Sample 3300003400

Basic Information
IMG/M Taxon OID	3300003400 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110179 \| Gp0089070 \| Ga0008472
Sample Name	Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M1 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 AM

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	16150598
Sequencing Scaffolds	22
Novel Protein Genes	25
Associated Families	24

Dataset Contents

Total Genome Size

16150598

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea	11
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	3
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria	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 → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria

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
F006898	Metagenome / Metatranscriptome	362	Y
F007651	Metagenome / Metatranscriptome	347	N
F011965	Metagenome	285	Y
F012397	Metagenome	281	Y
F013352	Metagenome / Metatranscriptome	272	Y
F015243	Metagenome / Metatranscriptome	256	Y
F020931	Metagenome / Metatranscriptome	221	Y
F041481	Metagenome	160	N
F048397	Metagenome / Metatranscriptome	148	N
F057150	Metagenome	136	N
F057496	Metagenome / Metatranscriptome	136	N
F057659	Metagenome	136	Y
F067257	Metagenome / Metatranscriptome	126	Y
F070180	Metagenome	123	N
F073748	Metagenome	120	N
F075479	Metagenome	119	N
F077482	Metagenome	117	N
F086321	Metagenome	111	N
F088429	Metagenome	109	N
F089578	Metagenome / Metatranscriptome	109	Y
F100610	Metagenome	102	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
JGI26131J50246_100114	All Organisms → cellular organisms → Archaea	3920	Open in IMG/M
JGI26131J50246_100162	All Organisms → cellular organisms → Archaea	3331	Open in IMG/M
JGI26131J50246_100286	All Organisms → cellular organisms → Archaea	2190	Open in IMG/M
JGI26131J50246_100302	All Organisms → cellular organisms → Archaea	2040	Open in IMG/M
JGI26131J50246_100310	All Organisms → cellular organisms → Archaea	1996	Open in IMG/M
JGI26131J50246_100339	All Organisms → cellular organisms → Archaea	1862	Open in IMG/M
JGI26131J50246_100378	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → unclassified Nitrosopumilales → Nitrosopumilales archaeon	1707	Open in IMG/M
JGI26131J50246_100399	All Organisms → cellular organisms → Archaea	1620	Open in IMG/M
JGI26131J50246_100451	All Organisms → cellular organisms → Archaea	1511	Open in IMG/M
JGI26131J50246_100567	All Organisms → cellular organisms → Archaea	1266	Open in IMG/M
JGI26131J50246_100690	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	1080	Open in IMG/M
JGI26131J50246_101070	All Organisms → cellular organisms → Archaea	838	Open in IMG/M
JGI26131J50246_101117	Not Available	821	Open in IMG/M
JGI26131J50246_101169	All Organisms → cellular organisms → Archaea	803	Open in IMG/M
JGI26131J50246_101408	Not Available	735	Open in IMG/M
JGI26131J50246_102020	Not Available	634	Open in IMG/M
JGI26131J50246_102159	Not Available	620	Open in IMG/M
JGI26131J50246_102873	Not Available	560	Open in IMG/M
JGI26131J50246_103157	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	541	Open in IMG/M
JGI26131J50246_103477	Not Available	526	Open in IMG/M
JGI26131J50246_103621	All Organisms → cellular organisms → Bacteria → Proteobacteria	518	Open in IMG/M
JGI26131J50246_104020	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	501	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI26131J50246_100114	JGI26131J50246_1001144	F012397	VSVRIKRNKNNKKGVRWNRILILIVLVTTLSLLSGPSLSFSEIKNEINVTPPLNWEPSPTNNSTTMIWFQNYTKSIFAITKAPDDLVFPLFIAGPFMTGYLKYKGVLESADRLTFGHSNYGYRYFLNLSSPSKLLDSSSGLIPKNEFLSKIPEGYDVPFKGMLILTQKHNELYAIIFLNPKEKFDSMLNQIQPTLDSIQLSG*
JGI26131J50246_100114	JGI26131J50246_1001147	F100610	MMPVIISLFGNEDMDITEFRLTNKSVFYRCSYGECFRFIADKCMHCFANPIPDTEMHINYLRRVPDIKKAVTDLGI*
JGI26131J50246_100162	JGI26131J50246_1001622	F007651	MSNDLNELIARKDKLEGELHLELSSDYNELMKNLSESFRDMHENSVQYYKQKANEELDKMEKNIQSGNKLSAINQKLLADTYLSFATTI*
JGI26131J50246_100162	JGI26131J50246_1001625	F005305	MEDLEKELGPLIENFQNLVKDAKSKKLESLREDEDFKKEFNQLSKDVIEPVMRKFESYLESKDVNSSVHIQSQIVAGKNPSIEFSLHLKLTHESRYPNIKFSSSGEKISVQEDRLMTKDEVSQDMIPEYYDKELITEEFVKERLIRLIKSCFDKDWQSFYS*
JGI26131J50246_100286	JGI26131J50246_1002864	F002896	MDKMNEDTILHFYRILENSLLESDISKINEEDIDAWSQSFKKVVRESREKSGKGVFVPFLMWKLGELSPVEASKYLVNRKQDECRVSYDHNNVEYILWVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQDLYNECVKTFKDLLIHSDAQHH*
JGI26131J50246_100302	JGI26131J50246_1003021	F013352	MKYTLPGKLLTNSIDKYFPECLTKNSHFASQFSSPPCLSIAIAGFLFSLMASSTNAQIEVTVDENVSTPISNSTLSEDAEPRPDILYSALNKDTIVGEVLNNFSYPIELVRITATVYDKNGIIVATGDKYVNDYLIKPGSRSGFDIFLDETLPSKSKYALTTSFEKSEDDKPEALQLSVGKNSKSSNTFRVLGEVMNQGKNDANAVKVSAIFYDEKHKVMDTDYVFTNPDIISPNKKAPFEFSFYVDNPEKIKSMAFNVQSDEFS*
JGI26131J50246_100310	JGI26131J50246_1003102	F075479	MMVDINSEYARAMIRDFIKIQKDILGLPNLTTKQKDDINSLGHELGALSSQADDDKIKTGLIDMMNRLX*
JGI26131J50246_100339	JGI26131J50246_1003392	F006898	MYLILTTTLLLFSLFSLPGAFGAEMFKGLSFSIDIPNTWAYTETPEAPIERALGVSSYTSVVLVPVQFAELLIQEKGDIGMGNGSTAIVFAKASDYSVKNAPLDLYVKYRMNEDDSLNVTSQQDTTIGKEKAVRIDGNKNNNASNIRLLEYLLLHNDEPXVIRYIASMDDFERNLPAFELMVKSFTFGTNATDSKQT*
JGI26131J50246_100378	JGI26131J50246_1003781	F070180	VYSPVFDEIDYRMKSQAKSTLLAIIIPSCIAILLFYIGAYFHPDIFSLLNGLPGVIILSGSVIVVTKLLCYTKLERSEMQKFKPLILGIVCFLIGETFYFYQQYFLQIDIPYPSVADVPYLLASFFFSYFLISCVFSLLDRKNLSPLPIILGSPIAIFPIYVTLSSAYDLAINESTELEFIVNALYYIFDGLMLVTAVIIILNLKKYDPFIFHWICITVGLILLVIGDVGYTYFSIISESLIEEYEWLWSILYAIGYLFLGIGIYWFDRIKNTLEDKKINVFLEKDEMDRLKNSSKNELIADTGTEFSEHIIGYEKFVDKLKDYLERSKEIKILFYDKYWLSDEEVNLILEKIQQGAF
JGI26131J50246_100399	JGI26131J50246_1003992	F005683	MEKSNGTKIMGILLVFGLVVYSIYFGQISFAEGVELKTVGKGAISCGNGEEVKGVRINFFVSYDGGTPFAEWNMDHKELGSAGGMITNVKTSSNSFVLKGFEAFDNICDVETPSDVKLAGNCGEGTVS
JGI26131J50246_100451	JGI26131J50246_1004511	F057150	MFKMKHMKIAIFVLAVSILGTSALIVNSGNMAYAQGNNTQGNVTTTIDADSLIKDLKARHPILAQLVTNEDKDLVVKFKDLDTKEAVKTALALNMLHLLQQYREIDXPQ*
JGI26131J50246_100567	JGI26131J50246_1005672	F048397	DQCRYQYIFIVHNSTIFRAILEKNKCDKCNLTIHPNFIGNHKCDHQNCPICKNPITPSQYWPHIRSHPGHENDSPPLPKRNMXENRKNENHSGYGNYQRNXSRIILFFKVXKVNLCPSIYP*
JGI26131J50246_100690	JGI26131J50246_1006901	F041481	IKLMTTTGKSWWVEFDPVNFKVGDGSSRPTLHQLNFNYKWEWSAVDPDVLYFLNGNQLSKYSKSAEVVTHLGGPPSGEPVTYHVAVVGQDSWVCSAAGAGAQGTYTKLFCLNPNSPSQSKFIDIANRTINGISQVDSNWPTGQKIGIHSIFGSAGGTWLGVIFHGQSWGKGVAVLNLATNSWSLATGVLHQSGHPCLGHGRYVNGSGSTNGKDSRGAILRDPDHLMDSSRQKFLMQPELTIGWHDAEHSSWFNASTNXDAPILFSRYNITKPPSPLPWYGEIIMAATDGSNTVWRFAHNHNGGGSFYGQSFAQISNDGRWALFSSYWDGTLGASTNSDSGMSTRLDTFIVELVPAERSL
JGI26131J50246_100763	JGI26131J50246_1007631	F057659	MKVFWAFVIIILVFVTTLPVVHRVIPSISGENLSCINSNITKFGNQSINLSIMSEEYFKNLTSDNPQ
JGI26131J50246_101070	JGI26131J50246_1010701	F088429	RLPKCTPEPQPETNASLNXPEPQPETNASEIVTPRSIDLNITVGKDPIARSENQMVTVVALDPTTGKVLDRVFIKLEIKDPVGILVKNYTGTVGNLTRTFKIGENAIGTFIISATASQAGFQSTKSLPFQVQ*
JGI26131J50246_101117	JGI26131J50246_1011171	F077482	MSIMPKWMNWLPHQWYASTLVLPIVILAYPSLRCGEAYELLLDRELSALDQFYAGWGTVIRMDENSEGQGPKDTMQDNEYRPAGGIKKFAEPTIQLRGTAEKIGLDRQSLSSFIGTKFLNEFAFLQSDFVFEKTYQTWEIGIFECETWTVGVNYPIAFHVQCAGGSMDEPREWHYASLGYGPADKTSETVRGTLDAIIQEYATFVRKASGKD*
JGI26131J50246_101169	JGI26131J50246_1011692	F057496	KVAEDHSSAYCKDEYVFGDKGEPLRLSHLIAFNVIEDAEHISGILTVEFDYYSDDDSIKYRDMHYSNPRLIKHIEGNPTVMKNIDAYLRKNLLESEYGLKL*
JGI26131J50246_101408	JGI26131J50246_1014081	F020931	LSPRFGFFKRKTSDNIQDKESEANSVYSVSNKELLEIVEKKKKVLEKDLIDNLEPTRNLVLECLDRLRKNADELEEQEIKAESPQFESLINTSKKILITSIKKESLIESYQIKSYEDAIKFKNNLELLINRFGQVGXSHNRILNEFMRKQINK
JGI26131J50246_102020	JGI26131J50246_1020201	F086321	MNPSKKEIYKILERFTSQKGGILIILHNSFSSDSKPPQEQTSVVRDDERKSAIFEINFGT
JGI26131J50246_102159	JGI26131J50246_1021591	F073748	FTCLIAGLQICLTAPGWSEEVHFGCEYDEEKTHETSTSNSGPERRSTHGEARYTIDWQSKRVQGFSGEYELKFSDAELRIQRKTQNSSGEWLNKASESIIINRYTGEYVFSEKVEGESVKGISRYWYTYKTRKGICKKIDKSLF*
JGI26131J50246_102873	JGI26131J50246_1028731	F067257	PPKLYFLFILYNISILMSETDNQPKNAISLLGNTSAQITYDNMTLLCNQSEYEVAGETYKRRILKPKELVALYKLQEALDKIKDPEKRMQNLYEQAQICLEGVTPQKWENTDAVKMEIVLGACLLISKGFRKI*
JGI26131J50246_103157	JGI26131J50246_1031571	F011965	SAAGQTIGIHAMYGSAAGAWLDVGFVHHSWGVNGDSVFNLSTNTWSLMTNANMYSSGHSSIGAKFVNGCGSINGMYSGGACLRDPSNLMDATQYTFIMQPPSTATGWHDGEHSSWFNASTNPEAPVLFSRYNISTPPSPVPWYGEIIAAATDGSNTVWRFAHNHNGGLVGSYTGQSFAQI
JGI26131J50246_103477	JGI26131J50246_1034771	F015243	MKKTWLQRLFGTRTARDVAPTPLKKEQTLAKINEPDFGGRPRARRTIGLTEERLRAANQQSWITSSKGWSNLFGRFTR*
JGI26131J50246_103621	JGI26131J50246_1036212	F089578	VAKVILVGTDVALLEGLAQTLGGFGHSVSFATTVAEAAGALSDELPALAVVSSQALEEGGFGMTLP
JGI26131J50246_104020	JGI26131J50246_1040201	F011965	VFLQQSWGANGDSVFNLATNTWSLVTNSDTRWSGHSSMGNGKYVNGSGSINGMDSRGALLRDPNNLMDATKYSFIMQPPSTAGWYDAEHSSWFNSSTNPQAPVLFSRYNCTAPPGPLTWYGEIIAAATDGSNTVWRFAHNHNGGLVGFAGQSFAQISNDGRWALFS

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003400: Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M1 AM

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences