Sample 3300003382

Basic Information
IMG/M Taxon OID	3300003382 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110179 \| Gp0089078 \| Ga0008480
Sample Name	Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M1 S AM
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M1 S AM

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	13561563
Sequencing Scaffolds	25
Novel Protein Genes	26
Associated Families	25

Dataset Contents

Total Genome Size

13561563

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea	17
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	2
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	1
Not Available	3
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Archaea

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon

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

Not Available

All Organisms → cellular organisms → Bacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium

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

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

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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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

Zoom:

Family	Category	Number of Sequences	3D Structure?
F002896	Metagenome / Metatranscriptome	522	N
F005305	Metagenome / Metatranscriptome	405	N
F005683	Metagenome / Metatranscriptome	393	Y
F005950	Metagenome / Metatranscriptome	385	Y
F007651	Metagenome / Metatranscriptome	347	N
F008438	Metagenome	333	Y
F013020	Metagenome / Metatranscriptome	275	N
F013352	Metagenome / Metatranscriptome	272	Y
F014557	Metagenome / Metatranscriptome	262	Y
F017423	Metagenome / Metatranscriptome	241	N
F019548	Metagenome / Metatranscriptome	229	N
F023901	Metagenome / Metatranscriptome	208	N
F023903	Metagenome / Metatranscriptome	208	N
F026602	Metagenome / Metatranscriptome	197	N
F032670	Metagenome / Metatranscriptome	179	N
F037482	Metagenome	168	Y
F041299	Metagenome	160	N
F048397	Metagenome / Metatranscriptome	148	N
F057150	Metagenome	136	N
F062531	Metagenome	130	N
F078854	Metagenome	116	Y
F081936	Metagenome / Metatranscriptome	114	N
F083875	Metagenome / Metatranscriptome	112	N
F090038	Metagenome	108	N
F100610	Metagenome	102	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
JGI26139J50223_100002	All Organisms → cellular organisms → Archaea	14928	Open in IMG/M
JGI26139J50223_100029	All Organisms → cellular organisms → Archaea	7222	Open in IMG/M
JGI26139J50223_100090	All Organisms → cellular organisms → Archaea	4512	Open in IMG/M
JGI26139J50223_100148	All Organisms → cellular organisms → Archaea	3529	Open in IMG/M
JGI26139J50223_100150	All Organisms → cellular organisms → Archaea	3509	Open in IMG/M
JGI26139J50223_100249	All Organisms → cellular organisms → Archaea	2500	Open in IMG/M
JGI26139J50223_100255	All Organisms → cellular organisms → Archaea	2466	Open in IMG/M
JGI26139J50223_100345	All Organisms → cellular organisms → Archaea	1993	Open in IMG/M
JGI26139J50223_100391	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	1797	Open in IMG/M
JGI26139J50223_100436	All Organisms → cellular organisms → Archaea	1646	Open in IMG/M
JGI26139J50223_100468	All Organisms → cellular organisms → Archaea	1556	Open in IMG/M
JGI26139J50223_100488	All Organisms → cellular organisms → Archaea	1498	Open in IMG/M
JGI26139J50223_100547	All Organisms → cellular organisms → Archaea	1370	Open in IMG/M
JGI26139J50223_100590	All Organisms → cellular organisms → Archaea	1274	Open in IMG/M
JGI26139J50223_100662	All Organisms → cellular organisms → Archaea	1131	Open in IMG/M
JGI26139J50223_101005	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	877	Open in IMG/M
JGI26139J50223_101219	All Organisms → cellular organisms → Archaea	782	Open in IMG/M
JGI26139J50223_101386	All Organisms → cellular organisms → Archaea	731	Open in IMG/M
JGI26139J50223_101538	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	695	Open in IMG/M
JGI26139J50223_102136	Not Available	595	Open in IMG/M
JGI26139J50223_102396	All Organisms → cellular organisms → Bacteria	568	Open in IMG/M
JGI26139J50223_102542	Not Available	556	Open in IMG/M
JGI26139J50223_102810	All Organisms → cellular organisms → Archaea	536	Open in IMG/M
JGI26139J50223_103021	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	522	Open in IMG/M
JGI26139J50223_103413	Not Available	500	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI26139J50223_100002	JGI26139J50223_10000214	F032670	VIYILKLYLDLPLPNLFMKCGICKEEIIKEKRREHLRYHKLDDTLVEWIIETDDDLISSYEKH*
JGI26139J50223_100029	JGI26139J50223_1000299	F090038	MAFLSKKLSQXLLNLDIDEGIRIESNKNIKCKMYINKRTSGYFVLEIEDTNSTNIKEFRFYRDIKPIHRLIDKIFGKQYSITIY*
JGI26139J50223_100090	JGI26139J50223_1000901	F062531	VTPPLNWEPSPTNNSTTMIWFQNYTKSIFAITKAPDDLVFPLFIAGPFMTGYLKYKGVLESADRLTFGXSNYGYRYXLNLSXPSKLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLILTQKHXELYAIIFLNPKEKFDSMLNQIQPTLDSIQLSG*
JGI26139J50223_100090	JGI26139J50223_1000904	F100610	MPVIISLFGNEDMEISEFPLTNKSVFYRCSYGECFRFIADKCMHCCANPIPDTEMHINYLRRLPDIKKAVTDLGI*
JGI26139J50223_100148	JGI26139J50223_1001487	F081936	LLDRKLNAKKPSPPNVEASVNPKVEQLAHVLEITLIVVPDSADLLNFNLRFLIIYRLKFTKIAIRTELIQVKINASIISLGT*
JGI26139J50223_100150	JGI26139J50223_1001505	F026602	MISLTLASMHVFAGRIYAIEQPSKMEGINEEECNKIFNCKIISEDVLKYPDIVNPFTKNEDIAKTLVNNANDSKIMTEHTCQKLMDVDIVKKKDQKISEQTPKYLVCLP*
JGI26139J50223_100249	JGI26139J50223_1002494	F048397	LEKNKCDKCNLTIHPNFMGNHKCDHQNCPICKNPITPSQYWPHIRSHPGHENDSPPLPKRNMFENRKNENHSGYGNYQRN*
JGI26139J50223_100255	JGI26139J50223_1002554	F007651	MLRNHSNYMSNDLNELIARKDKLEGELHHELSSDYNELMKNLSESFRDMHENSVQYYKQKANEELDKMEKNIQSGNKLSAINQKLLADTYXSFATTI*
JGI26139J50223_100345	JGI26139J50223_1003452	F023901	MRSTHNEQGQTCEGGVPLDPKKFGGYEFAINTKGWDAKREPTHNCHDQHKSGLIPTNLENDKAVRLRQTVKDESGKVHQIGEIDYMDGNGFHKVMDIFDSSPNPWMVDRNLYETKSYFWIRNNGSGYITVRDVSLEILS*
JGI26139J50223_100391	JGI26139J50223_1003911	F041299	VYSPVFDEIDYRMKSQAKSTLLAIIIPSCIAILLFYIGAYFHPDIFSLLNGLPGVIILSGSVIVVTKLLCYTKLERSEMQKFKPLILGIVCFLIGETFYFYQQYFLQIDIPYPSVADVPYLLASFFFSYFLISCVFSLLDRKNLSPLPIILGSPIAIFPIYLTLSSAYDLAINESTELEFIVNALYYIFDGLMLVTAVIIILNLKKYDPFIFHWICITVGLILLVIGDVGYTYFSIISESLIEEYEWLWSILYAIGYLFLGIGIYWFDRIKNTLEDKKINVFLEKDEMDRLKNSSKNELIADTGTEFSEHIIGYEKFVDKLKDYLERSKEIKILFYDKYWLSDEEVNLILEKIQQGAFFTQIQVNILLPSSETIFKNLVSHNDNRHILVSFFDRTFSSDSLVFIFEEKYVAIIDRKPTSESVDSDTVFYGLITNNDTIVWPHITTFEKIWVLEKAVNM*
JGI26139J50223_100436	JGI26139J50223_1004361	F017423	VIFFLSFTLFIPNANSSFALQYTNYLSEKYQIAFQYPSDWTIKEKSNKLEEGTEIDVSNKKIGDGKIGIHFYDDLLEGFGSTDLEFAFSDFYKHRITDDLKFEYKTIQPPSLLEIDGHKTGSFHIMFSQKDEIDPISGEVQYWITFVGENGYMIEFLSIPENFDTPDNTEMRDRFISSINFLGLSNTTDTSGRISSVAMSY*
JGI26139J50223_100468	JGI26139J50223_1004683	F005305	MEDLEKELGPLIENFQNLVKDAKSKKLESLREDEDFKKEFNQLSKXVIEPVMRKFESYLESKXVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRLIKSCFDKDWQSFYS*
JGI26139J50223_100488	JGI26139J50223_1004882	F013352	MKYTLPGKLLTNSIDKYFPECLTKNSHFASQFSSPPCLSIAIAGFLFSLMASSTNAQIEVTVDENVSTPISNSTLSEDAEPRPDILYSALNKDTIVGEVLNNFSYPIELVRITATVYDKNGIIVATGDKYVNDYLIKPGSRSGFDIFLDETLPSKSKYALTTSFEKSEDDKPEVLQLSVGKNSKSSNTFRVLGEVMNQGKNDANAVKVSAIFYDEKHKVTDTDYVFTNPDIISPNKKAPFEFSFYVDNPEKIKSMAFNVQSDEFSLITDNGQNNTISQQ*
JGI26139J50223_100547	JGI26139J50223_1005471	F002896	MDKMNEDTILHFYRILENSLLESDISKINEEDIDAWSQSFKKVVRESREKSGKGVFVPFLMWKLGEXSPVEAXKYLVNRKQDECRVSYDHNNVEYILRVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQDLYNECVKTFKDLLIHSDAQHH*
JGI26139J50223_100590	JGI26139J50223_1005901	F078854	LSPRFGFFKRKTPDYFHDKESQANSVHSVSNKELLEIVENEKKVLQKDLIDNLEPTRNLVLDCLNRLRKNADELEEQEIKAESPQFESLINTSKKILITSIKKESLIESYQIKSYE
JGI26139J50223_100662	JGI26139J50223_1006621	F005683	MEKSNGTKIMGILLVFGLVVYSIYFGQISFAEGVELKTVGKGAISCGNGEEVKGVRINFFVSYDEETPFAEWNMDHKELGSAGGMITNVKTSSDSFVLKGFEAFDSICDVETPSDVKLSGNCGEGTVRLVSDNGNKGTFASNVKCG*
JGI26139J50223_101005	JGI26139J50223_1010052	F005950	MTNGKNKIKVKIHRTSDYDDKYTGIRDFPDEKAMLQYGLSKVHKVIIRKYMKDDEFITRAQKTRGIKFDYEMELYD*
JGI26139J50223_101219	JGI26139J50223_1012191	F062531	GPFMTGYLKYKGILESSDQLDFGQNNHGYQYFLNLSSPSKLLDSSSGLIPANDFLQEIPEGYDIPYKGMLILTEKHSELYAIILLSPKDNFDSVLNEINQTLDSIRLTIYTKMEN*
JGI26139J50223_101386	JGI26139J50223_1013861	F057150	MFKMKHMKIAIFVLAVSILGTSALIVNSGNMAYAQGNNTQGNVTTTIDADSLIKDLKARHPILAQLVTNEDKDLVVKFKDLDTKEAVKTALALNMLHLLQQYREI
JGI26139J50223_101538	JGI26139J50223_1015381	F014557	RAMTRRQFLARLARASAAATLVSSTLGCGRVRGAIARLGSTEEPIFNSVQEEVVEKIIDGFNPPDTEIRQRLAREDPDYDPVAVYAQYAWASGDEFLASMRFLVDFVNVLPTFTRTFSTRYGLPARLELRRFHPVDANRYFLFLRDSNIRALRNIFSGARFIGTAPIYVNEKVTWKAMNYPGPWVRETDGATADLGRTTSFDMAEETEDNVAALRRRIVRHDALGGGLEAA
JGI26139J50223_102136	JGI26139J50223_1021361	F023903	MVDLMINHEGKXCDXCGDSVDRLVPLNDPTRIGRWWCLKCIYKEGKAKFDADAKNG*
JGI26139J50223_102396	JGI26139J50223_1023961	F037482	FEPTKPLDHQSSVKLKSWATELPAVQVGFSPTCQMHGYSGLWQTEITYQVWRRIQFKDPDYAALSGKTILQISPDGDGGTGCFFGNFQVQIGSCYAEFEISDRVIDVKVLGDGSMKIRNGLQSRQRIRLEGDPPQRDGFEPDLRGAREIDLTIHCPPDEPGVLRGHLSSDVGGNIYSKATGKWYR*
JGI26139J50223_102542	JGI26139J50223_1025421	F019548	SQKGGILFILHKSFSSDSKPPEEQISVVRDDERKSAIFEINLGTMAGLSMLCECEKALADQVMSLDFLDSGIEGDVIWFGGMLDKSGSEFIGSTYDDGLKSAPVEQSELVHRVNQAIDKCLEYMLNSVELDKKVYVDASDRMSGYVKLTRIGEHIREIYPDLFIDNNTKSE*
JGI26139J50223_102810	JGI26139J50223_1028101	F013020	KKEQLKLDGLNKIFGWIEDKETKAVIINKYHNNKEHRVALKAFLDDMVKALDESTAETNSKEEIKRQLSYIK*
JGI26139J50223_103021	JGI26139J50223_1030211	F008438	EAGKVTLLAMQVTDNAIQSLITKRVAATLLAPPYVQELEAKGYVKLAEARTYAPLSFIGLISATDTVKKTPQKVYGMIAALHRTMNYILDPANRNEVVQYVSTYHKIDLGLAEKAFAAQMLGYSKDGTKPRSAVEKEIEIYRASLKIAKTFRPDDLEDMSFLRKVQGR*
JGI26139J50223_103413	JGI26139J50223_1034131	F083875	MKGIFRAACLAILIAPAISAAQEYGCDKVNWGEEVLKAFPNASKGCHSVMMKNNQPYAKYVAEVESVDKSTKEVTLHMLDTKDKAFSKVVIAPKEGASVKIDGKDTPVAKLKKGDRVSFYIPHDRWGLYSDPDSTPIXIXSREDL*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003382: Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M1 S AM

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences