Sample 3300002868

Basic Information
IMG/M Taxon OID	3300002868 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061282 \| Ga0006767
Sample Name	Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_10 (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

3300002868 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061282 | Ga0006767

Sample Name

Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_10 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	7919134
Sequencing Scaffolds	28
Novel Protein Genes	30
Associated Families	25

Dataset Contents

Total Genome Size

7919134

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	17
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Cystobacterineae → Myxococcaceae → Myxococcus → Myxococcus stipitatus	1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	3
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	3

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

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

All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Cystobacterineae → Myxococcaceae → Myxococcus → Myxococcus stipitatus

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

All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.

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
F000344	Metagenome / Metatranscriptome	1257	Y
F001380	Metagenome / Metatranscriptome	709	Y
F005082	Metagenome / Metatranscriptome	412	Y
F014312	Metagenome / Metatranscriptome	264	Y
F015217	Metagenome / Metatranscriptome	256	Y
F016001	Metagenome / Metatranscriptome	250	Y
F018726	Metagenome / Metatranscriptome	233	Y
F024042	Metagenome / Metatranscriptome	207	Y
F026580	Metagenome / Metatranscriptome	197	Y
F027071	Metagenome / Metatranscriptome	195	Y
F028810	Metagenome / Metatranscriptome	190	Y
F029638	Metagenome / Metatranscriptome	187	Y
F032547	Metagenome / Metatranscriptome	179	N
F033437	Metagenome / Metatranscriptome	177	Y
F034588	Metagenome / Metatranscriptome	174	N
F035161	Metagenome / Metatranscriptome	172	Y
F038031	Metagenome / Metatranscriptome	166	Y
F040607	Metagenome / Metatranscriptome	161	Y
F041060	Metagenome / Metatranscriptome	160	Y
F044324	Metagenome / Metatranscriptome	154	Y
F053640	Metagenome / Metatranscriptome	141	Y
F082288	Metagenome / Metatranscriptome	113	N
F096396	Metagenome / Metatranscriptome	104	Y
F100491	Metatranscriptome	102	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006767J43181_100016	Not Available	614	Open in IMG/M
Ga0006767J43181_100028	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	512	Open in IMG/M
Ga0006767J43181_100031	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	820	Open in IMG/M
Ga0006767J43181_100163	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	825	Open in IMG/M
Ga0006767J43181_100238	Not Available	590	Open in IMG/M
Ga0006767J43181_100364	Not Available	814	Open in IMG/M
Ga0006767J43181_100389	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri	651	Open in IMG/M
Ga0006767J43181_100536	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Cystobacterineae → Myxococcaceae → Myxococcus → Myxococcus stipitatus	533	Open in IMG/M
Ga0006767J43181_101374	Not Available	741	Open in IMG/M
Ga0006767J43181_101448	Not Available	572	Open in IMG/M
Ga0006767J43181_101709	Not Available	521	Open in IMG/M
Ga0006767J43181_101982	Not Available	584	Open in IMG/M
Ga0006767J43181_102791	Not Available	873	Open in IMG/M
Ga0006767J43181_103399	Not Available	560	Open in IMG/M
Ga0006767J43181_103475	Not Available	947	Open in IMG/M
Ga0006767J43181_104163	Not Available	562	Open in IMG/M
Ga0006767J43181_104282	Not Available	558	Open in IMG/M
Ga0006767J43181_104422	Not Available	641	Open in IMG/M
Ga0006767J43181_104648	Not Available	1105	Open in IMG/M
Ga0006767J43181_104649	Not Available	729	Open in IMG/M
Ga0006767J43181_104664	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	1762	Open in IMG/M
Ga0006767J43181_105004	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	973	Open in IMG/M
Ga0006767J43181_105970	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	1954	Open in IMG/M
Ga0006767J43181_106499	Not Available	942	Open in IMG/M
Ga0006767J43181_107023	Not Available	1027	Open in IMG/M
Ga0006767J43181_108104	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes	780	Open in IMG/M
Ga0006767J43181_109512	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	622	Open in IMG/M
Ga0006767J43181_109801	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	631	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006767J43181_100016	Ga0006767J43181_1000161	F026580	ELNQVARGSFELERIAVTQRVNGCYCASARADDSGGSAHKKRGVSQMKEAERQDKVSIRTGKDTRSRQDP*
Ga0006767J43181_100028	Ga0006767J43181_1000281	F014312	TKVTAFETSKGTANGVVRLWERVNAERFAIAMTPLVDAERLARKTERFSERPDKNG*
Ga0006767J43181_100031	Ga0006767J43181_1000312	F000344	MRPKHPHAAESGVGKHTARESERVQACAAGKERVTNAHPHNW
Ga0006767J43181_100163	Ga0006767J43181_1001631	F033437	PGPNLGLGVRHALFPDRTRLGALAFAGCVLPDATLRGMRMFRSHGGTVLTVAGRDLLSEVFAPSSVAPCRERHAGRGADTSAILLRVGTVTAGTAPAFGWSLALRYGSDLLPLRLLSLLQCGGVVFTLPH*
Ga0006767J43181_100238	Ga0006767J43181_1002381	F032547	VQSRSSCVLPLVLPAPYFRSARIKAPGHASRLTPDRNPYLGTAFHSLDKTARFRTTLPKSMLLAYPFGSSLSLPRTRSIRPLVHAAWLAPNCANSTRQTRCPVPSQRPRPLFRPTLPFRAFGPFPIKALTSIPIERFTESTRPIALRSPLPAVLIEPATDQCSRLATSRSAYCLTNL
Ga0006767J43181_100364	Ga0006767J43181_1003641	F041060	VTDGPATRPKTPLAVENSVGKLAAPEGGAKCQPGKESVANSHPP
Ga0006767J43181_100389	Ga0006767J43181_1003891	F026580	MRKGTARGGTIRNRSESSRVVQESFEPERIAVTQRVNGCYCVSARANGSGGFRKEVSQRKDAERRDKVSVRTGEDTGSRQDP*
Ga0006767J43181_100536	Ga0006767J43181_1005361	F053640	EQSKRSGLKNSTESTAGIIPGDRGMAGDNWCRPPLLKAKADERHISPVPLAGVVSGQSTHEVGTEPQSAIRNRVERSQAHGEFRPVNRRSYPRGFRLLLRRPERSRGSRRDDPAKRPSSPHEPGAQRNHDGGERTDLGKVRQPPQMGRRAKPRHPAAKAKAT*
Ga0006767J43181_100547	Ga0006767J43181_1005472	F000203	GTNRGMGVRQALFPALTFGAFLAEAASFPTLFSTASGVFGLVAGPSSALRSLNFE*
Ga0006767J43181_101276	Ga0006767J43181_1012761	F100491	RGTAGGIKTVPSDRQAACSPTGMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLKP
Ga0006767J43181_101374	Ga0006767J43181_1013741	F027071	PQVTTELSQAIRVFFLSSILTSSCPLIKRARRKSCSNLISFYQHSRSIFAALPCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSMPLAPALANLRSKHKRQHGNAPSGQRINFLRNHFTGKRFASSLPLHQLSLTLRIKIIGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006767J43181_101448	Ga0006767J43181_1014481	F034588	LSFGGAGCESSRSPLRFASPVSPTISIWVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPWLAPWMNLRYQSGTSIPDLTSSAFSISIHCPQSADHEHKTKTVTCAFHQAGAAVPISYK
Ga0006767J43181_101709	Ga0006767J43181_1017091	F001380	ASQQVLRIDRSSLAITAFQHVTGQCNKRVVIGQHLPESESRYGLSLARNDACATIARSMFPACTFVSTLKIFANPFDSRLLRSVRFRGRTGAISTPGTRYSRRLQHFFFPGLHSPLGLFQNPPDQSVQPVPSQKTRLTLRSIASYSPLLPLAIPLQINANSLRTARLSFRK
Ga0006767J43181_101982	Ga0006767J43181_1019821	F028810	FQVTYPTIQLPPGMHGRSCAIWVMVRIASCAPRVVTFARLGSTPLRHASRLTPDRNPLLGTAFRSLEKTARFRATFPKSMFLAYPFGSSSSLS*
Ga0006767J43181_102791	Ga0006767J43181_1027911	F044324	KPEEPKARKLEREDHLGIDGRAGDGDTLWIIAAGHTQHRREKIVNGDDGNDVVEVIRAEPEGAGTHEGIRMFVGGNTTADVADPGLEQSFEVDASQAGVGSNTDRKAAPTARKQRVSTRDHGWPGGGSP*
Ga0006767J43181_103399	Ga0006767J43181_1033992	F015217	VTQHNVRRIEQALAFLSREVAQTKPDNTVMLSVISGTSVLAFTKVPGSAVTALTGLVRLFI*
Ga0006767J43181_103475	Ga0006767J43181_1034751	F016001	VFSRRFDPIPSWACLLQVFALDALEAPSRLLTPVVLMATLSVIVSIDLQRSDTELGVSLETAYLLEVSYLPAMLSCPNISDEVRRSASPVARFRLFL
Ga0006767J43181_104163	Ga0006767J43181_1041631	F024042	MIEPVTRAHEDGLVPDSSLSAEGKLRRAETALWGTSFRDEGKHGEPHDRQQGATPLHGRGGESVEVVRNHGDGTRGGLAAHPRRETRRRGSRASDSSAPYDGGAIFGQPQERKSDRQVGPHGSGRDG
Ga0006767J43181_104282	Ga0006767J43181_1042821	F040607	QHCSPRACTALSMAIDSGGRFACGLPSGVFAIRRINAFRHTAFCYRPGPAARNGLSLACNDCSLSEPPFQGQNSWPATSLPCTRLHCPFGLPLHHRFRFAPASGGIIASTPLQRFRALQVAAPANSTPLWGYYTRPDQSVRSLRLPLGPPSRFARYPVAPQSQFYF*
Ga0006767J43181_104422	Ga0006767J43181_1044221	F082288	RFRPNNKTKNMISFLVLSSILGMALASTNAILTAQTANAQFVAKIGGPDTDQVNSRIIGTLLKPGFTNQYNLTMNGKTVPIQYSVLDGSLVGILSDPSRKSLDLAVNPQANGAALEVNVPRHVIDSKNAAGKDAPFIVKVDGNRISGEPSGICVGTCPNILNSFKETYNTNTDRVLTVLVGPESRFIEIIGNHTSA*
Ga0006767J43181_104648	Ga0006767J43181_1046481	F035161	TGAGATCASVGVITPAVFAAGLPAGQYRVVEVAGPNSYCTLVQVYNGNQAQNQQLTLPYSGAMLTQPVTVNVPDANILDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTPGLVNTSNVEISPAPGSDDDARLDIRIRDSASIIIPNAHVTVLIDKGALALRRDLSSFPNSGYDPIEPIPAAVNFASPFSGDTCDQSNNGWWQQSTSSGGYTWPFLSSSRQQADGYTNSEGVISACVYVDTTLAPGTTPGKINVQAIVESPTQGGLYNSSGVAGNINGINPYYPLGNNLSLPNYLGVPNIVLTATITVVGPPASITVAAAPTSLNCGEKATITVTVKDSAGQNVSDRTRVELVTNFGGVLGGTTATLG
Ga0006767J43181_104649	Ga0006767J43181_1046491	F029638	QGPFWVEVARVNLGPTLAQNPCATDGTQGTFNITGAGATCASVGVITPAVFAAGLPAGQYRVVEVAGPNSYCTLVQVYNGNQAQNQQLTLPYSGAMLTQPVTVNVPDANILDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTPGLVNTSNVEIXPAPGLVNTSNVEISPAPGSDDDARLDIRIRDSASIIIPNAHVTVLIDKGALALRRDLSSFPNSGYDPIEPIPAAVNFASPFSGDTCDQ
Ga0006767J43181_104664	Ga0006767J43181_1046641	F005082	ARRMLRIDTSKMAPDPFRPVENVKVSMSCYMVFDLPLAGYTATEALAVYTGFKTQYSAGSDALIVKLLGGES*
Ga0006767J43181_105004	Ga0006767J43181_1050041	F005082	DFTKISPDPFRPAENVELSMSVYMVVDLPPAGFTNAEALAVYTGFKTLISASSDALVVKLLGGES*
Ga0006767J43181_105970	Ga0006767J43181_1059701	F018726	VTVAAAAPTPALVLAMIKSDAYGSERVDIGGNGYSVIINHTRGKAGNRHYVQMTLTKDATDPYSGLIRKQTASVSFTISRPLFGFSDTDMVALSKALSDFRDDSEVTTARLLQFQS*
Ga0006767J43181_106499	Ga0006767J43181_1064991	F038031	VTYNSVALSLPRTEVAKDYNRYRTADGEFEIIISNNLRQARDGIANASIKLVRRLPDPTPSNVFDNYRDIRNLFGFTYSFDAQTRAEASVDVPRLRTALLALVDSTLQGRIIAGEK*
Ga0006767J43181_107023	Ga0006767J43181_1070231	F038031	SRQGWKERSVFSDPFSITYDGNVKSLPRTEVARDYNRYTTADGEFEVLISNNLRKPQNGIATVSFKLARYLPDPTPGDFSNPYRNVRNSFGFSYGFDAITRAEVSVDVPRLRATVNTLIDSAFQGRLLGGER*
Ga0006767J43181_108104	Ga0006767J43181_1081041	F005082	PDPFRPAENVKVSMSSYMVFDLPPAGYTNAEALAAYVGFKTLYTATSDLMITKLLGGES*
Ga0006767J43181_109512	Ga0006767J43181_1095122	F096396	MATRCCTSATLDIRTVERRVEHEGLSFLAITLADYGKAVQKWLDHGLVVPSDQTAFKASGPIGFPAFLQGFLGRVF
Ga0006767J43181_109801	Ga0006767J43181_1098012	F096396	VKSLTSLWSCVAIDFATRCCTSATHDITTVVSRTEHEGLSFLAITLADFGKAIQKWLDQGFVVPSDAPSFKRAPRSGLPAFMQGFLGRVFNPGSGVLLDEPC

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300002868: Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_10 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences