVVDANTGVAVATGLVSRDEALRFVRGWERLSLKLDGGLDGHQLLH
lwFormate_BCIX2578_b1	LWFOR_21309	F047750	MARSRMDDILGTVRDAGDRSQEIASQVAARVEDVLDEAGAQGKRVRKELARRWKHVDRMGRDNAFVMAFGALAVGVLIGYLVARDDD
lwFormate_BCIX3473_b1	LWFOR_22334	F017845	MDTALALAGPYAAPALGFTGEPAQQEDVIWWIVVVGFAYAVALAWATWCRHNGGSAEISFGWTGFKVACRSR
lwFormate_BCIX4645_b1	LWFOR_23372	F036084	SQFDIAKMSSPKSSPVRAVIPDCPAFPNQSVTRVDVEFKYPAIEPQIKQIARLLGLDENRIVMMTTPYEDSLDSEAVKITDQNKDLLDNPDYPADDKMQKNLKKDYSAEPHNHVVLKNAYRSNFSVAGGKTPPAKTSNDLPMGNKSPMSNVKRPPKPATGAQPRG
lwFormate_BCIX4899_b1	LWFOR_23682	F039184	VSEDWGFVRAADLARTLDESFELAWIAEIEAAWQSADLDHGSFGFVLAMANGQRLYWLYVSDDAGAGRAEDLEIVELAASQMPTAPETAHWYDPANLTKRLSVMRRF
lwFormate_BCIX7239_g1	LWFOR_26373	F098288	GAPVTVWQFDDAALSLLERGIRLRLRVAADGRSVLTLKVADQDCARLDRGLVPPGEGKCEYDVYGKSMAGAVSLNLGLGTRRTGDLLAGRVTPAQVLSPSQVRYLREVVGIWPLPPEIRKLGPMQVRTYRTKGKADAIDISQLPDGEQYAEISRKVPQVDALRTMGVMQADLSRAGVLVCADQSSQAASKLRSLLR
lwFormate_BCIX7371_b1	LWFOR_26545	F038804	MTIFGNRDSGYGSSPTVDAAPALESLDRPATSTRSFGAPDTRRVILRVHGDENILVGNAEGRDNAVVVARNMVQHIEQAAAKGEWPQIEERFIRPGAIVSIDVQRPE
lwFormate_BCIX768_g1	LWFOR_26914	F051216	MTTAEKIGLYGKGAADVAKARAEMKKAAEHAEKNFSKTKAYNCTVQPKK
lwFormate_BCIX_C2403	LWFOR_17381	F056700	AAQEMSQGFVYAYQTALEAALSENNNPRWKPMIPQIFARLLHYHGTDAKLRAFRHERWIPAKWTNLHQLHARAIELGIARVAVALPSAGPGAMQWSTEQEYVYALLIQQLNMGSLSPAEIDWASAQMRAWGRKLEFETVPRSSEGFYVDFASKRGLVRRTGNESGPTLHFLDTTPLADQLERAMHSLRQADIGEPGAAAALNLQRIGILEKVRPVVAPNLHGDLRRSPRLPVTVAAKVRVGLARICAEMTPRELVEPANDANAAGEQIEVFAVADRPRARRHAPDEHDSLAASIAPVGDQAWEVKDRSVAGLRISASGGIGQSLVLGALVAIRQTDAVEWVLGAVRRLNKVSNDEVEAGVSIIADRVVPITVHARRAAKEDLGMVVNGVDVSMMGSRFGALYLPPPSRPEKPLTVKTLIIPTSEYVDGRNLILTTGHSVYTIALRHLVEQRADWSWTAFQIIDKKPTNY

Scaffold ID

Protein ID

Family

Sequence

lwFormate_BCIX10707_g1

LWFOR_30052

F087557

VARAALTARGQRLRVAAAVPALAAIFLFGLALLDRRGWRLDLTPGRRYTLSDHAERVLEALPADVRILAFLRSQDPRNVVIRDL

lwFormate_BCIX18975_b1

LWFOR_38548

F018387

MIGVEVPLLDQGSVQFILLGVMILAVFALLWITIAK

lwFormate_BCIX19348_b1

LWFOR_39464

F004076

MMKHVCVAARIGDGKAPGEANTHCIRKTSNAASADSGCNPSGWHEFWPMALSKAPCLE

lwFormate_BCIX20086_g2

LWFOR_40294

F062281

MSKDLVLLQVLREHTLILVGFDRRTMAMHAGDLTKAGAGHTGVILYRRNVAQMDYGKQARLLVEFWKAAQYRDWNDLIIYLPGGTEASA

lwFormate_BCIX20766_g1

LWFOR_40988

F024397

MDDIGRLVLSQEQASANYATRQVRCRRTAEVSWEVVDANTGVAVATGLVSRDEALRFVRGWERLSLKLDGGLDGHQLLH

lwFormate_BCIX2578_b1

LWFOR_21309

F047750

MARSRMDDILGTVRDAGDRSQEIASQVAARVEDVLDEAGAQGKRVRKELARRWKHVDRMGRDNAFVMAFGALAVGVLIGYLVARDDD

lwFormate_BCIX3473_b1

LWFOR_22334

F017845

MDTALALAGPYAAPALGFTGEPAQQEDVIWWIVVVGFAYAVALAWATWCRHNGGSAEISFGWTGFKVACRSR

lwFormate_BCIX4645_b1

LWFOR_23372

F036084

SQFDIAKMSSPKSSPVRAVIPDCPAFPNQSVTRVDVEFKYPAIEPQIKQIARLLGLDENRIVMMTTPYEDSLDSEAVKITDQNKDLLDNPDYPADDKMQKNLKKDYSAEPHNHVVLKNAYRSNFSVAGGKTPPAKTSNDLPMGNKSPMSNVKRPPKPATGAQPRG

lwFormate_BCIX4899_b1

LWFOR_23682

F039184

VSEDWGFVRAADLARTLDESFELAWIAEIEAAWQSADLDHGSFGFVLAMANGQRLYWLYVSDDAGAGRAEDLEIVELAASQMPTAPETAHWYDPANLTKRLSVMRRF

lwFormate_BCIX7239_g1

LWFOR_26373

F098288

GAPVTVWQFDDAALSLLERGIRLRLRVAADGRSVLTLKVADQDCARLDRGLVPPGEGKCEYDVYGKSMAGAVSLNLGLGTRRTGDLLAGRVTPAQVLSPSQVRYLREVVGIWPLPPEIRKLGPMQVRTYRTKGKADAIDISQLPDGEQYAEISRKVPQVDALRTMGVMQADLSRAGVLVCADQSSQAASKLRSLLR

lwFormate_BCIX7371_b1

LWFOR_26545

F038804

MTIFGNRDSGYGSSPTVDAAPALESLDRPATSTRSFGAPDTRRVILRVHGDENILVGNAEGRDNAVVVARNMVQHIEQAAAKGEWPQIEERFIRPGAIVSIDVQRPE

lwFormate_BCIX768_g1

LWFOR_26914

F051216

MTTAEKIGLYGKGAADVAKARAEMKKAAEHAEKNFSKTKAYNCTVQPKK

lwFormate_BCIX_C2403

LWFOR_17381

F056700

AAQEMSQGFVYAYQTALEAALSENNNPRWKPMIPQIFARLLHYHGTDAKLRAFRHERWIPAKWTNLHQLHARAIELGIARVAVALPSAGPGAMQWSTEQEYVYALLIQQLNMGSLSPAEIDWASAQMRAWGRKLEFETVPRSSEGFYVDFASKRGLVRRTGNESGPTLHFLDTTPLADQLERAMHSLRQADIGEPGAAAALNLQRIGILEKVRPVVAPNLHGDLRRSPRLPVTVAAKVRVGLARICAEMTPRELVEPANDANAAGEQIEVFAVADRPRARRHAPDEHDSLAASIAPVGDQAWEVKDRSVAGLRISASGGIGQSLVLGALVAIRQTDAVEWVLGAVRRLNKVSNDEVEAGVSIIADRVVPITVHARRAAKEDLGMVVNGVDVSMMGSRFGALYLPPPSRPEKPLTVKTLIIPTSEYVDGRNLILTTGHSVYTIALRHLVEQRADWSWTAFQIIDKKPTNY

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

2006207004: Sediment methylotrophic communities from Lake Washington - Formate enrichment

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences