Sample 3300028551

Overview

Basic Information
IMG/M Taxon OID	3300028551 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0131209 \| Gp0238802 \| Ga0213905
Sample Name	Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Shaw_2
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	24503749
Sequencing Scaffolds	15
Novel Protein Genes	16
Associated Families	13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	7
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	3
All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → Blastocatellales → Pyrinomonadaceae → Pyrinomonas → Pyrinomonas methylaliphatogenes	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → unclassified Blastocatellia → Blastocatellia bacterium	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Gigasporaceae → Gigaspora → Gigaspora rosea	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	terrestrial biome → land → soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Location Information
Location	USA: West Virginia
Coordinates	Lat. (^o)	38.083	Long. (^o)	-81.98	Alt. (m)	N/A	Depth (m)	.1
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F001486	Metagenome	686	Y
F002570	Metagenome / Metatranscriptome	547	Y
F002624	Metagenome / Metatranscriptome	542	Y
F005545	Metagenome / Metatranscriptome	397	Y
F036980	Metagenome	169	Y
F037412	Metagenome / Metatranscriptome	168	Y
F040840	Metagenome / Metatranscriptome	161	Y
F050191	Metagenome / Metatranscriptome	145	Y
F061714	Metagenome	131	Y
F073080	Metagenome / Metatranscriptome	120	Y
F093152	Metagenome	106	Y
F096017	Metagenome	105	Y
F103859	Metagenome	101	Y

Family

Category

Number of Sequences

3D Structure?

F001486

Metagenome

686

F002570

Metagenome / Metatranscriptome

547

F002624

Metagenome / Metatranscriptome

542

F005545

Metagenome / Metatranscriptome

397

F036980

Metagenome

169

F037412

Metagenome / Metatranscriptome

168

F040840

Metagenome / Metatranscriptome

161

F050191

Metagenome / Metatranscriptome

145

F061714

Metagenome

131

F073080

Metagenome / Metatranscriptome

120

F093152

Metagenome

106

F096017

Metagenome

105

F103859

Metagenome

101

Scaffold	Taxonomy	Length	IMG/M Link
Ga0213905_100107	All Organisms → cellular organisms → Bacteria	1840	Open in IMG/M
Ga0213905_100205	All Organisms → cellular organisms → Bacteria	1587	Open in IMG/M
Ga0213905_100339	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1404	Open in IMG/M
Ga0213905_100521	All Organisms → cellular organisms → Bacteria	1263	Open in IMG/M
Ga0213905_100642	All Organisms → cellular organisms → Bacteria	1198	Open in IMG/M
Ga0213905_100778	All Organisms → cellular organisms → Bacteria	1137	Open in IMG/M
Ga0213905_101207	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	999	Open in IMG/M
Ga0213905_101379	All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → Blastocatellales → Pyrinomonadaceae → Pyrinomonas → Pyrinomonas methylaliphatogenes	958	Open in IMG/M
Ga0213905_101444	All Organisms → cellular organisms → Bacteria	948	Open in IMG/M
Ga0213905_102235	All Organisms → cellular organisms → Bacteria	828	Open in IMG/M
Ga0213905_102654	All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → unclassified Blastocatellia → Blastocatellia bacterium	782	Open in IMG/M
Ga0213905_102814	Not Available	763	Open in IMG/M
Ga0213905_102970	All Organisms → cellular organisms → Bacteria → Acidobacteria	749	Open in IMG/M
Ga0213905_103873	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	679	Open in IMG/M
Ga0213905_104811	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Gigasporaceae → Gigaspora → Gigaspora rosea	623	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0213905_100107

All Organisms → cellular organisms → Bacteria

1840

Open in IMG/M

Ga0213905_100205

All Organisms → cellular organisms → Bacteria

1587

Open in IMG/M

Ga0213905_100339

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

1404

Open in IMG/M

Ga0213905_100521

All Organisms → cellular organisms → Bacteria

1263

Open in IMG/M

Ga0213905_100642

All Organisms → cellular organisms → Bacteria

1198

Open in IMG/M

Ga0213905_100778

All Organisms → cellular organisms → Bacteria

1137

Open in IMG/M

Ga0213905_101207

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

999

Open in IMG/M

Ga0213905_101379

All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → Blastocatellales → Pyrinomonadaceae → Pyrinomonas → Pyrinomonas methylaliphatogenes

958

Open in IMG/M

Ga0213905_101444

All Organisms → cellular organisms → Bacteria

948

Open in IMG/M

Ga0213905_102235

All Organisms → cellular organisms → Bacteria

828

Open in IMG/M

Ga0213905_102654

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

782

Open in IMG/M

Ga0213905_102814

Not Available

763

Open in IMG/M

Ga0213905_102970

All Organisms → cellular organisms → Bacteria → Acidobacteria

749

Open in IMG/M

Ga0213905_103873

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

679

Open in IMG/M

Ga0213905_104811

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Gigasporaceae → Gigaspora → Gigaspora rosea

623

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0213905_100107	Ga0213905_1001072	F037412	MSKDFKCEVCRKGSESLHMRDADGKWVCAHCIPEAELNACPGLRERLGLAPKRAAAPRRKAA
Ga0213905_100205	Ga0213905_1002051	F073080	VSDSGVSGAAAVRRVLESSAMNERQRAHIDFYLERLGYWKELRPQGSTARLLAARDADEAHPLGTEEEATEVV
Ga0213905_100339	Ga0213905_1003393	F103859	MNERQQAHIDYFLERVEYWKGIRREYWAARMLATKDADQAHPLRTEEEGTEVFYYLRRLEQEQATVR
Ga0213905_100521	Ga0213905_1005214	F036980	MESNGSHDSKDMLYLVGGLALLIAGAGLIMAHPKVRQQLRDGLSRLLPDGIPENLASGLSTVVPDLQRYMKLRSM
Ga0213905_100642	Ga0213905_1006421	F002570	MKTKLTVMLLTLTGLMMLVGQVRGGSPAASGDRYVNHDYRGGSTFNLVSAGPNVARCGPFPQNVELSFEGSGIDTEGGYNTAVFSACTNTTTNLVFDLKATDTYVPSGDQVFIEGDSFVLAPNPANCVATNSHAVPFRVTGGTGGRAGAKGHGHFHITSNLTPCNGQTPPAQVWFDGVFKLEG
Ga0213905_100778	Ga0213905_1007782	F061714	MEILVIVVIALVGFWLFFFVLKRVLRMAIRLAVVGGLLLALLVGAVAWWWYDPLGGSPGNNRNAPARQTRNSR
Ga0213905_101207	Ga0213905_1012072	F040840	LSAKAENLIPVQLSRVNETEVNQPEGAEHPRKTFVEPEVSFPVDVLESTTFFQFTESGAT
Ga0213905_101207	Ga0213905_1012073	F040840	LNTKTENLIPVQLSRVEEEDAARPSERAAGKKKFIEPTISFPIDVLEATTFFQVTDSGNVNMNP
Ga0213905_101379	Ga0213905_1013792	F050191	MAEETAVNSQITDAAAETNDNPVDDRGTDAVGGLALLRRLRDNGFESDDEKFAVALGRPVKEVAAWMEGSEPPDDDIIMKARGIAQERGIEIE
Ga0213905_101444	Ga0213905_1014441	F005545	MEESTGQSPVTEGGEVDDRGTTQTEGRAILKRLRDAGFEGSDEKLAVALGRPLEEIEGWTGGAEIVDDDVIMKARGIAKERGIEIE
Ga0213905_102235	Ga0213905_1022352	F073080	MNERQQAHVVYYLQRLEYRQGHKPSGSTPRLMAAGDADETHPLRSEEEATEVVEHLWRLERGNADEEGCEAEQI
Ga0213905_102654	Ga0213905_1026542	F001486	RPGERPVEPVSIWAAKDATVVNNTFVGVGERGVLLVRPGNEVDSPARGCGRSVRLALTRGLTLRGNVFVLSGVVDETMLYQTAGAGVRVAGFVHDHNTFFNGGRDVPTGGLRDPNREPGFSKADPLLPGGSGTDYASWMATARLAKGSPSEGRGTRAATRK
Ga0213905_102814	Ga0213905_1028142	F096017	VGYKLEAFILNHRAAEVLPDNLRRLHRFRLSDHVTLVPVTGQLLREVVATFGEYKAEDDPYADTLLMRLLPPLIQMAVKVSSVSAVLYFEVDVWSGIGDRSAIVWHQGEAAYGPTWGTSQVAEAFRLFGQLEGLPSDWAVGLRIDRHRFTEDWVRGIESESD
Ga0213905_102970	Ga0213905_1029702	F093152	RRLLPAGYRATICPPVVSNLVGALFHPEWSETETLELGFYRDEQGNAKCYAVGSSGPGDFSYVRAVEGEEEWALAGFRVALVPE
Ga0213905_103873	Ga0213905_1038731	F037412	VSKTFKCEACRGAAASLHMRDLDGKWVCARCIPARELDACPGLRERLGLKPTRAAQQQPRRKAA
Ga0213905_104811	Ga0213905_1048111	F002624	MKSNNKYNGSNEYQKAIDFLEKGCNCGCSSRIPKEQFAELRESFQALSKPEQDIFLMAQIKAMDGGTVSASRRLKKKNRSNKRTFYHWDHN

Scaffold ID

Protein ID

Family

Sequence

Ga0213905_100107

Ga0213905_1001072

F037412

MSKDFKCEVCRKGSESLHMRDADGKWVCAHCIPEAELNACPGLRERLGLAPKRAAAPRRKAA

Ga0213905_100205

Ga0213905_1002051

F073080

VSDSGVSGAAAVRRVLESSAMNERQRAHIDFYLERLGYWKELRPQGSTARLLAARDADEAHPLGTEEEATEVV

Ga0213905_100339

Ga0213905_1003393

F103859

MNERQQAHIDYFLERVEYWKGIRREYWAARMLATKDADQAHPLRTEEEGTEVFYYLRRLEQEQATVR

Ga0213905_100521

Ga0213905_1005214

F036980

MESNGSHDSKDMLYLVGGLALLIAGAGLIMAHPKVRQQLRDGLSRLLPDGIPENLASGLSTVVPDLQRYMKLRSM

Ga0213905_100642

Ga0213905_1006421

F002570

MKTKLTVMLLTLTGLMMLVGQVRGGSPAASGDRYVNHDYRGGSTFNLVSAGPNVARCGPFPQNVELSFEGSGIDTEGGYNTAVFSACTNTTTNLVFDLKATDTYVPSGDQVFIEGDSFVLAPNPANCVATNSHAVPFRVTGGTGGRAGAKGHGHFHITSNLTPCNGQTPPAQVWFDGVFKLEG

Ga0213905_100778

Ga0213905_1007782

F061714

MEILVIVVIALVGFWLFFFVLKRVLRMAIRLAVVGGLLLALLVGAVAWWWYDPLGGSPGNNRNAPARQTRNSR

Ga0213905_101207

Ga0213905_1012072

F040840

LSAKAENLIPVQLSRVNETEVNQPEGAEHPRKTFVEPEVSFPVDVLESTTFFQFTESGAT

Ga0213905_101207

Ga0213905_1012073

F040840

LNTKTENLIPVQLSRVEEEDAARPSERAAGKKKFIEPTISFPIDVLEATTFFQVTDSGNVNMNP

Ga0213905_101379

Ga0213905_1013792

F050191

MAEETAVNSQITDAAAETNDNPVDDRGTDAVGGLALLRRLRDNGFESDDEKFAVALGRPVKEVAAWMEGSEPPDDDIIMKARGIAQERGIEIE

Ga0213905_101444

Ga0213905_1014441

F005545

MEESTGQSPVTEGGEVDDRGTTQTEGRAILKRLRDAGFEGSDEKLAVALGRPLEEIEGWTGGAEIVDDDVIMKARGIAKERGIEIE

Ga0213905_102235

Ga0213905_1022352

F073080

MNERQQAHVVYYLQRLEYRQGHKPSGSTPRLMAAGDADETHPLRSEEEATEVVEHLWRLERGNADEEGCEAEQI

Ga0213905_102654

Ga0213905_1026542

F001486

RPGERPVEPVSIWAAKDATVVNNTFVGVGERGVLLVRPGNEVDSPARGCGRSVRLALTRGLTLRGNVFVLSGVVDETMLYQTAGAGVRVAGFVHDHNTFFNGGRDVPTGGLRDPNREPGFSKADPLLPGGSGTDYASWMATARLAKGSPSEGRGTRAATRK

Ga0213905_102814

Ga0213905_1028142

F096017

VGYKLEAFILNHRAAEVLPDNLRRLHRFRLSDHVTLVPVTGQLLREVVATFGEYKAEDDPYADTLLMRLLPPLIQMAVKVSSVSAVLYFEVDVWSGIGDRSAIVWHQGEAAYGPTWGTSQVAEAFRLFGQLEGLPSDWAVGLRIDRHRFTEDWVRGIESESD

Ga0213905_102970

Ga0213905_1029702

F093152

RRLLPAGYRATICPPVVSNLVGALFHPEWSETETLELGFYRDEQGNAKCYAVGSSGPGDFSYVRAVEGEEEWALAGFRVALVPE

Ga0213905_103873

Ga0213905_1038731

F037412

VSKTFKCEACRGAAASLHMRDLDGKWVCARCIPARELDACPGLRERLGLKPTRAAQQQPRRKAA

Ga0213905_104811

Ga0213905_1048111

F002624

MKSNNKYNGSNEYQKAIDFLEKGCNCGCSSRIPKEQFAELRESFQALSKPEQDIFLMAQIKAMDGGTVSASRRLKKKNRSNKRTFYHWDHN

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300028551: Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Shaw_2

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences