Sample 3300025227

Overview

Basic Information
IMG/M Taxon OID	3300025227 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0090294 \| Gp0057573 \| Ga0207638
Sample Name	Miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with spike-in- M7 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	40111832
Sequencing Scaffolds	12
Novel Protein Genes	12
Associated Families	12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1
All Organisms → cellular organisms → Archaea	1
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1

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?
F001755	Metagenome / Metatranscriptome	641	Y
F005950	Metagenome / Metatranscriptome	385	Y
F042196	Metagenome / Metatranscriptome	158	Y
F054165	Metagenome / Metatranscriptome	140	Y
F058544	Metagenome / Metatranscriptome	135	Y
F060006	Metagenome	133	N
F070289	Metagenome / Metatranscriptome	123	N
F071771	Metagenome / Metatranscriptome	122	Y
F081911	Metagenome	114	N
F083156	Metagenome	113	Y
F088152	Metagenome / Metatranscriptome	109	Y
F094116	Metagenome	106	Y

Family

Category

Number of Sequences

3D Structure?

F001755

Metagenome / Metatranscriptome

641

F005950

Metagenome / Metatranscriptome

385

F042196

Metagenome / Metatranscriptome

158

F054165

Metagenome / Metatranscriptome

140

F058544

Metagenome / Metatranscriptome

135

F060006

Metagenome

133

F070289

Metagenome / Metatranscriptome

123

F071771

Metagenome / Metatranscriptome

122

F081911

Metagenome

114

F083156

Metagenome

113

F088152

Metagenome / Metatranscriptome

109

F094116

Metagenome

106

Scaffold	Taxonomy	Length	IMG/M Link
Ga0207638_1000774	All Organisms → cellular organisms → Bacteria	964	Open in IMG/M
Ga0207638_1000992	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	897	Open in IMG/M
Ga0207638_1001684	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	777	Open in IMG/M
Ga0207638_1002236	All Organisms → cellular organisms → Archaea	715	Open in IMG/M
Ga0207638_1003190	Not Available	646	Open in IMG/M
Ga0207638_1003313	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	639	Open in IMG/M
Ga0207638_1003352	All Organisms → cellular organisms → Bacteria	636	Open in IMG/M
Ga0207638_1004652	Not Available	577	Open in IMG/M
Ga0207638_1005835	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	542	Open in IMG/M
Ga0207638_1006135	Not Available	534	Open in IMG/M
Ga0207638_1006897	Not Available	517	Open in IMG/M
Ga0207638_1006918	Not Available	516	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0207638_1000774

All Organisms → cellular organisms → Bacteria

964

Open in IMG/M

Ga0207638_1000992

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

897

Open in IMG/M

Ga0207638_1001684

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium

777

Open in IMG/M

Ga0207638_1002236

All Organisms → cellular organisms → Archaea

715

Open in IMG/M

Ga0207638_1003190

Not Available

646

Open in IMG/M

Ga0207638_1003313

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium

639

Open in IMG/M

Ga0207638_1003352

All Organisms → cellular organisms → Bacteria

636

Open in IMG/M

Ga0207638_1004652

Not Available

577

Open in IMG/M

Ga0207638_1005835

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium

542

Open in IMG/M

Ga0207638_1006135

Not Available

534

Open in IMG/M

Ga0207638_1006897

Not Available

517

Open in IMG/M

Ga0207638_1006918

Not Available

516

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0207638_1000774	Ga0207638_10007742	F060006	MPIDFQDITIIANPEQVQVRDGSRRHSKKFPFQLSGAPTPEWVALFNREWAMRTVSNRAASVHG
Ga0207638_1000992	Ga0207638_10009922	F071771	MRCQRVDDDTHCRFDATRRVLVVGGDPPDPDHAGFTRTVNMVQVCMQHDPDPSRSMPIPRPPGSVPIGERPGR
Ga0207638_1001684	Ga0207638_10016841	F042196	MSSREERMALNEAASRRINEGIEQAHKGDPPGRRMTITCECALKSCDRLIEITTPEYQEVRSDATQFAIVPEHLIGDIERIVYENDRFAVVAKREGTPADVARDGNPRG
Ga0207638_1002236	Ga0207638_10022361	F005950	MKTTDVKQKVKVKIHRTSDYDDEHTGIRDFSNEKAMLHYGLSKVHKVIIRKYTKDDEFIVAAQKTRGLKFDYDMELSD
Ga0207638_1003190	Ga0207638_10031902	F094116	TPSATGFVLGQEDIQNLPGFEEAFDVAATQIRVADLEERTGLDFGDIKKFDHFAAGGASGTLELPSIEGIVQRAKIVRNGNDIVV
Ga0207638_1003313	Ga0207638_10033131	F054165	SEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK
Ga0207638_1003352	Ga0207638_10033522	F058544	MLESFGISNSGLIQQLLKNTAVVEAKPDLWDQFLWDVNRKTAPFDAGIKDVTGVLFARAAGCAVLAYAGTSPQAQRAERCGPQPCGLFLEPLLDIGGSFSFTRHVLCVL
Ga0207638_1004652	Ga0207638_10046521	F070289	GTCGDVNGAIVNSFLATAWTFLPKSDPVRKEAALLRSILKRPVSNFDGDAAGALWAFKAAIERGGATRAGINGALETKLRGLVTPAGRIFLGPRNHQGLQLDSMWVGRIQNCQVRPLFGPAFTKKK
Ga0207638_1005835	Ga0207638_10058351	F083156	MSSNENKMSDGGQDRALLGVEVWKSSQKWSARRSAVRSIAWLGLYARLHDE
Ga0207638_1006135	Ga0207638_10061351	F088152	VKMILSRCEIHRGCIIEVFFGEKAGGRIPWPDPDLKPDAERDFPGSVPIRLAHLPRDGNAKARRAISTLTVEVAELQEENKKLLDQLVAAGFRNDELAQALQEVPPILRR
Ga0207638_1006897	Ga0207638_10068972	F081911	ERVGNTGYIENPNQRAGSVIDNTSAGLLNTQSALPGPWTLPFKSNPWIGY
Ga0207638_1006918	Ga0207638_10069181	F001755	MPLKLRPTGLGSGIDKDRPDYTVVTGEWEVGRIYETRGGPDNLRWFWSMTVNGPMTRADRVATLEEAKAQFQKSWDAWKAWAKLEEIE

Scaffold ID

Protein ID

Family

Sequence

Ga0207638_1000774

Ga0207638_10007742

F060006

MPIDFQDITIIANPEQVQVRDGSRRHSKKFPFQLSGAPTPEWVALFNREWAMRTVSNRAASVHG

Ga0207638_1000992

Ga0207638_10009922

F071771

MRCQRVDDDTHCRFDATRRVLVVGGDPPDPDHAGFTRTVNMVQVCMQHDPDPSRSMPIPRPPGSVPIGERPGR

Ga0207638_1001684

Ga0207638_10016841

F042196

MSSREERMALNEAASRRINEGIEQAHKGDPPGRRMTITCECALKSCDRLIEITTPEYQEVRSDATQFAIVPEHLIGDIERIVYENDRFAVVAKREGTPADVARDGNPRG

Ga0207638_1002236

Ga0207638_10022361

F005950

MKTTDVKQKVKVKIHRTSDYDDEHTGIRDFSNEKAMLHYGLSKVHKVIIRKYTKDDEFIVAAQKTRGLKFDYDMELSD

Ga0207638_1003190

Ga0207638_10031902

F094116

TPSATGFVLGQEDIQNLPGFEEAFDVAATQIRVADLEERTGLDFGDIKKFDHFAAGGASGTLELPSIEGIVQRAKIVRNGNDIVV

Ga0207638_1003313

Ga0207638_10033131

F054165

SEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK

Ga0207638_1003352

Ga0207638_10033522

F058544

MLESFGISNSGLIQQLLKNTAVVEAKPDLWDQFLWDVNRKTAPFDAGIKDVTGVLFARAAGCAVLAYAGTSPQAQRAERCGPQPCGLFLEPLLDIGGSFSFTRHVLCVL

Ga0207638_1004652

Ga0207638_10046521

F070289

GTCGDVNGAIVNSFLATAWTFLPKSDPVRKEAALLRSILKRPVSNFDGDAAGALWAFKAAIERGGATRAGINGALETKLRGLVTPAGRIFLGPRNHQGLQLDSMWVGRIQNCQVRPLFGPAFTKKK

Ga0207638_1005835

Ga0207638_10058351

F083156

MSSNENKMSDGGQDRALLGVEVWKSSQKWSARRSAVRSIAWLGLYARLHDE

Ga0207638_1006135

Ga0207638_10061351

F088152

VKMILSRCEIHRGCIIEVFFGEKAGGRIPWPDPDLKPDAERDFPGSVPIRLAHLPRDGNAKARRAISTLTVEVAELQEENKKLLDQLVAAGFRNDELAQALQEVPPILRR

Ga0207638_1006897

Ga0207638_10068972

F081911

ERVGNTGYIENPNQRAGSVIDNTSAGLLNTQSALPGPWTLPFKSNPWIGY

Ga0207638_1006918

Ga0207638_10069181

F001755

MPLKLRPTGLGSGIDKDRPDYTVVTGEWEVGRIYETRGGPDNLRWFWSMTVNGPMTRADRVATLEEAKAQFQKSWDAWKAWAKLEEIE

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300025227: Miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with spike-in- M7 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences