Sample 3300001228

Overview

Basic Information
IMG/M Taxon OID	3300001228 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0087863 \| Gp0055704 \| Ga0012561
Sample Name	Switchgrass rhizosphere microbial communities from Knoxville, Tennessee, USA - 12_joined
Sequencing Status	Permanent Draft
Sequencing Center	University of Tennessee
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	19207606
Sequencing Scaffolds	19
Novel Protein Genes	20
Associated Families	20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Brevundimonas → unclassified Brevundimonas → Brevundimonas sp. BAL3	1
Not Available	6
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Fibrobacteres → Fibrobacteria → Fibrobacterales → Fibrobacteraceae → Fibrobacter → Fibrobacter succinogenes	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Switchgrass Rhizosphere Microbial Communities From Knoxville, Tennessee, Usa
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Knoxville, Tennessee, Usa

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

Location Information
Location	East Tennessee Research and Education Center, Knoxville, Tennessee, USA
Coordinates	Lat. (^o)	35.9606	Long. (^o)	-83.9208	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F001181	Metagenome / Metatranscriptome	756	Y
F001186	Metagenome / Metatranscriptome	754	Y
F003794	Metagenome / Metatranscriptome	468	Y
F005543	Metagenome / Metatranscriptome	397	Y
F008109	Metagenome / Metatranscriptome	339	Y
F010936	Metagenome / Metatranscriptome	297	Y
F012389	Metagenome / Metatranscriptome	281	N
F017389	Metagenome / Metatranscriptome	241	Y
F020336	Metagenome	224	Y
F031915	Metagenome / Metatranscriptome	181	Y
F038297	Metagenome / Metatranscriptome	166	Y
F038368	Metagenome / Metatranscriptome	166	N
F042788	Metagenome / Metatranscriptome	157	N
F053475	Metagenome / Metatranscriptome	141	N
F064981	Metagenome	128	Y
F074524	Metagenome	119	Y
F085355	Metagenome / Metatranscriptome	111	Y
F091754	Metagenome	107	Y
F092669	Metagenome / Metatranscriptome	107	N
F097459	Metagenome / Metatranscriptome	104	N

Family

Category

Number of Sequences

3D Structure?

F001181

Metagenome / Metatranscriptome

756

F001186

Metagenome / Metatranscriptome

754

F003794

Metagenome / Metatranscriptome

468

F005543

Metagenome / Metatranscriptome

397

F008109

Metagenome / Metatranscriptome

339

F010936

Metagenome / Metatranscriptome

297

F012389

Metagenome / Metatranscriptome

281

F017389

Metagenome / Metatranscriptome

241

F020336

Metagenome

224

F031915

Metagenome / Metatranscriptome

181

F038297

Metagenome / Metatranscriptome

166

F038368

Metagenome / Metatranscriptome

166

F042788

Metagenome / Metatranscriptome

157

F053475

Metagenome / Metatranscriptome

141

F064981

Metagenome

128

F074524

Metagenome

119

F085355

Metagenome / Metatranscriptome

111

F091754

Metagenome

107

F092669

Metagenome / Metatranscriptome

107

F097459

Metagenome / Metatranscriptome

104

Scaffold	Taxonomy	Length	IMG/M Link
SwM_102805	All Organisms → cellular organisms → Bacteria	574	Open in IMG/M
SwM_105728	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	534	Open in IMG/M
SwM_105954	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Brevundimonas → unclassified Brevundimonas → Brevundimonas sp. BAL3	623	Open in IMG/M
SwM_110045	All Organisms → cellular organisms → Bacteria	518	Open in IMG/M
SwM_114063	Not Available	502	Open in IMG/M
SwM_116876	All Organisms → cellular organisms → Bacteria	598	Open in IMG/M
SwM_125266	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	589	Open in IMG/M
SwM_127559	Not Available	889	Open in IMG/M
SwM_128468	All Organisms → cellular organisms → Bacteria → Proteobacteria	589	Open in IMG/M
SwM_135023	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium	522	Open in IMG/M
SwM_135654	All Organisms → cellular organisms → Bacteria	529	Open in IMG/M
SwM_140699	Not Available	553	Open in IMG/M
SwM_140705	All Organisms → cellular organisms → Bacteria → Proteobacteria	637	Open in IMG/M
SwM_141856	All Organisms → cellular organisms → Bacteria	635	Open in IMG/M
SwM_142188	Not Available	562	Open in IMG/M
SwM_142255	Not Available	554	Open in IMG/M
SwM_142869	Not Available	519	Open in IMG/M
SwM_143378	All Organisms → cellular organisms → Bacteria → FCB group → Fibrobacteres → Fibrobacteria → Fibrobacterales → Fibrobacteraceae → Fibrobacter → Fibrobacter succinogenes	539	Open in IMG/M
SwM_144712	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	524	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

SwM_102805

All Organisms → cellular organisms → Bacteria

574

Open in IMG/M

SwM_105728

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

534

Open in IMG/M

SwM_105954

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Brevundimonas → unclassified Brevundimonas → Brevundimonas sp. BAL3

623

Open in IMG/M

SwM_110045

All Organisms → cellular organisms → Bacteria

518

Open in IMG/M

SwM_114063

Not Available

502

Open in IMG/M

SwM_116876

All Organisms → cellular organisms → Bacteria

598

Open in IMG/M

SwM_125266

All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium

589

Open in IMG/M

SwM_127559

Not Available

889

Open in IMG/M

SwM_128468

All Organisms → cellular organisms → Bacteria → Proteobacteria

589

Open in IMG/M

SwM_135023

All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium

522

Open in IMG/M

SwM_135654

All Organisms → cellular organisms → Bacteria

529

Open in IMG/M

SwM_140699

Not Available

553

Open in IMG/M

SwM_140705

All Organisms → cellular organisms → Bacteria → Proteobacteria

637

Open in IMG/M

SwM_141856

All Organisms → cellular organisms → Bacteria

635

Open in IMG/M

SwM_142188

Not Available

562

Open in IMG/M

SwM_142255

Not Available

554

Open in IMG/M

SwM_142869

Not Available

519

Open in IMG/M

SwM_143378

All Organisms → cellular organisms → Bacteria → FCB group → Fibrobacteres → Fibrobacteria → Fibrobacterales → Fibrobacteraceae → Fibrobacter → Fibrobacter succinogenes

539

Open in IMG/M

SwM_144712

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

524

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
SwM_102805	SwM_1028051	F031915	MKFMFTIYHDGKVLAAMADNERQALVDSAIEYAEELQTERSLRRLECSAA
SwM_102805	SwM_1028052	F010936	ERALVLARNRRTALWYEPRILATLADAKLAAGDRSGARALLSEARELVDRGRGWRLGAFDVALAWVRLLASEPASDRTAIESALESVDALTAELGSDRYRRIAELERARLAT*
SwM_105728	SwM_1057282	F053475	LGIGSDSGITLLTGFFIGTALTWFSTIELLCHLGEKQGRQIMLRVMQSLCVLCIAAGVVQLARAANLLGI*
SwM_105954	SwM_1059541	F012389	SALGAGFEMLTSRLLGIFVVVSALVSSGAEFAVARDAPANDFSSLLEWKNQIAADIEHNKRYLPGVRTRGKIGVVYFDLNINRAGWVLPGTRIVTVDRELGSAALLLLQQSQPFPAPDHVGLRDTTFRILVPIRFNEIPPQDAAGLADLERRKLLECDEADREELEYQRRRAAYRNAEPPTTVNRMPVWVSRGEAAGGRASMAGRGT
SwM_110045	SwM_1100452	F091754	MRIGLAYNQKPDTDPTPDRASKTADVYAEWDEPSTIDAVEQALG
SwM_114063	SwM_1140631	F038368	ATRLRAEALEPELNAAILEIGKEDFLLDNCDLQSLFSESLNRYYSDEVVLWLGTELANGKQAAFQRLADVLGPVHTVLEMGVGCVDVFRVVSSFQDSQGDLISEWEAVLGGPYSTGAAIRWRTVRVWKQRVVIAERIEGLASVGDHFAAKGAERPRGC*
SwM_116876	SwM_1168761	F020336	LRVAAVEALRLAATPAALGTLEGLSDDGDREVREAASRGVAELKRKTRR*
SwM_125266	SwM_1252662	F074524	RVIVLINKVETLSDRTPARETAEQLLSSSAIESVVLASARRDKPVLELCTR*
SwM_127559	SwM_1275592	F042788	MNMRPLIAGCVVAEILLNATSLVGQTLDIKPPTTGPEFRPDHDQRREEKSSVARPGLNEPHFISPFSVKTDARQLGIAGWTSTNPNVPPGHSLSGDGAGSLGFGVAAEWGARPRSERPLIR*
SwM_128468	SwM_1284682	F005543	MVMKAAEDGRRYDAAHVLDSAMDRSVFVERPMSPQLVIIGSILRQDPAQV
SwM_135023	SwM_1350231	F038297	MGQAAKPTRHNRTITVDFHDETTYLALLDTPHAFVEFVLAFLLALSAFSSSTKPAAV
SwM_135654	SwM_1356542	F064981	TKKAKDFAASTDLKEAMIKAGVLDTPTIYFLESID*
SwM_140699	SwM_1406991	F092669	LYNRNMKDGANVMLRVDRIGSDGAVTGTYRRRVVGDVLSGGRSVFDVPVADVGTYRVSVEAVDWVKECR*
SwM_140705	SwM_1407051	F003794	MSLPDDDDTKHNVVRLGTETLFAIAEQLRRMYDADLRTKPSEELERLMRRIERGE
SwM_141856	SwM_1418561	F001186	MASQYSLPTRLRDYIAFLLPWAHGHQLKAIGDFVAAIIEQQTACQAQLARYFGKHEAAVKRLSRLLHNERLDPRQLADAVLLQALHQLPTHGKVRLAIDWTIEADQHLLVVSLVVGRRAVPMYWRAYDASV*
SwM_142188	SwM_1421881	F001181	MHALVVRVTIHNADRTREVLNSQVVPQVSGAPGFKTGYWTWATGGGGLNGLSMVVFDSEENARGAGDRVSAIAADAPDDVTLDGVEVREVVASA*
SwM_142255	SwM_1422552	F008109	GLDRLLAGPGFLGAGTFPEISFRSELLVWVPAGWRAVGRLQVKDTEHDLACQLDLHYGETRPDGSRRVIIVSSWVIDARWVTSQRVPGLGRRIVMTCSSSLEPDM*
SwM_142869	SwM_1428692	F097459	DNMSHKGRNRDPGRIPREPAVTHKKSTALMEAQLESLKRNSGSELIKAGDKRLEPRAGATLKTKFETRPLRGRRHRSDRS*
SwM_143378	SwM_1433781	F017389	TNDLGADWLDRLELMMVVEDQFAGVEITGADVDRIKVVGDLIRHIETVDKERRRQGAAPVVRKLFGPGLAHTVKLTKQQKGCEEAALFFLRLAGDAMRNLIGWCPETRQPIDLQLYVDDATLARIWSNVLRFRCPHCGTKHETEVQRLASKPFSLEPPQTKRTRHQKAAPLFARAS*
SwM_144712	SwM_1447121	F085355	MDSLKAALTSVKDLLDWLPDLVVALLILAIAVLFALALHRW

Scaffold ID

Protein ID

Family

Sequence

SwM_102805

SwM_1028051

F031915

MKFMFTIYHDGKVLAAMADNERQALVDSAIEYAEELQTERSLRRLECSAA

SwM_102805

SwM_1028052

F010936

ERALVLARNRRTALWYEPRILATLADAKLAAGDRSGARALLSEARELVDRGRGWRLGAFDVALAWVRLLASEPASDRTAIESALESVDALTAELGSDRYRRIAELERARLAT*

SwM_105728

SwM_1057282

F053475

LGIGSDSGITLLTGFFIGTALTWFSTIELLCHLGEKQGRQIMLRVMQSLCVLCIAAGVVQLARAANLLGI*

SwM_105954

SwM_1059541

F012389

SALGAGFEMLTSRLLGIFVVVSALVSSGAEFAVARDAPANDFSSLLEWKNQIAADIEHNKRYLPGVRTRGKIGVVYFDLNINRAGWVLPGTRIVTVDRELGSAALLLLQQSQPFPAPDHVGLRDTTFRILVPIRFNEIPPQDAAGLADLERRKLLECDEADREELEYQRRRAAYRNAEPPTTVNRMPVWVSRGEAAGGRASMAGRGT

SwM_110045

SwM_1100452

F091754

MRIGLAYNQKPDTDPTPDRASKTADVYAEWDEPSTIDAVEQALG

SwM_114063

SwM_1140631

F038368

ATRLRAEALEPELNAAILEIGKEDFLLDNCDLQSLFSESLNRYYSDEVVLWLGTELANGKQAAFQRLADVLGPVHTVLEMGVGCVDVFRVVSSFQDSQGDLISEWEAVLGGPYSTGAAIRWRTVRVWKQRVVIAERIEGLASVGDHFAAKGAERPRGC*

SwM_116876

SwM_1168761

F020336

LRVAAVEALRLAATPAALGTLEGLSDDGDREVREAASRGVAELKRKTRR*

SwM_125266

SwM_1252662

F074524

RVIVLINKVETLSDRTPARETAEQLLSSSAIESVVLASARRDKPVLELCTR*

SwM_127559

SwM_1275592

F042788

MNMRPLIAGCVVAEILLNATSLVGQTLDIKPPTTGPEFRPDHDQRREEKSSVARPGLNEPHFISPFSVKTDARQLGIAGWTSTNPNVPPGHSLSGDGAGSLGFGVAAEWGARPRSERPLIR*

SwM_128468

SwM_1284682

F005543

MVMKAAEDGRRYDAAHVLDSAMDRSVFVERPMSPQLVIIGSILRQDPAQV

SwM_135023

SwM_1350231

F038297

MGQAAKPTRHNRTITVDFHDETTYLALLDTPHAFVEFVLAFLLALSAFSSSTKPAAV

SwM_135654

SwM_1356542

F064981

TKKAKDFAASTDLKEAMIKAGVLDTPTIYFLESID*

SwM_140699

SwM_1406991

F092669

LYNRNMKDGANVMLRVDRIGSDGAVTGTYRRRVVGDVLSGGRSVFDVPVADVGTYRVSVEAVDWVKECR*

SwM_140705

SwM_1407051

F003794

MSLPDDDDTKHNVVRLGTETLFAIAEQLRRMYDADLRTKPSEELERLMRRIERGE

SwM_141856

SwM_1418561

F001186

MASQYSLPTRLRDYIAFLLPWAHGHQLKAIGDFVAAIIEQQTACQAQLARYFGKHEAAVKRLSRLLHNERLDPRQLADAVLLQALHQLPTHGKVRLAIDWTIEADQHLLVVSLVVGRRAVPMYWRAYDASV*

SwM_142188

SwM_1421881

F001181

MHALVVRVTIHNADRTREVLNSQVVPQVSGAPGFKTGYWTWATGGGGLNGLSMVVFDSEENARGAGDRVSAIAADAPDDVTLDGVEVREVVASA*

SwM_142255

SwM_1422552

F008109

GLDRLLAGPGFLGAGTFPEISFRSELLVWVPAGWRAVGRLQVKDTEHDLACQLDLHYGETRPDGSRRVIIVSSWVIDARWVTSQRVPGLGRRIVMTCSSSLEPDM*

SwM_142869

SwM_1428692

F097459

DNMSHKGRNRDPGRIPREPAVTHKKSTALMEAQLESLKRNSGSELIKAGDKRLEPRAGATLKTKFETRPLRGRRHRSDRS*

SwM_143378

SwM_1433781

F017389

TNDLGADWLDRLELMMVVEDQFAGVEITGADVDRIKVVGDLIRHIETVDKERRRQGAAPVVRKLFGPGLAHTVKLTKQQKGCEEAALFFLRLAGDAMRNLIGWCPETRQPIDLQLYVDDATLARIWSNVLRFRCPHCGTKHETEVQRLASKPFSLEPPQTKRTRHQKAAPLFARAS*

SwM_144712

SwM_1447121

F085355

MDSLKAALTSVKDLLDWLPDLVVALLILAIAVLFALALHRW

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300001228: Switchgrass rhizosphere microbial communities from Knoxville, Tennessee, USA - 12_joined

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences