Sample 3300021265

Overview

Basic Information
IMG/M Taxon OID	3300021265 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0131209 \| Gp0238803 \| Ga0213906
Sample Name	Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Shaw_3
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	16700167
Sequencing Scaffolds	15
Novel Protein Genes	17
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria	4
All Organisms → cellular organisms → Bacteria	8
Not Available	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	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?
F000265	Metagenome / Metatranscriptome	1420	Y
F004258	Metagenome / Metatranscriptome	446	Y
F018604	Metagenome / Metatranscriptome	234	Y
F020958	Metagenome / Metatranscriptome	221	Y
F028613	Metagenome	191	Y
F033948	Metagenome / Metatranscriptome	176	Y
F037412	Metagenome / Metatranscriptome	168	Y
F038605	Metagenome	165	Y
F040007	Metagenome	162	Y
F051828	Metagenome	143	Y
F055930	Metagenome	138	Y
F060323	Metagenome	133	Y
F061714	Metagenome	131	Y
F069865	Metagenome	123	Y
F079676	Metagenome / Metatranscriptome	115	Y
F081092	Metagenome / Metatranscriptome	114	Y
F091480	Metagenome	107	Y

Family

Category

Number of Sequences

3D Structure?

F000265

Metagenome / Metatranscriptome

1420

F004258

Metagenome / Metatranscriptome

446

F018604

Metagenome / Metatranscriptome

234

F020958

Metagenome / Metatranscriptome

221

F028613

Metagenome

191

F033948

Metagenome / Metatranscriptome

176

F037412

Metagenome / Metatranscriptome

168

F038605

Metagenome

165

F040007

Metagenome

162

F051828

Metagenome

143

F055930

Metagenome

138

F060323

Metagenome

133

F061714

Metagenome

131

F069865

Metagenome

123

F079676

Metagenome / Metatranscriptome

115

F081092

Metagenome / Metatranscriptome

114

F091480

Metagenome

107

Scaffold	Taxonomy	Length	IMG/M Link
Ga0213906_100038	All Organisms → cellular organisms → Bacteria → Acidobacteria	2947	Open in IMG/M
Ga0213906_100067	All Organisms → cellular organisms → Bacteria	2608	Open in IMG/M
Ga0213906_100802	All Organisms → cellular organisms → Bacteria	1385	Open in IMG/M
Ga0213906_100806	All Organisms → cellular organisms → Bacteria	1382	Open in IMG/M
Ga0213906_100965	All Organisms → cellular organisms → Bacteria → Acidobacteria	1292	Open in IMG/M
Ga0213906_101411	All Organisms → cellular organisms → Bacteria	1108	Open in IMG/M
Ga0213906_101467	All Organisms → cellular organisms → Bacteria → Acidobacteria	1087	Open in IMG/M
Ga0213906_101815	All Organisms → cellular organisms → Bacteria	986	Open in IMG/M
Ga0213906_102152	All Organisms → cellular organisms → Bacteria	906	Open in IMG/M
Ga0213906_103427	All Organisms → cellular organisms → Bacteria	706	Open in IMG/M
Ga0213906_103528	Not Available	696	Open in IMG/M
Ga0213906_104634	All Organisms → cellular organisms → Bacteria	599	Open in IMG/M
Ga0213906_106151	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	515	Open in IMG/M
Ga0213906_106158	All Organisms → cellular organisms → Bacteria → Acidobacteria	515	Open in IMG/M
Ga0213906_106176	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	514	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0213906_100038

All Organisms → cellular organisms → Bacteria → Acidobacteria

2947

Open in IMG/M

Ga0213906_100067

All Organisms → cellular organisms → Bacteria

2608

Open in IMG/M

Ga0213906_100802

All Organisms → cellular organisms → Bacteria

1385

Open in IMG/M

Ga0213906_100806

All Organisms → cellular organisms → Bacteria

1382

Open in IMG/M

Ga0213906_100965

All Organisms → cellular organisms → Bacteria → Acidobacteria

1292

Open in IMG/M

Ga0213906_101411

All Organisms → cellular organisms → Bacteria

1108

Open in IMG/M

Ga0213906_101467

All Organisms → cellular organisms → Bacteria → Acidobacteria

1087

Open in IMG/M

Ga0213906_101815

All Organisms → cellular organisms → Bacteria

986

Open in IMG/M

Ga0213906_102152

All Organisms → cellular organisms → Bacteria

906

Open in IMG/M

Ga0213906_103427

All Organisms → cellular organisms → Bacteria

706

Open in IMG/M

Ga0213906_103528

Not Available

696

Open in IMG/M

Ga0213906_104634

All Organisms → cellular organisms → Bacteria

599

Open in IMG/M

Ga0213906_106151

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

515

Open in IMG/M

Ga0213906_106158

All Organisms → cellular organisms → Bacteria → Acidobacteria

515

Open in IMG/M

Ga0213906_106176

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

514

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0213906_100038	Ga0213906_1000384	F000265	MPELRGKQATEDVKEEWKRAYQIYLAAPGVPHNKKLDRTERINYVADKMRLTRKQAKRRVKNFEAWQRNIKKGLVTP
Ga0213906_100067	Ga0213906_1000672	F060323	VEFYAALVLALTLAAIAGVLYFYAMFLEARTRQQKKYIAGLERANAELRGELAQTRALLDRELEHSRALWPELLDDAGDLSRN
Ga0213906_100802	Ga0213906_1008022	F040007	MPLESNSAASVSPALVFELDNGATFTFNFQMDGRVTVIGFQDGRAVTGALSEEQTEELRDAIGEYIHKRKG
Ga0213906_100806	Ga0213906_1008063	F038605	VNDRVCWNCGHLHEYHTIAGGCSFAPEGAARCDCPRYEDSEYYGEQRKRDMYTLSDRRRIGQGRARR
Ga0213906_100965	Ga0213906_1009652	F079676	LVMSSEPAEPGAAIKAGDRVRALDGAYKGRVGTVLRVVTSRDEGRTSRSILVSFPAGGADYLDAGELEKTEAAAE
Ga0213906_100965	Ga0213906_1009653	F081092	LSDYDDFIERLEAALADDEAREDFLDYLQGLTSEGRAEILAEADRREAETEAA
Ga0213906_100965	Ga0213906_1009655	F091480	AGRPSVAHMRDLHIYVEPAGSGADGERNTFYSRRADGPYYRWLYAEGPKRWRYSRVHLDRPTLRVLSLAPWDCLPAALRSRLGEHYLE
Ga0213906_101411	Ga0213906_1014112	F061714	MELAIVIVAAVAGFSIFFFVLKRVLRMAVRLAFVGALLLALVAGALAWWWYAPFGGGSNTNSNRSAPARRAR
Ga0213906_101467	Ga0213906_1014672	F069865	MWDRKRQIIWLTVGLCLGTFWLYPLARDDAGRADWQYFLQLESLLVVIVAVLFYFYSRKK
Ga0213906_101815	Ga0213906_1018152	F051828	ITVSEARDLLGVSWNKMAKLLKTGVVRHYPNPLDNRVKLVSKQEILRLIPKRAEAA
Ga0213906_102152	Ga0213906_1021522	F037412	MSSKTFKCEACRAAAETLHMRDSDGKWVCAHCIPAAELDACEGLRERLGLRPAARAQRRKAA
Ga0213906_103427	Ga0213906_1034271	F018604	MKVIVIIPAAGLGTRMSAAAAKKGKKSPAPTKQFAEL
Ga0213906_103528	Ga0213906_1035282	F028613	SGIDTEGGYNTAAFSACTNTATNEVFDLKATDTYFQTGDEVFIEGDSFVLSPNPAICAAANAHGVPFRVAGGTGKYANATGNGRFNIFSNLTPCNGQVLPSQVSFEGVIRW
Ga0213906_104634	Ga0213906_1046341	F033948	MADTNETQSSLGEKNADPELKPDATPNPIEDINPANDERAIDVGESGQFAPGGRYNELGATKPRRIDLDEQVDSALSK
Ga0213906_106151	Ga0213906_1061511	F020958	MSATATAKKWTCDQCGVTVSRLGGEKVELPTSWASSKEGTYCLLCRRERAAQAALDALPEDSGLEDRAKLRRAALVEFEVRRRPGHGNGEIAKACRSSVAAVVAARKRLKIPAPS
Ga0213906_106158	Ga0213906_1061582	F004258	RILRITEDLRTIQRELNFAAMEAPNDPELLEELSQLPEMDSIQSLKGALDQMRHFLWFYMQVITNESEDGDRLRESLRLKKSEEVLLNAEASFFEKFKFSGSNIFLRHLADGKNRKPN
Ga0213906_106176	Ga0213906_1061762	F055930	MAQNFRTHLILYSRSALIELLEHSGFEIEVIGPDFEHRDHRFLRHVVAARWPMLAPLVNAVLHVLPDPLLVGTGSIRIIAKRRAGTTIDIRAVRSVEATHAR

Scaffold ID

Protein ID

Family

Sequence

Ga0213906_100038

Ga0213906_1000384

F000265

MPELRGKQATEDVKEEWKRAYQIYLAAPGVPHNKKLDRTERINYVADKMRLTRKQAKRRVKNFEAWQRNIKKGLVTP

Ga0213906_100067

Ga0213906_1000672

F060323

VEFYAALVLALTLAAIAGVLYFYAMFLEARTRQQKKYIAGLERANAELRGELAQTRALLDRELEHSRALWPELLDDAGDLSRN

Ga0213906_100802

Ga0213906_1008022

F040007

MPLESNSAASVSPALVFELDNGATFTFNFQMDGRVTVIGFQDGRAVTGALSEEQTEELRDAIGEYIHKRKG

Ga0213906_100806

Ga0213906_1008063

F038605

VNDRVCWNCGHLHEYHTIAGGCSFAPEGAARCDCPRYEDSEYYGEQRKRDMYTLSDRRRIGQGRARR

Ga0213906_100965

Ga0213906_1009652

F079676

LVMSSEPAEPGAAIKAGDRVRALDGAYKGRVGTVLRVVTSRDEGRTSRSILVSFPAGGADYLDAGELEKTEAAAE

Ga0213906_100965

Ga0213906_1009653

F081092

LSDYDDFIERLEAALADDEAREDFLDYLQGLTSEGRAEILAEADRREAETEAA

Ga0213906_100965

Ga0213906_1009655

F091480

AGRPSVAHMRDLHIYVEPAGSGADGERNTFYSRRADGPYYRWLYAEGPKRWRYSRVHLDRPTLRVLSLAPWDCLPAALRSRLGEHYLE

Ga0213906_101411

Ga0213906_1014112

F061714

MELAIVIVAAVAGFSIFFFVLKRVLRMAVRLAFVGALLLALVAGALAWWWYAPFGGGSNTNSNRSAPARRAR

Ga0213906_101467

Ga0213906_1014672

F069865

MWDRKRQIIWLTVGLCLGTFWLYPLARDDAGRADWQYFLQLESLLVVIVAVLFYFYSRKK

Ga0213906_101815

Ga0213906_1018152

F051828

ITVSEARDLLGVSWNKMAKLLKTGVVRHYPNPLDNRVKLVSKQEILRLIPKRAEAA

Ga0213906_102152

Ga0213906_1021522

F037412

MSSKTFKCEACRAAAETLHMRDSDGKWVCAHCIPAAELDACEGLRERLGLRPAARAQRRKAA

Ga0213906_103427

Ga0213906_1034271

F018604

MKVIVIIPAAGLGTRMSAAAAKKGKKSPAPTKQFAEL

Ga0213906_103528

Ga0213906_1035282

F028613

SGIDTEGGYNTAAFSACTNTATNEVFDLKATDTYFQTGDEVFIEGDSFVLSPNPAICAAANAHGVPFRVAGGTGKYANATGNGRFNIFSNLTPCNGQVLPSQVSFEGVIRW

Ga0213906_104634

Ga0213906_1046341

F033948

MADTNETQSSLGEKNADPELKPDATPNPIEDINPANDERAIDVGESGQFAPGGRYNELGATKPRRIDLDEQVDSALSK

Ga0213906_106151

Ga0213906_1061511

F020958

MSATATAKKWTCDQCGVTVSRLGGEKVELPTSWASSKEGTYCLLCRRERAAQAALDALPEDSGLEDRAKLRRAALVEFEVRRRPGHGNGEIAKACRSSVAAVVAARKRLKIPAPS

Ga0213906_106158

Ga0213906_1061582

F004258

RILRITEDLRTIQRELNFAAMEAPNDPELLEELSQLPEMDSIQSLKGALDQMRHFLWFYMQVITNESEDGDRLRESLRLKKSEEVLLNAEASFFEKFKFSGSNIFLRHLADGKNRKPN

Ga0213906_106176

Ga0213906_1061762

F055930

MAQNFRTHLILYSRSALIELLEHSGFEIEVIGPDFEHRDHRFLRHVVAARWPMLAPLVNAVLHVLPDPLLVGTGSIRIIAKRRAGTTIDIRAVRSVEATHAR

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300021265: Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Shaw_3

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences