Sample 3300002863

Basic Information
IMG/M Taxon OID	3300002863 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061284 \| Ga0006769
Sample Name	Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_12 (Metagenome Metatranscriptome, Counting Only)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

3300002863 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061284 | Ga0006769

Sample Name

Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_12 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	4738910
Sequencing Scaffolds	31
Novel Protein Genes	36
Associated Families	33

Dataset Contents

Total Genome Size

4738910

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
Not Available	22
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → unclassified Nitrosopumilus → Nitrosopumilus sp.	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

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

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia

Not Available

All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → unclassified Nitrosopumilus → Nitrosopumilus sp.

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium

All Organisms → cellular organisms → Bacteria

Ecosystem Assignment (GOLD)
Name	Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies

Ecosystem Assignment (GOLD)

Name

Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies

Type

Host-Associated

Taxonomy

Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies

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

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

terrestrial biome → rhizosphere → soil

Earth Microbiome Project Ontology (EMPO)

Host-associated → Plant → Plant rhizosphere

Location Information
Location	Hopland, California, USA
Coordinates	Lat. (^o)	38.97364	Long. (^o)	-123.117453	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Location Information

Location

Hopland, California, USA

Coordinates

Lat. (^o)

38.97364

Long. (^o)

-123.117453

Alt. (m)

N/A

Depth (m)

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000203	Metagenome / Metatranscriptome	1619	Y
F001233	Metagenome / Metatranscriptome	741	Y
F001633	Metagenome / Metatranscriptome	660	Y
F005048	Metagenome / Metatranscriptome	413	Y
F007777	Metagenome / Metatranscriptome	345	Y
F008172	Metagenome / Metatranscriptome	337	Y
F008500	Metagenome / Metatranscriptome	332	Y
F011643	Metagenome / Metatranscriptome	288	Y
F011845	Metagenome / Metatranscriptome	286	Y
F014312	Metagenome / Metatranscriptome	264	Y
F015217	Metagenome / Metatranscriptome	256	Y
F025923	Metagenome / Metatranscriptome	199	Y
F027071	Metagenome / Metatranscriptome	195	Y
F030647	Metagenome / Metatranscriptome	184	N
F033437	Metagenome / Metatranscriptome	177	Y
F034588	Metagenome / Metatranscriptome	174	N
F039900	Metagenome / Metatranscriptome	162	Y
F040542	Metagenome / Metatranscriptome	161	Y
F047514	Metagenome / Metatranscriptome	149	N
F048649	Metagenome / Metatranscriptome	148	Y
F054015	Metagenome / Metatranscriptome	140	Y
F055349	Metagenome / Metatranscriptome	138	Y
F056192	Metagenome / Metatranscriptome	138	Y
F066349	Metagenome / Metatranscriptome	126	N
F066797	Metagenome / Metatranscriptome	126	Y
F076910	Metagenome / Metatranscriptome	117	N
F081396	Metagenome / Metatranscriptome	114	Y
F081897	Metagenome / Metatranscriptome	114	Y
F082288	Metagenome / Metatranscriptome	113	N
F083540	Metagenome / Metatranscriptome	112	N
F092500	Metagenome / Metatranscriptome	107	N
F098775	Metagenome / Metatranscriptome	103	Y
F100491	Metatranscriptome	102	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006769J43182_100016	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	518	Open in IMG/M
Ga0006769J43182_100045	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	810	Open in IMG/M
Ga0006769J43182_100114	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	519	Open in IMG/M
Ga0006769J43182_100129	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	905	Open in IMG/M
Ga0006769J43182_100133	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	818	Open in IMG/M
Ga0006769J43182_100413	Not Available	826	Open in IMG/M
Ga0006769J43182_100506	Not Available	602	Open in IMG/M
Ga0006769J43182_100687	Not Available	807	Open in IMG/M
Ga0006769J43182_100835	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales	4103	Open in IMG/M
Ga0006769J43182_100864	Not Available	507	Open in IMG/M
Ga0006769J43182_101058	Not Available	520	Open in IMG/M
Ga0006769J43182_101136	Not Available	804	Open in IMG/M
Ga0006769J43182_101525	Not Available	745	Open in IMG/M
Ga0006769J43182_101570	Not Available	1156	Open in IMG/M
Ga0006769J43182_101859	Not Available	588	Open in IMG/M
Ga0006769J43182_102097	Not Available	647	Open in IMG/M
Ga0006769J43182_102136	Not Available	1028	Open in IMG/M
Ga0006769J43182_102339	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → unclassified Nitrosopumilus → Nitrosopumilus sp.	727	Open in IMG/M
Ga0006769J43182_102483	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	630	Open in IMG/M
Ga0006769J43182_102709	Not Available	988	Open in IMG/M
Ga0006769J43182_103223	Not Available	637	Open in IMG/M
Ga0006769J43182_103265	Not Available	752	Open in IMG/M
Ga0006769J43182_103309	Not Available	573	Open in IMG/M
Ga0006769J43182_103390	Not Available	574	Open in IMG/M
Ga0006769J43182_103705	Not Available	617	Open in IMG/M
Ga0006769J43182_104133	Not Available	528	Open in IMG/M
Ga0006769J43182_104307	All Organisms → cellular organisms → Bacteria	1202	Open in IMG/M
Ga0006769J43182_104587	Not Available	569	Open in IMG/M
Ga0006769J43182_104617	Not Available	899	Open in IMG/M
Ga0006769J43182_104853	Not Available	631	Open in IMG/M
Ga0006769J43182_107005	Not Available	589	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006769J43182_100016	Ga0006769J43182_1000161	F014312	VTKVTAFETSKGTANGVVRLWERVNAERFAIAMTPLVDAERLARKTERFSERPDKNG*
Ga0006769J43182_100045	Ga0006769J43182_1000452	F001633	GVGVRHALFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVTPAGSGSPDVVRTRLQTNFSRPHRCHGDGASLWLAVGPALRV*
Ga0006769J43182_100114	Ga0006769J43182_1001141	F014312	TRITVLETDEGTANGVVRLWERAKAERFAVAMTPLVEAERLAGKTERFSGRPDKNG*
Ga0006769J43182_100129	Ga0006769J43182_1001292	F033437	LGVRHALFPDRTRLGALAFAGCVLPDATLRGKRMFRSHGGTVLTVAGRDLLSEVFAPSSVAPCRERHAGRGADTSAILLRVGTVTAGTAPAFGWSLALRYGSDLLPLRLLSLLQCGGVVFTLPH*
Ga0006769J43182_100133	Ga0006769J43182_1001331	F025923	IEQSQRGGLKKIAESTTEIIPGDRGKGDGSWCRCPLQTASAV*
Ga0006769J43182_100133	Ga0006769J43182_1001332	F001633	GVRHTLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVSGPNLSSEASAPGSDTPAGSGAPDVVRTRLQTNLRVEHLCHGDGASFWPAVGPALRV*
Ga0006769J43182_100413	Ga0006769J43182_1004131	F001233	EQSWTAAVNRLRPNISRIIPGDWGKVESGWLARLLLSRIARFGSGGRIHQFLWQRSRAVSTREKGTER*
Ga0006769J43182_100506	Ga0006769J43182_1005061	F007777	LRGSVARPVLGVVERKAASRSGLLPVMEADAHLRTDPQLGKTSGGEQRAHVSPDSDATFRPRMPVGEQTARGSLGT
Ga0006769J43182_100620	Ga0006769J43182_1006201	F056192	KRFEGQRAKREVAELERSAARWYVKTIATRRGVKADRATRYGKFLRLKSGRALSGRDRKVLKGSGSPNTSGELWERKLATGDSRSSPAGRKKPGEAGSGKPNGSIEILRQLRCRPGASTRPRGFAARQTFAAGE*KAASRSKLLPERRADEHQSYDPRLNKTGRGERRAHVTSDPDAKLRPCMPVGERAIHRVTWN
Ga0006769J43182_100687	Ga0006769J43182_1006873	F081897	GGWEFAMLSFPCRHLAPYLSMAAGFPTLFSTASGVFGLVAGPSSTLRLLNFE*
Ga0006769J43182_100835	Ga0006769J43182_1008353	F055349	MSLTLTSPVTGGAQTGLTSPTYTLATDTAPTSAGKQYAVSALGGTQAGVDASSTPSRPFTWTGSRPAVLRQLPALNASTGLLPNVPNNVYKVLVRKGVTVLSGQSARVASCNLEISIPAGADSADAANVRAMLSLLVGSINQISSSLGDTIVTGVI*
Ga0006769J43182_100864	Ga0006769J43182_1008641	F034588	PTISIRVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPWLAPWMNLRYQSGTSIPDLTSSAFSISIHCPQSADHEHKTKTVTCAFHQAGAAVPISYK
Ga0006769J43182_101058	Ga0006769J43182_1010581	F027071	PLRKQLPLFVQRRHRPSTPLAPALANLRSKHKRQHGNAPSGQRINFLRNHFTGKRFAPSLPLHQLSLTLRIKIIGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPSNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006769J43182_101126	Ga0006769J43182_1011263	F008172	VADPAQNGQDANTQSQACLDLVRKPFRSRSGQPKRAKRPHSKLIRATEINGPAMRPKETPLAVENGVGKPVAPPWRGA*
Ga0006769J43182_101136	Ga0006769J43182_1011362	F054015	MTLAVARKRDLPNERRPTAGQSEHTHREGHAIAAGSVKTFHHVGDVEMNTAGL*
Ga0006769J43182_101154	Ga0006769J43182_1011541	F100491	GMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLKP
Ga0006769J43182_101525	Ga0006769J43182_1015251	F027071	RPQVTTELSQAYRVSFLSSILTSSCPLIKRARKKICSNPISCYQHSHSGIAALPCGGAVSSNATDYNIELKLTTTLLRKQLPLFVQRRHLPSMPLAPVLANLRSKHKRQQGNAPSGQRFDSLRNHFTGKRFASSLPLHQLLLPLRTKITGHFNKAKLNSTDTSLLAKLCISSANALANILAISNFTLLAKHQTTVPEEISFDLLGPRLTGHIATTGLLPYQPVARSIQQPRTDELTPVNIAI*
Ga0006769J43182_101570	Ga0006769J43182_1015701	F047514	CDVLNRSMPESSEAVPRGAGEEDNMGTRDGAGVRAGCNACSDARPSRESYMEKGRQHIR*
Ga0006769J43182_101859	Ga0006769J43182_1018592	F030647	NISGANFLLYLRTPKIRPEIETRLGYPVLNSDHVHLSDMTVFIASSSVHLLFVIQHGGKIKPKIGPKVIHILLALEKLFLL*
Ga0006769J43182_102097	Ga0006769J43182_1020971	F092500	GPGILIGGGILMIIGVILVVISINSLSSLSVSMPTDISTKSLIQSALNFNQTAVKETARTVGISLGLAFSGMLVATILIVNGIIALIAGMVIFFIDRRHKKLNSVHQHAGSPIG*
Ga0006769J43182_102136	Ga0006769J43182_1021362	F066797	MFEHLSNNPSADLGGSSNYSKEKAKFDTIFLATLKTEVAKVFMTTEIAHELVDPNPKDYEK*
Ga0006769J43182_102339	Ga0006769J43182_1023392	F066349	MRGKISVDNNETPLLSIDFKEDIIVDVKDTSIFELIETDNKTESKLSFWDIIKDARDFAEELKNKKLTIILNIKGKETLIIGEKAKPSISQILSKSKNIEIKSVVEAAKMSKEIID*
Ga0006769J43182_102483	Ga0006769J43182_1024832	F098775	LTWFAVRWRNHQSKQAEKPHSKSKRRKTLDGPATRPMTPLAVENSVGKLAASARMRAECQRGKESMANSHPP
Ga0006769J43182_102559	Ga0006769J43182_1025592	F000203	GMGVRQALFPVLALGAPQGRAASFPTLFSTASGVFGLVAGPFSASQRLNFE*
Ga0006769J43182_102709	Ga0006769J43182_1027091	F039900	MNHSLADQDRETWNYVLSDYRTESEKDSEADIPVPDRLLPRRRSQELVRMLKLSQMVGILIWLNRENLITLGGRERLLYLQAKASFEALEAGLRFARRLTKEEKLRSDFRHQMRELNRRPQSKHFRQSEARRIGVGYRDKGMLPDSSSGARTAAQKDSFIPSHLVPALLLGAIQTVTPEFLTADKEWVDLSMVAGSFGTQADIGARPLLPPL*
Ga0006769J43182_103223	Ga0006769J43182_1032231	F005048	MGLKFEHTTPKAEDSIQDFVVETFASATTDNGRVALVVEPRHAERQALVRTLRELGRRAIGVATALDAVQMLVEEGAHVDTVFIEAVSDSLPSLELVEFLSHNHPRIRRVLIGEQHEIAASWVAQATGEVHALLETPCDPEAVHRVLHRLQFTPNDAALS*
Ga0006769J43182_103265	Ga0006769J43182_1032651	F040542	MTKFLLMSAAAAALIATPTMAAKNISPRASGVVGFHGVKAPAHQVKNPAAPLCGTGFGAELPTPDGLIAWNDTSNGYNTAGGADFKCTLAKTKIKEVDVYGYNAPANPEQYNVTIYKNSGADGTDEPNDSKVKCAYTGVSAEGGGQYPTHTLSHIKLPTACKVKAGHYWVAVQNNDSAGPWYWEMTSTLGGSAQGDWDDVNNFFGSGCTSFNNDEYLQQCLGYTYPDYMLELH*
Ga0006769J43182_103309	Ga0006769J43182_1033091	F076910	PRCQARSVQTYQVFRAQAGECRAVATVPYVPKSSRTAGPLMVSRCVSTGAPPVLGGHGDRQLAGSVHTYRVCRGTETLGPSSEVTRLRRSRNPARAILLDLANDTDEHVRPGNPAPANGSPSSNRGRLEEKPITLKARPHRSTVAPITGPRLGGRGSKEAHQKWPDLGVAPRGEGSVLPNVLGAVTEQAI
Ga0006769J43182_103390	Ga0006769J43182_1033901	F011845	PGFTVRFSDPSACGRSLCGRVPRINHLSLAITAFQHATGHSNKRVLSGHSHPAGAENSIRPFARSQRRFRHHCEVNVPGLHLRLHIRNPREPVRFPAPPLRSVSRPNRGDINARHPFSAPISNIPDLSPGLHSPSGPRGRPSGSKRSTGPISGSPSHRTLDRSSLPAALTSRPGCGSMLETRFVPLNYRS
Ga0006769J43182_103705	Ga0006769J43182_1037051	F082288	FRPNNKTKNMISFLVLSSILGMALASTNAILTAQTANAQFVAKIGGPDTDQVNSRIIGTLLKPGFTNQYNLTMNGKTVPIQYSVLDGSLVGILSDPSRKSLDLAVNPQANGAALEVNVPRHVIDSKNAAGKDAPFIVKVDGNRISGEPSGICVGTCPNILNSFKETYNTNTDRVLTVLVGPESRFIEIIGNHTSA*
Ga0006769J43182_104133	Ga0006769J43182_1041332	F015217	VTQHNVRRIEQALAFLSREVAQTKPDNTVMLSVISGTSVLAFTKVPGSAVTALT
Ga0006769J43182_104307	Ga0006769J43182_1043072	F048649	MKKLIITLAALMVSIAAYGQGQFNFNNRIGTEVNARFVQASDATGQSSVGSPDWTVQLLGGPVGGTLAPLNPASTTFRGAGGTASAGYVTSVAPIVPGVDIGGTAAIVVRVMGPGGITQDFPYTIANLGGGTVIPPNLQMGTTPLVVGVPEPTTLA
Ga0006769J43182_104587	Ga0006769J43182_1045872	F011643	MRSTARGHDSAGETRYGSAVRDNPLKGKPWTWQRGEINPQRLEAEQTLEVVRNGAEGT*
Ga0006769J43182_104617	Ga0006769J43182_1046171	F081396	EKERDLVAGSKGSEAGQEPRAGRLFSGESDQAPDRRTLKVIIESDCDELGERSWAAPAVTLLVGFGEKNPEEEKPRRGSDPVGG*
Ga0006769J43182_104853	Ga0006769J43182_1048531	F083540	SPRAYRKNLNKHQMLLDEEHHSDLVELHSESFSLFQNSPVQKSLDQLQYRVDFKGSAFKDCAYMRDIHDNKILKAKTATWSMDHKFKVTNLQQHDVWGTASCKLGLDACKYLIYFRDIEKAWFRKTMCKNRQYFYEVEFMDFRPNKWTIEAPALHRMVIKRDEGVVATLNRGSFEIHEFLDTEDTFVVQCIVLLFAQAYADGVCLP*
Ga0006769J43182_107005	Ga0006769J43182_1070051	F008500	MLGFIIADANDAIVEDSDILLDTNQNNFRAITSVSCSNCHATGFIPVVDEVRDIAVANARDIGLDRDEVEQLEGIYVSPQEFARQVTDDSQGFYQAALQRADLPIQGGDPVSSVFLRFDQDISIKDAAGDLGLTPNELQDNLDLLNPVLSVLDRGTLDRDDFTALFVDSLCILSTPLENQPDAAVCDAAAAAAQ*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300002863: Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_12 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences