Sample 3300001432

Overview

Basic Information
IMG/M Taxon OID	3300001432 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0090294 \| Gp0057737 \| Ga0012499
Sample Name	Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S2
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	10107795
Sequencing Scaffolds	9
Novel Protein Genes	9
Associated Families	9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → Acidobacteria	2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Host-associated → Plant → Plant rhizosphere

Location Information
Location	Kellogg Biological Station, Michigan, USA
Coordinates	Lat. (^o)	42.3948	Long. (^o)	-85.3738	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F005910	Metagenome / Metatranscriptome	386	Y
F023886	Metagenome	208	Y
F026672	Metagenome	197	Y
F034675	Metagenome	174	Y
F059459	Metagenome	134	Y
F065019	Metagenome	128	Y
F081703	Metagenome / Metatranscriptome	114	Y
F087788	Metagenome / Metatranscriptome	110	Y
F090536	Metagenome	108	Y

Family

Category

Number of Sequences

3D Structure?

F005910

Metagenome / Metatranscriptome

386

F023886

Metagenome

208

F026672

Metagenome

197

F034675

Metagenome

174

F059459

Metagenome

134

F065019

Metagenome

128

F081703

Metagenome / Metatranscriptome

114

F087788

Metagenome / Metatranscriptome

110

F090536

Metagenome

108

Scaffold	Taxonomy	Length	IMG/M Link
JGI24034J14986_100124	All Organisms → cellular organisms → Bacteria	3553	Open in IMG/M
JGI24034J14986_100522	All Organisms → cellular organisms → Bacteria → Acidobacteria	2258	Open in IMG/M
JGI24034J14986_100661	All Organisms → cellular organisms → Bacteria → Acidobacteria	2025	Open in IMG/M
JGI24034J14986_101100	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1584	Open in IMG/M
JGI24034J14986_101331	All Organisms → cellular organisms → Bacteria	1428	Open in IMG/M
JGI24034J14986_101691	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1228	Open in IMG/M
JGI24034J14986_102177	All Organisms → cellular organisms → Bacteria	1036	Open in IMG/M
JGI24034J14986_102596	All Organisms → cellular organisms → Bacteria	915	Open in IMG/M
JGI24034J14986_104967	All Organisms → cellular organisms → Bacteria	540	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI24034J14986_100124

All Organisms → cellular organisms → Bacteria

3553

Open in IMG/M

JGI24034J14986_100522

All Organisms → cellular organisms → Bacteria → Acidobacteria

2258

Open in IMG/M

JGI24034J14986_100661

All Organisms → cellular organisms → Bacteria → Acidobacteria

2025

Open in IMG/M

JGI24034J14986_101100

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

1584

Open in IMG/M

JGI24034J14986_101331

All Organisms → cellular organisms → Bacteria

1428

Open in IMG/M

JGI24034J14986_101691

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

1228

Open in IMG/M

JGI24034J14986_102177

All Organisms → cellular organisms → Bacteria

1036

Open in IMG/M

JGI24034J14986_102596

All Organisms → cellular organisms → Bacteria

915

Open in IMG/M

JGI24034J14986_104967

All Organisms → cellular organisms → Bacteria

540

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI24034J14986_100124	JGI24034J14986_1001246	F023886	MGILNLLPKEEQYFDLFVQMTLYIGDAARELKQMLSDERQNYGE
JGI24034J14986_100522	JGI24034J14986_1005221	F090536	LLLYRRMGPLPTFTDRDIAGETTITSQWLEIGPAPALKPSGKQSLIILELEGDYTPDFQAQMLRFPDGSLGMPEVQLVDQEGHVFQLHFLMVHHRDRTGSNFMGGAGFGSSDLPTDRGYSKVRVRSDKPMKCSKIIWRG*
JGI24034J14986_100661	JGI24034J14986_1006612	F026672	VSVALAFAAGVVACVIWRGGLIDSTAAAFVVRVGPEEAPLQTPQTWLALLLIVTISTSAGFFVGRVGARRSFVILASGFILMCTASLLVSRYLKIDILFVPMAIAATLAVLLVQLQRLWLIDTLLTERVNETISRTDGLGMSV
JGI24034J14986_101100	JGI24034J14986_1011001	F087788	GVIEEVSFVGSYERLNVRLDLAHRPPTGELAAPLYQVTINTPERMIGVPIMATRPKPEAHTTRYKPGDRVAVGLTSFSLLPNYTLAKHR*
JGI24034J14986_101331	JGI24034J14986_1013311	F059459	MALTNSLAGRNLGMLLLGLWLILTGLLPLLNMKLSSTVTTGLAVLGIVAGI
JGI24034J14986_101691	JGI24034J14986_1016911	F005910	MKRILLAVLFIIATATFAFADTIYLRDGRTIRGTLLGFINGRFVVRVEPRYSTTPSSTTNPEVARNRRDVNDIQYFNPDEIERIEIEGRSLDDARYQTRNVQVALDANWVDSGVF
JGI24034J14986_102177	JGI24034J14986_1021771	F034675	MENVPSRVLYQDLDTSFVNLWGLLRYLSQQSFVGRVHVELTDYSADVFLDGSETPLVHEIDRAAGTDVVEESALHRLVLRVRESPGK
JGI24034J14986_102596	JGI24034J14986_1025962	F065019	VKYPPPRELLKFLKPYDKTTRDLALQLRALLLDEIAPCYENIYDAYSAVAIGYGTSEKL
JGI24034J14986_104967	JGI24034J14986_1049671	F081703	MSLLETLQLIGYSLGAVLPLWLAYVLLRQRVGLVTVERLLLALAA

Scaffold ID

Protein ID

Family

Sequence

JGI24034J14986_100124

JGI24034J14986_1001246

F023886

MGILNLLPKEEQYFDLFVQMTLYIGDAARELKQMLSDERQNYGE

JGI24034J14986_100522

JGI24034J14986_1005221

F090536

LLLYRRMGPLPTFTDRDIAGETTITSQWLEIGPAPALKPSGKQSLIILELEGDYTPDFQAQMLRFPDGSLGMPEVQLVDQEGHVFQLHFLMVHHRDRTGSNFMGGAGFGSSDLPTDRGYSKVRVRSDKPMKCSKIIWRG*

JGI24034J14986_100661

JGI24034J14986_1006612

F026672

VSVALAFAAGVVACVIWRGGLIDSTAAAFVVRVGPEEAPLQTPQTWLALLLIVTISTSAGFFVGRVGARRSFVILASGFILMCTASLLVSRYLKIDILFVPMAIAATLAVLLVQLQRLWLIDTLLTERVNETISRTDGLGMSV

JGI24034J14986_101100

JGI24034J14986_1011001

F087788

GVIEEVSFVGSYERLNVRLDLAHRPPTGELAAPLYQVTINTPERMIGVPIMATRPKPEAHTTRYKPGDRVAVGLTSFSLLPNYTLAKHR*

JGI24034J14986_101331

JGI24034J14986_1013311

F059459

MALTNSLAGRNLGMLLLGLWLILTGLLPLLNMKLSSTVTTGLAVLGIVAGI

JGI24034J14986_101691

JGI24034J14986_1016911

F005910

MKRILLAVLFIIATATFAFADTIYLRDGRTIRGTLLGFINGRFVVRVEPRYSTTPSSTTNPEVARNRRDVNDIQYFNPDEIERIEIEGRSLDDARYQTRNVQVALDANWVDSGVF

JGI24034J14986_102177

JGI24034J14986_1021771

F034675

MENVPSRVLYQDLDTSFVNLWGLLRYLSQQSFVGRVHVELTDYSADVFLDGSETPLVHEIDRAAGTDVVEESALHRLVLRVRESPGK

JGI24034J14986_102596

JGI24034J14986_1025962

F065019

VKYPPPRELLKFLKPYDKTTRDLALQLRALLLDEIAPCYENIYDAYSAVAIGYGTSEKL

JGI24034J14986_104967

JGI24034J14986_1049671

F081703

MSLLETLQLIGYSLGAVLPLWLAYVLLRQRVGLVTVERLLLALAA

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300001432: Switchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S2

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences