Sample 3300003405

Overview

Basic Information
IMG/M Taxon OID	3300003405 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110179 \| Gp0089071 \| Ga0008473
Sample Name	Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M2 AM
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	14650543
Sequencing Scaffolds	17
Novel Protein Genes	17
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → unclassified Nitrospira → Nitrospira sp. KM1	1
All Organisms → cellular organisms → Archaea	5
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	2
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → Nitrospira defluvii	1
All Organisms → cellular organisms → Bacteria → Nitrospirae	1
Not Available	4
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Thaliana Rhizosphere → Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling

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

Location Information
Location	Joint Genome Institute, California, USA
Coordinates	Lat. (^o)	37.931388	Long. (^o)	-122.021761	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F002895	Metagenome	522	Y
F005305	Metagenome / Metatranscriptome	405	N
F006898	Metagenome / Metatranscriptome	362	Y
F009776	Metagenome / Metatranscriptome	313	Y
F013650	Metagenome / Metatranscriptome	269	Y
F020931	Metagenome / Metatranscriptome	221	Y
F040514	Metagenome / Metatranscriptome	161	N
F055762	Metagenome	138	Y
F057150	Metagenome	136	N
F063100	Metagenome	130	N
F068543	Metagenome	124	Y
F079269	Metagenome	116	N
F087830	Metagenome / Metatranscriptome	110	N
F089091	Metagenome / Metatranscriptome	109	N
F101793	Metagenome / Metatranscriptome	102	N
F103021	Metagenome / Metatranscriptome	101	N
F105484	Metagenome	100	N

Family

Category

Number of Sequences

3D Structure?

F002895

Metagenome

522

F005305

Metagenome / Metatranscriptome

405

F006898

Metagenome / Metatranscriptome

362

F009776

Metagenome / Metatranscriptome

313

F013650

Metagenome / Metatranscriptome

269

F020931

Metagenome / Metatranscriptome

221

F040514

Metagenome / Metatranscriptome

161

F055762

Metagenome

138

F057150

Metagenome

136

F063100

Metagenome

130

F068543

Metagenome

124

F079269

Metagenome

116

F087830

Metagenome / Metatranscriptome

110

F089091

Metagenome / Metatranscriptome

109

F101793

Metagenome / Metatranscriptome

102

F103021

Metagenome / Metatranscriptome

101

F105484

Metagenome

100

Scaffold	Taxonomy	Length	IMG/M Link
JGI26132J50249_100339	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → unclassified Nitrospira → Nitrospira sp. KM1	1350	Open in IMG/M
JGI26132J50249_100557	All Organisms → cellular organisms → Archaea	1120	Open in IMG/M
JGI26132J50249_100669	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	1047	Open in IMG/M
JGI26132J50249_100857	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → Nitrospira defluvii	968	Open in IMG/M
JGI26132J50249_101164	All Organisms → cellular organisms → Bacteria → Nitrospirae	858	Open in IMG/M
JGI26132J50249_101359	Not Available	812	Open in IMG/M
JGI26132J50249_102205	All Organisms → cellular organisms → Archaea	680	Open in IMG/M
JGI26132J50249_102228	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	678	Open in IMG/M
JGI26132J50249_102264	All Organisms → cellular organisms → Archaea	674	Open in IMG/M
JGI26132J50249_102313	Not Available	669	Open in IMG/M
JGI26132J50249_102510	All Organisms → cellular organisms → Bacteria	649	Open in IMG/M
JGI26132J50249_102832	All Organisms → cellular organisms → Archaea	621	Open in IMG/M
JGI26132J50249_103159	All Organisms → cellular organisms → Bacteria	596	Open in IMG/M
JGI26132J50249_103711	All Organisms → cellular organisms → Archaea	559	Open in IMG/M
JGI26132J50249_103814	Not Available	554	Open in IMG/M
JGI26132J50249_104257	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058	534	Open in IMG/M
JGI26132J50249_104896	Not Available	508	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI26132J50249_100339

All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → unclassified Nitrospira → Nitrospira sp. KM1

1350

Open in IMG/M

JGI26132J50249_100557

All Organisms → cellular organisms → Archaea

1120

Open in IMG/M

JGI26132J50249_100669

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

1047

Open in IMG/M

JGI26132J50249_100857

All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → Nitrospira defluvii

968

Open in IMG/M

JGI26132J50249_101164

All Organisms → cellular organisms → Bacteria → Nitrospirae

858

Open in IMG/M

JGI26132J50249_101359

Not Available

812

Open in IMG/M

JGI26132J50249_102205

All Organisms → cellular organisms → Archaea

680

Open in IMG/M

JGI26132J50249_102228

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

678

Open in IMG/M

JGI26132J50249_102264

All Organisms → cellular organisms → Archaea

674

Open in IMG/M

JGI26132J50249_102313

Not Available

669

Open in IMG/M

JGI26132J50249_102510

All Organisms → cellular organisms → Bacteria

649

Open in IMG/M

JGI26132J50249_102832

All Organisms → cellular organisms → Archaea

621

Open in IMG/M

JGI26132J50249_103159

All Organisms → cellular organisms → Bacteria

596

Open in IMG/M

JGI26132J50249_103711

All Organisms → cellular organisms → Archaea

559

Open in IMG/M

JGI26132J50249_103814

Not Available

554

Open in IMG/M

JGI26132J50249_104257

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Hoeflea → unclassified Hoeflea → Hoeflea sp. WL0058

534

Open in IMG/M

JGI26132J50249_104896

Not Available

508

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI26132J50249_100339	JGI26132J50249_1003392	F055762	RPEAHGYTSRPFSGGGSVCLTKALHGAATGTVRMASENKEMKWLRLTICALVVGVCAGCAGGSPQQDASWKLVPITEIGMVVGEWEGLVKKDHATLPGGSVRLMIRANSTYLFAGQTATTAGVGSGDLEPRDGRLVGDTEKRAVKFTLYDHRGKTVMLVESTNHFTGERYHGEFTKVQ*
JGI26132J50249_100557	JGI26132J50249_1005572	F005305	MEDLEKELGPLIENFQSLVKDAKSKKLESLREDEDFKKEFNELSKDVIEPVMRKFESYLESKDVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRLIKSCFDKDWQSFYS*
JGI26132J50249_100669	JGI26132J50249_1006691	F002895	EKKVGHVRHYQKLVSTVCAIIAFLSVGPSLFAATAPSTYSAYSGTDAKPVPRAPALGPVNSVIRDPTFGSRILRVTDARSHGGNSLIPEYAGYFRTWNANSTALKLHGPWGTSYWLEFNPSTFKVGDGSSRPTLHPLSFDVKWEWSAVDPNIIYFINGTQLAKYNKSTHVVTNLGGRGVSLKYHVVVVGLDAWVCAAGPGTQNTYRQIFCLNPRNPSQTKFIDILKRTINGVYQSDPNWPTSAPYQTIGIHAMYGSATGTWLDVGFHRASWGAGGDSVFNLSTNKWSLMKANRYSSGHSSIGTRFVNGSGSINGMYSGGACLRNPSNLMDATRYTFIMQPPSTATGWHD
JGI26132J50249_100857	JGI26132J50249_1008571	F103021	MSQDDRNASAAVPSADGGQVNSGIVVFSSTRKALYVNEAGQQLLRQLNRNENGXSAGSAIPRSVNHLLDEMLPLLQVGCADRGWKQLEAKRLVIAPDRSVLVRTFGIPDRLDVKRSLVVLTMQETQAS*
JGI26132J50249_101164	JGI26132J50249_1011642	F105484	CLFFLFTPVTFGAMETNAMIERSSDYNLTMRWIQPILGQAIVEDALIRQHSLDAGSATQLLEGVSKLDPSSVQWVLGRVIVELNRSRLISGLPGRPNDDQRIGAIARYAAEQFL*
JGI26132J50249_101359	JGI26132J50249_1013592	F089091	MYRDLALPLLVVGVMGCTSVQYNEVDCGTLPSDTFWSGNIALQCQEYRRLQAETAYRAEVAQSLRSYRECLSKHEGSLTGAKEQ
JGI26132J50249_102205	JGI26132J50249_1022051	F006898	FSLPGAFGAEMFKGLSFSIDIPNTWAYTETPEAPIERALGVSSYTSVVLVPVQFAELLIQEKGDIGMGNGSTAIVFAKASDYSVKNAPLXLYVKYRMNEDDSLNVTSQQDTTIGKEKAVRIDGNKNNNASNIRLLEYLLLHNDEPYVIRYIASMDDFERNLPAFELMVKSFTFGTNTTDSKQT*
JGI26132J50249_102228	JGI26132J50249_1022282	F040514	VMAVIAGAIVLVPQDRTLAHDGASDNHQGAHSSAKPATADTEIVVQEGGHPILKGPQTHGQVLTLVAGEPIVLALRNEDHGPREFISPLFTKTEIHFLGRATGIFRKDAAGFRLNPGDTLTLQFTAPFSGFRRMYDLIWCGHDGKPGSELQELLIIMTEEKQPHAASETHGR*
JGI26132J50249_102264	JGI26132J50249_1022642	F068543	AVVIESAIDQAGNSLSPGDLISPQKVTYSFSAQASETVQALEEEGPQDYQYECALDDESFNSCNSPMTYELDEGKHDFVVRLVP*
JGI26132J50249_102313	JGI26132J50249_1023131	F020931	LSPRFGFFKRKTSDNIQDKESEANSVYSVSNKELLEIVEKKKKVLEKDLIDNLEPTRNLVLECLDRLRKNADELEEQEIKAESPQFESLINTSKKILITSIKKESLIESYQIKSYEDAIKFKNNLELLINRFGQVGDSHNRILNEFMRK
JGI26132J50249_102510	JGI26132J50249_1025101	F079269	MKKASWFFWAFVGLVWLVISLPFAGDSLKALLEFPDTPPSSQEELGKLLQNIIYAANFSILSVLVLYGLNRGWHKSDGYPKFLRRLDLQTRFTNLFENKPVLAVTNTVLALLAVAFSIFLFLHGRMLVRA*
JGI26132J50249_102832	JGI26132J50249_1028321	F009776	MTRQKKLFNKTGDSVEIKKDGKDVIVTVQYTTKVEPTALATEDNFNDIVSVYE
JGI26132J50249_103159	JGI26132J50249_1031591	F087830	LPKSQTLRSSLWGLNRARLLTAVIVLAVGALLRITDAFPYAFGPFAIMVLGVAAAGLVLPLADRRGIRPDRIAW
JGI26132J50249_103711	JGI26132J50249_1037111	F057150	SALIVNSGNMAYAQGNNTQGNVTTTIDADSLIKDLKARHPILAQLVTNEDKDLVVKFKDLDTKEAVKTALALNMLHLLQQYREIDEPQ*
JGI26132J50249_103814	JGI26132J50249_1038141	F101793	GLTYATGTLERTWLTGSGRPFAVERQSFDSVAASVYYSRSEFDLSGSSVYGYSRDLANADREMTSLYHDLTLTLRPLKTVTLMPSVSTGTDRYDWASGQYQTTTLSLLLTYGPVASRWNXWTLGAYSTSQTSDRTVDGRIMSVSGGLACGLGPMLGGRASVSVEAGYDRYVDSVYPDTSSRGAF
JGI26132J50249_104257	JGI26132J50249_1042571	F013650	NWGELMSTYFSEKAASSYYVGSRLLDQTIANNPKIADATMPFELPKKLTEAYYLSIQGFHVLDKSNVEGAKKYVTFFMKHPDVISWYHAVPLHIIPASRDMLHSAKYQDNPVIQKRMDVLKFLDSVWTKGVPLYYWDGRELNPYIGLYHNENLAGWMLAMRNIKGMKSDQIVDEAAAQ
JGI26132J50249_104896	JGI26132J50249_1048961	F063100	VLPTTFSDRFQQMMSAKLVELRKESSIEFSKAEADAARRGEVSASSTAGLRSQVDIHLVKKIIAAAVVLLTELISELQIPFSDSLAGELKDQVKAYVSNEQCEDLHRMNRGGISEQHAARLKEE

Scaffold ID

Protein ID

Family

Sequence

JGI26132J50249_100339

JGI26132J50249_1003392

F055762

RPEAHGYTSRPFSGGGSVCLTKALHGAATGTVRMASENKEMKWLRLTICALVVGVCAGCAGGSPQQDASWKLVPITEIGMVVGEWEGLVKKDHATLPGGSVRLMIRANSTYLFAGQTATTAGVGSGDLEPRDGRLVGDTEKRAVKFTLYDHRGKTVMLVESTNHFTGERYHGEFTKVQ*

JGI26132J50249_100557

JGI26132J50249_1005572

F005305

MEDLEKELGPLIENFQSLVKDAKSKKLESLREDEDFKKEFNELSKDVIEPVMRKFESYLESKDVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRLIKSCFDKDWQSFYS*

JGI26132J50249_100669

JGI26132J50249_1006691

F002895

EKKVGHVRHYQKLVSTVCAIIAFLSVGPSLFAATAPSTYSAYSGTDAKPVPRAPALGPVNSVIRDPTFGSRILRVTDARSHGGNSLIPEYAGYFRTWNANSTALKLHGPWGTSYWLEFNPSTFKVGDGSSRPTLHPLSFDVKWEWSAVDPNIIYFINGTQLAKYNKSTHVVTNLGGRGVSLKYHVVVVGLDAWVCAAGPGTQNTYRQIFCLNPRNPSQTKFIDILKRTINGVYQSDPNWPTSAPYQTIGIHAMYGSATGTWLDVGFHRASWGAGGDSVFNLSTNKWSLMKANRYSSGHSSIGTRFVNGSGSINGMYSGGACLRNPSNLMDATRYTFIMQPPSTATGWHD

JGI26132J50249_100857

JGI26132J50249_1008571

F103021

MSQDDRNASAAVPSADGGQVNSGIVVFSSTRKALYVNEAGQQLLRQLNRNENGXSAGSAIPRSVNHLLDEMLPLLQVGCADRGWKQLEAKRLVIAPDRSVLVRTFGIPDRLDVKRSLVVLTMQETQAS*

JGI26132J50249_101164

JGI26132J50249_1011642

F105484

CLFFLFTPVTFGAMETNAMIERSSDYNLTMRWIQPILGQAIVEDALIRQHSLDAGSATQLLEGVSKLDPSSVQWVLGRVIVELNRSRLISGLPGRPNDDQRIGAIARYAAEQFL*

JGI26132J50249_101359

JGI26132J50249_1013592

F089091

MYRDLALPLLVVGVMGCTSVQYNEVDCGTLPSDTFWSGNIALQCQEYRRLQAETAYRAEVAQSLRSYRECLSKHEGSLTGAKEQ

JGI26132J50249_102205

JGI26132J50249_1022051

F006898

FSLPGAFGAEMFKGLSFSIDIPNTWAYTETPEAPIERALGVSSYTSVVLVPVQFAELLIQEKGDIGMGNGSTAIVFAKASDYSVKNAPLXLYVKYRMNEDDSLNVTSQQDTTIGKEKAVRIDGNKNNNASNIRLLEYLLLHNDEPYVIRYIASMDDFERNLPAFELMVKSFTFGTNTTDSKQT*

JGI26132J50249_102228

JGI26132J50249_1022282

F040514

VMAVIAGAIVLVPQDRTLAHDGASDNHQGAHSSAKPATADTEIVVQEGGHPILKGPQTHGQVLTLVAGEPIVLALRNEDHGPREFISPLFTKTEIHFLGRATGIFRKDAAGFRLNPGDTLTLQFTAPFSGFRRMYDLIWCGHDGKPGSELQELLIIMTEEKQPHAASETHGR*

JGI26132J50249_102264

JGI26132J50249_1022642

F068543

AVVIESAIDQAGNSLSPGDLISPQKVTYSFSAQASETVQALEEEGPQDYQYECALDDESFNSCNSPMTYELDEGKHDFVVRLVP*

JGI26132J50249_102313

JGI26132J50249_1023131

F020931

LSPRFGFFKRKTSDNIQDKESEANSVYSVSNKELLEIVEKKKKVLEKDLIDNLEPTRNLVLECLDRLRKNADELEEQEIKAESPQFESLINTSKKILITSIKKESLIESYQIKSYEDAIKFKNNLELLINRFGQVGDSHNRILNEFMRK

JGI26132J50249_102510

JGI26132J50249_1025101

F079269

MKKASWFFWAFVGLVWLVISLPFAGDSLKALLEFPDTPPSSQEELGKLLQNIIYAANFSILSVLVLYGLNRGWHKSDGYPKFLRRLDLQTRFTNLFENKPVLAVTNTVLALLAVAFSIFLFLHGRMLVRA*

JGI26132J50249_102832

JGI26132J50249_1028321

F009776

MTRQKKLFNKTGDSVEIKKDGKDVIVTVQYTTKVEPTALATEDNFNDIVSVYE

JGI26132J50249_103159

JGI26132J50249_1031591

F087830

LPKSQTLRSSLWGLNRARLLTAVIVLAVGALLRITDAFPYAFGPFAIMVLGVAAAGLVLPLADRRGIRPDRIAW

JGI26132J50249_103711

JGI26132J50249_1037111

F057150

SALIVNSGNMAYAQGNNTQGNVTTTIDADSLIKDLKARHPILAQLVTNEDKDLVVKFKDLDTKEAVKTALALNMLHLLQQYREIDEPQ*

JGI26132J50249_103814

JGI26132J50249_1038141

F101793

GLTYATGTLERTWLTGSGRPFAVERQSFDSVAASVYYSRSEFDLSGSSVYGYSRDLANADREMTSLYHDLTLTLRPLKTVTLMPSVSTGTDRYDWASGQYQTTTLSLLLTYGPVASRWNXWTLGAYSTSQTSDRTVDGRIMSVSGGLACGLGPMLGGRASVSVEAGYDRYVDSVYPDTSSRGAF

JGI26132J50249_104257

JGI26132J50249_1042571

F013650

NWGELMSTYFSEKAASSYYVGSRLLDQTIANNPKIADATMPFELPKKLTEAYYLSIQGFHVLDKSNVEGAKKYVTFFMKHPDVISWYHAVPLHIIPASRDMLHSAKYQDNPVIQKRMDVLKFLDSVWTKGVPLYYWDGRELNPYIGLYHNENLAGWMLAMRNIKGMKSDQIVDEAAAQ

JGI26132J50249_104896

JGI26132J50249_1048961

F063100

VLPTTFSDRFQQMMSAKLVELRKESSIEFSKAEADAARRGEVSASSTAGLRSQVDIHLVKKIIAAAVVLLTELISELQIPFSDSLAGELKDQVKAYVSNEQCEDLHRMNRGGISEQHAARLKEE

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003405: Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M2 AM

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences