NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300003397

3300003397: Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M3 AM



Overview

Basic Information
IMG/M Taxon OID3300003397 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0110179 | Gp0089072 | Ga0008474
Sample NameArabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M3 AM
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size15346437
Sequencing Scaffolds13
Novel Protein Genes14
Associated Families14

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available5
All Organisms → cellular organisms → Archaea5
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameArabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling
TypeHost-Associated
TaxonomyHost-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
LocationJoint Genome Institute, California, USA
CoordinatesLat. (o)37.931388Long. (o)-122.021761Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002896Metagenome / Metatranscriptome522N
F005950Metagenome / Metatranscriptome385Y
F026242Metagenome198Y
F027009Metagenome / Metatranscriptome196Y
F033614Metagenome / Metatranscriptome177Y
F059221Metagenome134Y
F059823Metagenome133N
F062531Metagenome130N
F073748Metagenome120N
F081899Metagenome114N
F089980Metagenome108N
F098876Metagenome103N
F100610Metagenome102N
F103537Metagenome / Metatranscriptome101N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI26133J50247_100616Not Available995Open in IMG/M
JGI26133J50247_100650Not Available978Open in IMG/M
JGI26133J50247_100700All Organisms → cellular organisms → Archaea956Open in IMG/M
JGI26133J50247_100752Not Available932Open in IMG/M
JGI26133J50247_100872All Organisms → cellular organisms → Archaea882Open in IMG/M
JGI26133J50247_101421All Organisms → cellular organisms → Archaea748Open in IMG/M
JGI26133J50247_101785All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium687Open in IMG/M
JGI26133J50247_102078Not Available652Open in IMG/M
JGI26133J50247_102293Not Available633Open in IMG/M
JGI26133J50247_102439All Organisms → cellular organisms → Archaea619Open in IMG/M
JGI26133J50247_103336All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium558Open in IMG/M
JGI26133J50247_103519All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium548Open in IMG/M
JGI26133J50247_103858All Organisms → cellular organisms → Archaea532Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI26133J50247_100616JGI26133J50247_1006163F027009MVASKMEADIIAEYFKKSKQNLQSEHDSMIQDVKQDISSYK
JGI26133J50247_100650JGI26133J50247_1006501F100610LFGNEDMEISEFPLTNKSVFYRCSYGECFRFIADKCMHCCANPIPDTEMHINYLRRLPDIKKAVTDLGI*
JGI26133J50247_100700JGI26133J50247_1007001F005950MKMTNGKNRIKVKIHRTSDYDDKYTGIRDFPDEKAMLQYGLSKVHKVIIRKYTEDDEFIARAQKTRGIKFDYEMELYD*
JGI26133J50247_100752JGI26133J50247_1007521F073748VNNFLLNRRGCVLXTCLIAGLQICLTAPGWSEEVHFGCEYDEEKTHETSTSNSGPERRSTHGEARYTIDWQSKRVQGFSGEYELKFSDAELRIQRKTQNSSGEWLNKASESIIINRYTGEYVFSEKVEGESVKGISRYWYTYKTRKGICKKIDKSLF*
JGI26133J50247_100872JGI26133J50247_1008722F002896MDKMNEDTILHFYRILENSLLESDISKINEEDIDAWSQSFKKVVRESREKSGKGVFVPFLMWKLGELSPVEASKYLVNRKQDECRVSYDHNNVEYILRVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQELYNECVKTFKDLLIHSDAQHH*
JGI26133J50247_101400JGI26133J50247_1014001F103537LRFGSKLEIMPFVLRGRITKSIFAFAAIEYEFPLTVSGQIKHELLKMNDARFKDIVHWRYTEVAKQAAKVFALNKPFINC
JGI26133J50247_101421JGI26133J50247_1014211F089980FMDLESIIELIVMNWLGIFSLIATIIIGFTTIRYRNKQHQINGLLDAFRILNTREHRTSRRKVYDLYIEYEKNKDVRTFDNSPEVVDVRADFDVIGTLVKSGNINEKLFLIEYGPLAYRCWKYLKNHIEAERKKRNFDPFMMNFESLAGKADNFWLKRGYDLSKTLLFPPNDAERI*
JGI26133J50247_101785JGI26133J50247_1017852F059823MADRQTDPPSSDRPSRPSDSGKTQKRLKPEQYELKVRWETARQVLEVTPTGVRFDFNAPLKVGTRYPVSLKAPGVAFSTTIEVSRCQLTVDSATGRFFRVTGRF
JGI26133J50247_102078JGI26133J50247_1020781F081899MNKGILLITVILFFPAPGLASLSEAHKADELRDYVTAAKEFWPLRSDLERAVDSCTQSVHRDEPDFEAYNEGSSVILFGATPESRFQFHKCMSKKGYPLMKTTK*
JGI26133J50247_102293JGI26133J50247_1022931F026242MRHEEACLGMFVRLLSDWHGIPKGTVGSIDTVETGMDGSWCFTIFWELHRPLSSAMPGRTRTRTGLQSGSLGLRLWEEDLPRFEVITQEQKAMAALLVAPPADTSNPTTLSLFPPQAVEQLTLPFTDGELVEDDQPQL
JGI26133J50247_102439JGI26133J50247_1024391F098876KKEFNQLSKYVIEPVMRKFESYLESKDVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRXIKSCFDKDWQSFYS*
JGI26133J50247_103336JGI26133J50247_1033362F059221MPFEYLPVMAHNSAPKPPRVIATPKRRAWCPITKPLNESRVALLSSAALRLANQEPFIPREDLSYRRVPSDPTS
JGI26133J50247_103519JGI26133J50247_1035191F033614FNPSTFKVGDGSSRPTLHPLSFDVKWEWSAVDPNIIYFINGTQLAKYNKSTHVVTNLGGRGVSLKYHVVVVGLDAWVCAAGPGTQNTYRQIFCLNPRNPSQTKFIDILKRTINGVYQSDPNWPTSAPYQTIGIHAMYGSATGTWLDVGFHRASWGAGGDSVFNLSTNKWSLMKANRYSXGHS
JGI26133J50247_103858JGI26133J50247_1038581F062531VTPPLNWEPSPTNNSTTMIWFQNSTKSIFAITKAPDDLVFPLFXAGPFMTGYLKYKGVLESADRLTFGHSNYGYRYFLNLSSPSKLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLILTQKHKELYAIIFLNPKEKFDSMFKS
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