Sample 3300003396

Basic Information
IMG/M Taxon OID	3300003396 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110179 \| Gp0089076 \| Ga0008478
Sample Name	Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M3 PM
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 M3 PM

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	11973419
Sequencing Scaffolds	25
Novel Protein Genes	25
Associated Families	23

Dataset Contents

Total Genome Size

11973419

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea	16
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	2
Not Available	5
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Archaea

All Organisms → cellular organisms → Bacteria

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

Not Available

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae

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
F005683	Metagenome / Metatranscriptome	393	Y
F005950	Metagenome / Metatranscriptome	385	Y
F006898	Metagenome / Metatranscriptome	362	Y
F007651	Metagenome / Metatranscriptome	347	N
F010126	Metagenome / Metatranscriptome	308	Y
F010272	Metagenome / Metatranscriptome	306	Y
F011965	Metagenome	285	Y
F013352	Metagenome / Metatranscriptome	272	Y
F016054	Metagenome	250	Y
F017423	Metagenome / Metatranscriptome	241	N
F026602	Metagenome / Metatranscriptome	197	N
F033614	Metagenome / Metatranscriptome	177	Y
F048397	Metagenome / Metatranscriptome	148	N
F057150	Metagenome	136	N
F057496	Metagenome / Metatranscriptome	136	N
F057659	Metagenome	136	Y
F063100	Metagenome	130	N
F065259	Metagenome / Metatranscriptome	128	Y
F081936	Metagenome / Metatranscriptome	114	N
F087678	Metagenome / Metatranscriptome	110	Y
F089091	Metagenome / Metatranscriptome	109	N
F100606	Metagenome	102	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
JGI26137J50245_100031	All Organisms → cellular organisms → Archaea	7517	Open in IMG/M
JGI26137J50245_100136	All Organisms → cellular organisms → Archaea	3392	Open in IMG/M
JGI26137J50245_100225	All Organisms → cellular organisms → Archaea	2502	Open in IMG/M
JGI26137J50245_100273	All Organisms → cellular organisms → Archaea	2244	Open in IMG/M
JGI26137J50245_100288	All Organisms → cellular organisms → Archaea	2158	Open in IMG/M
JGI26137J50245_100299	All Organisms → cellular organisms → Bacteria	2109	Open in IMG/M
JGI26137J50245_100316	All Organisms → cellular organisms → Archaea	2043	Open in IMG/M
JGI26137J50245_100486	All Organisms → cellular organisms → Archaea	1425	Open in IMG/M
JGI26137J50245_100552	All Organisms → cellular organisms → Archaea	1290	Open in IMG/M
JGI26137J50245_100600	All Organisms → cellular organisms → Archaea	1221	Open in IMG/M
JGI26137J50245_100883	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	956	Open in IMG/M
JGI26137J50245_100910	All Organisms → cellular organisms → Archaea	937	Open in IMG/M
JGI26137J50245_101175	Not Available	810	Open in IMG/M
JGI26137J50245_101395	All Organisms → cellular organisms → Archaea	744	Open in IMG/M
JGI26137J50245_101443	Not Available	731	Open in IMG/M
JGI26137J50245_101521	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	713	Open in IMG/M
JGI26137J50245_101648	All Organisms → cellular organisms → Archaea	689	Open in IMG/M
JGI26137J50245_101792	All Organisms → cellular organisms → Archaea	662	Open in IMG/M
JGI26137J50245_101989	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae	630	Open in IMG/M
JGI26137J50245_102315	All Organisms → cellular organisms → Archaea	592	Open in IMG/M
JGI26137J50245_102712	Not Available	556	Open in IMG/M
JGI26137J50245_102919	Not Available	539	Open in IMG/M
JGI26137J50245_103042	All Organisms → cellular organisms → Archaea	531	Open in IMG/M
JGI26137J50245_103045	All Organisms → cellular organisms → Archaea	531	Open in IMG/M
JGI26137J50245_103053	Not Available	530	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI26137J50245_100031	JGI26137J50245_1000314	F081936	LLDRKLDAKKPSPPNVEASVNPKVEQLAHVLEITLIVVPESADLLNFNFRFLIIYRLKFTKIAIRTELIQVKINASIISLGT*
JGI26137J50245_100136	JGI26137J50245_1001362	F013352	MKYTLPGKLLTNSIDKYFSEYLAKNWHSASQFSRLPCLSIAIAGFLFSLMSSSTNAQIEVTVDENVSNPIFNSILSEDAEPRPDILYSTLNKDTIVGEVLNNFSYPIELVRITATVYDKNGIIVATGDKYVNDYLIKPGSRSGFDIFLDETLPSKSKYALTTSFEKSEDDKPEALQLSVGKNSKSSNTFRVLGEVMNQGKNDANAVKVSAIFYDEKHKVTDTDYVFTNPDIISPNKKAPFEFSFYVDNPEKIKSMAFNVQSDEFSLITDNGQNNTISQQ*
JGI26137J50245_100225	JGI26137J50245_1002254	F026602	LNNQIIAIGFILISLTLASMHVFAGRLYAIEQPSKMEGINEEECNKIFNCKIISEDVLKYPDIVNPFNKNEEIAKTLNANDAQIMTEHTCQKLMDVDIVKKKDQKIGEQAPKYLVCLP*
JGI26137J50245_100273	JGI26137J50245_1002733	F100606	MLRNHSNYMSNDLNELIARKDKLEGELHHELSSDYNELMKNLSESFRDMHENSVQYYKQKANEELDKMEKNI
JGI26137J50245_100288	JGI26137J50245_1002881	F005683	MGILLVFGLVVYSIYFGQISFAEGVELKTVGKGAISCGNGEEVKGVRINFFVSYDEETPFAEWNMDHKELGSAGGMITNVKTSSDSFVLKGFEAFDSICDVETPSDVKLSGNXGEGTVRLVSDNGNKGTFASNVKCG*
JGI26137J50245_100299	JGI26137J50245_1002993	F010126	MNLFTSRLLTICGLISTALLFQIMISSNLVVAIESSESNTNKISSGSELESIVTNGSSTNQLAYRNSQHGIFMLFPSNWTFSDSGLPEYTQVAAFYGPLQNLSDPIPPRLTITVMNYQQNVSLKDFTNMTLSSLNQTNQVKILSSEPTTLAGXPGYQVVFSTLPNIGNPVSFEIMHSWISMGKKIYVLQYSAESSKFDTYLPTIKQILQSLRIDTTR*
JGI26137J50245_100316	JGI26137J50245_1003161	F007651	MSNDLNELIARKDKLEGELHHELSSDYNELMKNLSESFRDMHENSVQYYKQKANEELDKMEKNIQSGNKLSAINEKLLADTYLSFATTI*
JGI26137J50245_100486	JGI26137J50245_1004862	F006898	MYLILTTTLLLFSLFSLPGAFGAEMFKGLSFSIDIPNTWAYTETPEAPIERALGVSSYTSVVLVPVQFAELLIQEKGDIGMGNGSTAIVFAKASDYSVKNAPLDLYVKYRMNEDDSLNVTSQQDTTIGKEKAVRIDGNKNNNASNIRLLEYLLLHNDEPYVIRYIASMDDFERNLPAFELMVKSFTFGTNTTDSKQT*
JGI26137J50245_100552	JGI26137J50245_1005521	F002896	MDKMNEDTILHFYRILENSLLESDISKINEEDIDAWSQSFKKVVRESREKSGKGVFVPFLMWKLGELSPVEASKYLVNRKQDECRVSYDHNNVEYILRVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQDLYNECVKTFKDLLIHSDAQHH*
JGI26137J50245_100600	JGI26137J50245_1006001	F010272	MYMNHERKLILIAIGAFVTLSLFVFPSTNMIAYSQSENKTQGKEQAQEKLFELAQKFNKILKDSNVNLTLPQNGDLSSKLQELKDSGAFKELSEKFSQAVQELGQGNKTEELKQEAGADLSXLMQKLQSLXNNSTQ*
JGI26137J50245_100883	JGI26137J50245_1008831	F011965	PSLHPLSFAWTWEWSAVDPDIIYFLNGNQLAKYNKVTTLVTNLGGPPNGDTVTMHVAVVGQDSWVCSTAGAGTQNSYTKIYCLNPNNPSQTKFIDVLNKTINGIVQSDPKWPTSAAGQTIGIHSMYGSAAGTWLDVVFLQQSWGANGDSVFNLATNTWSLVTNSDTRWSGHSSMGNGKYVNGSGSINGMDSRGALLRDPNNLMDATKYSFIMQPPSTAGWYDAEHSSWFNSSTNPQAPVLFSRYNCTAPPGPLTWYGEIIAAATDGSNTVWRFAHNHNGGLVGFAGQSFAQISNDGRWALFSSYWDGTLGAAAGDFGF
JGI26137J50245_100910	JGI26137J50245_1009101	F057496	MAGVYRNHTKVAEDHSSAYCKDEYVFGDKGEPLRLSHLIAFNVIEDAEHISGILTVEFDYYSDDDSIKYRDMHYSNPRLIKHIEGNPTVMKNIDAYLRNNLLESEYGLKL*
JGI26137J50245_101175	JGI26137J50245_1011752	F065259	MALALADLLGTPAEGTDLNRNIEIGNKATGASSAIAAGRVVVLDESNGLWGIAGTTSSGRFGIVPKTHPLNVDADDAIQVATGKNSEWYVEAAGTIKPGARCGPYTGGKVIQFVAGDVTATPTEATIEAAIKDFEQAPFVYTGHYGEGSGLFNNPTDGSSGQAVRV
JGI26137J50245_101395	JGI26137J50245_1013952	F057659	MKVFWAFVIIILVFVTTLPVEHRVIPSISGENLSCINSNITKFGNQSINLSIMSEEYFKNXTSDNPQLAQLICPDIINYTTK*
JGI26137J50245_101443	JGI26137J50245_1014431	F065259	MALALADLLGTPADGTDLDRXIEIGIKATGSSSAVAAGRVVVLDESTGVWAIAGSSSTGRFGIVPKLHPLNVDADEAIQVATGKNSAWYVEAQGTIKPGARVGPYTGGKVQQFVAGDVTATPTEATIEAAIKDFEQAPFVYEGHYGEGSGLYNVPTDATTADPVRVRII*
JGI26137J50245_101521	JGI26137J50245_1015211	F033614	TALKLHGPWGTSYWLEFNPSTFKVGDGSSRPTLHPLSFDVKWEWSAVDPNIIYFINGTQLAKYNKSTHVVTNLGGRGVSLKYHVVVVGLDAWVCAAGPGTQNTYRQIFCLNPRNPSQTKFIDILKRTINGVYQSDPNWPTSAPYQTIGIHAMYGSATGTWLDVGFHRASWGAGGDSVFNLSTNKWSLLKANRYSSGHSSIGTRFVNGSGSINGMYSGGACVRNPSNLMDSTQFKFIM
JGI26137J50245_101648	JGI26137J50245_1016481	F005950	MTNGKNRIKVKIHRTSDYDDKYTGIRDFPDEKAMLQYGLSKVHKVIIRKYMXDDEFITRAQKTRGIKFDYEMELYD*
JGI26137J50245_101792	JGI26137J50245_1017921	F017423	VTFFLSFTLFIPNVNSSFALEYTNYLSEKYQIAFQYPSDWTIKEKSDKLEEGAEIEVSNKKIGDGKIEINFYDDLLEGFGSTDFDFAFSDFYKHRITEDLKFEYKTIQPPSLLEIDGHKTGSFHIIISQKDEIDPISGEVQYWITFVGENGYIIKFLSIPENFDTPDNTEMRDH
JGI26137J50245_101989	JGI26137J50245_1019891	F048397	HNSTIFRAILEKNKCDKCNLTIHPNFIGNHKCDHQNCPICKNPITPSQYWPHIRSHPGHENDSPPLPKRNMFENRKNENHSGYGNYQRN*
JGI26137J50245_102315	JGI26137J50245_1023151	F016054	MVQSLLENEKEPDVYELGVAEGIKEMLALRGFTKEKILNSTVSNLAETLQIDYYVALIXYNSAKKN*
JGI26137J50245_102712	JGI26137J50245_1027121	F089091	EPCNLLKPLIHLPRFSHKHEVFMYRDLALPLLVVGVMGCTSVQYNEVDCGTLPSDTFWSGNIALQCQEYRRLQAETAYRAEVAQSLRSYRECLSKHEGSLTGAKEQCSVYTQGLRDSPGASPPTK*
JGI26137J50245_102919	JGI26137J50245_1029191	F063100	VLPTTFSDRFQQMMSAKLVELRKESSIEFSKAEADAARRGEVSASSTAGLRSQVDIHLVKKIIAAAVVLLTELISELQIPFSDSLAGELKDQVKAYVSNEQCEDLHRMNRGGISEQHAARLKEELYVNRSFFLKRADAQIDLFVDSL
JGI26137J50245_103042	JGI26137J50245_1030421	F057150	ALIVNSGNMAYAQGNNTQGNVTTTIDADSLIKDLKARHPILAQLVTNEDKDLVVKFKDLDTKEAVKTALALNMLHLLQQYREIDEPQ*
JGI26137J50245_103045	JGI26137J50245_1030451	F010126	PTANINKTNYDYQLEPNVTDGNTINEIAYKNPQHGIFMLFPSNWTFSTSGLPEYNQIAAFYAPLQNLSDPIPARLTIAVMSYEQNISLKDFTNMTISSINQTGQVRISSSDPTTLAGRPGHQLVFSTLPNIGNPISFEILHSWTVVDNKIYVFQYSAESARFNSYLPTVKHILETL
JGI26137J50245_103053	JGI26137J50245_1030532	F087678	MTVITPPDKAGFYWFRYDNLSSKVHYKVLLEVVQMQPQPTEIGGKFVVRWMNQLVPLEQMPEGLWRGPIADLR*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003396: Arabidopsis thaliana rhizosphere microbial communities from the Joint Genome Institute, USA, that affect carbon cycling - Inoculated plant M3 PM

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences