Sample 3300002872

Basic Information
IMG/M Taxon OID	3300002872 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061277 \| Ga0006762
Sample Name	Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_5 (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

3300002872 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061277 | Ga0006762

Sample Name

Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_5 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	8759371
Sequencing Scaffolds	24
Novel Protein Genes	28
Associated Families	25

Dataset Contents

Total Genome Size

8759371

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	17
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa	1
All Organisms → Viruses → Riboviria → Orthornavirae	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

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

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa

All Organisms → Viruses → Riboviria → Orthornavirae

All Organisms → cellular organisms → Bacteria

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

All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata

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?
F000237	Metagenome / Metatranscriptome	1498	Y
F001024	Metagenome / Metatranscriptome	803	Y
F001583	Metagenome / Metatranscriptome	668	Y
F001633	Metagenome / Metatranscriptome	660	Y
F001758	Metagenome / Metatranscriptome	640	Y
F005082	Metagenome / Metatranscriptome	412	Y
F006338	Metagenome / Metatranscriptome	375	Y
F008500	Metagenome / Metatranscriptome	332	Y
F009606	Metagenome / Metatranscriptome	315	Y
F012439	Metagenome / Metatranscriptome	280	Y
F015807	Metagenome / Metatranscriptome	252	Y
F026580	Metagenome / Metatranscriptome	197	Y
F027071	Metagenome / Metatranscriptome	195	Y
F029638	Metagenome / Metatranscriptome	187	Y
F034588	Metagenome / Metatranscriptome	174	N
F037587	Metagenome / Metatranscriptome	167	Y
F040542	Metagenome / Metatranscriptome	161	Y
F041033	Metagenome / Metatranscriptome	160	Y
F044324	Metagenome / Metatranscriptome	154	Y
F045561	Metagenome / Metatranscriptome	152	Y
F048649	Metagenome / Metatranscriptome	148	Y
F086219	Metagenome / Metatranscriptome	111	N
F092500	Metagenome / Metatranscriptome	107	N
F100491	Metatranscriptome	102	Y
F105213	Metagenome / Metatranscriptome	100	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006762J43184_100052	Not Available	717	Open in IMG/M
Ga0006762J43184_100060	Not Available	604	Open in IMG/M
Ga0006762J43184_100064	Not Available	599	Open in IMG/M
Ga0006762J43184_100088	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	824	Open in IMG/M
Ga0006762J43184_100099	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	811	Open in IMG/M
Ga0006762J43184_100151	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa	675	Open in IMG/M
Ga0006762J43184_101234	Not Available	517	Open in IMG/M
Ga0006762J43184_101999	Not Available	514	Open in IMG/M
Ga0006762J43184_102464	Not Available	814	Open in IMG/M
Ga0006762J43184_103162	Not Available	822	Open in IMG/M
Ga0006762J43184_103911	Not Available	518	Open in IMG/M
Ga0006762J43184_103956	Not Available	510	Open in IMG/M
Ga0006762J43184_104241	Not Available	744	Open in IMG/M
Ga0006762J43184_104792	All Organisms → Viruses → Riboviria → Orthornavirae	628	Open in IMG/M
Ga0006762J43184_104869	Not Available	741	Open in IMG/M
Ga0006762J43184_104924	All Organisms → cellular organisms → Bacteria	1108	Open in IMG/M
Ga0006762J43184_105592	Not Available	609	Open in IMG/M
Ga0006762J43184_105994	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	849	Open in IMG/M
Ga0006762J43184_106222	Not Available	723	Open in IMG/M
Ga0006762J43184_107338	Not Available	585	Open in IMG/M
Ga0006762J43184_108682	Not Available	905	Open in IMG/M
Ga0006762J43184_114185	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	661	Open in IMG/M
Ga0006762J43184_116059	Not Available	904	Open in IMG/M
Ga0006762J43184_116060	Not Available	890	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006762J43184_100052	Ga0006762J43184_1000521	F001758	VTGEKLSQAGWLSSSESKPKGLKGEAEFTSSSGSVRALSVNAKKGLRDEERLETVPNSVK
Ga0006762J43184_100060	Ga0006762J43184_1000603	F006338	VVLENGILSGPATRPKTPLAVENSVGKLAAAEMWRQMPAREREPGELPSPIWSLLDR
Ga0006762J43184_100064	Ga0006762J43184_1000641	F037587	RKWFQVTRFTALFTTGMHGTEHCNLGAPSVLPFHSPISDFAVTGSKLRSALQLSPGRGWMLVTAFRSPATVAAFTASIPGSTFLTCYFASAPIDSAARSIFGSATGPRFAPRPAASTLQTRCSFLDLDLPHTRPPLPFRTVTSLRIKAFCRICCSSTRLPIPPDLRSLPAAGLYH
Ga0006762J43184_100088	Ga0006762J43184_1000882	F001633	GVGVRHTLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVSDPNLSSEASAPGSDTPAGSGAPDVVRTRLQTNLRVEHPCHGDGASFWPAVGPALRV*
Ga0006762J43184_100099	Ga0006762J43184_1000992	F001633	GVGVRHALFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVTPAGSGAPDVVRTRLQTNFSRPHRCHGDGASLWLAVGPALRV*
Ga0006762J43184_100151	Ga0006762J43184_1001511	F034588	HPPASPLIRTSGCPSFRISGFTGDRSSSRLDSLSFGGAGCESSRSPLRFASPVSPTISFWVAPDPHPPVPADFRSESPRSSVPSGRPLRISGLLRLFASGFVAQTFPKSPWFLLAQRRRFRLSRVAPKLPSSADPYLPPQVAPASASTAGSMITPWLNRTLHPQLAPRMNLRYHSGTSIPDLISSALLISIHCSQSADHEP*
Ga0006762J43184_101028	Ga0006762J43184_1010281	F012439	RRAPPLGSCSLIATSAGGVHHSAGNPDPAVTFRPRRFSRPRRFPPPPAFAGLFHPAATSRVCPSGVCPSPRSRTGFPRPIHALLALNADTCDQRPRPRLQGFAPRRECGVGRDGLGLDRSAPLVGFSSSGFSPRATWECLHIPSALDLHSVRNP*
Ga0006762J43184_101234	Ga0006762J43184_1012341	F092500	RGSGILIGGVILVVVGVIVVALSINSLTSLSISMPDDISTKSLIKSALNINQTAVKETAKTVGISLGLAFSGMLVAAILIVNGIIALIGGTVVSFADRRHKKVNKAQQHLGSPIG*
Ga0006762J43184_101325	Ga0006762J43184_1013251	F100491	GTAGGIKTVPSDRQAACSPTGMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLKP
Ga0006762J43184_101999	Ga0006762J43184_1019991	F034588	PVSPTISIRVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPWLAPWMNLRYQSGTSIPDLTSSAFSISIHCPQSADHEHKTKTVTCAFHQAGAAVPISYK
Ga0006762J43184_102464	Ga0006762J43184_1024641	F044324	ARKLEREDHLGIDGRAGDGDTLWIIAAGHTQHRREKIVNGDDGNDVVEVIRAEPEGAGTHEGIRMFVGGNTTADVADPGLEQSFEVDASQAGVGSNTDRKAAPTARKQRVSTRDHGWPGGGSP*
Ga0006762J43184_103162	Ga0006762J43184_1031621	F001024	MRPKTPLAVENGVGKLAAKERLMPAWERECGELPSPNLSL
Ga0006762J43184_103911	Ga0006762J43184_1039111	F015807	MPHRPEWMEGMERLVRHDGESRDTDRPTWSHHRRCSGGQGARREAGSERLEENHRVVINGSDPER*
Ga0006762J43184_103911	Ga0006762J43184_1039112	F086219	MNRSAEDGEWSSPHYGGEGTWVPPRRTKVCAGDTVGKSVSDPGRPGIVHREGMAGIVRHSQTKGRETGNAKPGLKPPMVGAD
Ga0006762J43184_103956	Ga0006762J43184_1039561	F026580	MIRNRSELDQVAQERFELERIAVTQRVNGCYCASARTDDSGGLRKKVSQTKDAERRDNKSIRTGKDTKPRQGS*
Ga0006762J43184_104241	Ga0006762J43184_1042411	F045561	AVLVDCRVRGLESDFRKEDGGSGQEARAGRQPDSRKANPRNGETPETSCGGFIAVKVMGGAGVKASARCVEGVPGGAEAHEGRGSVGV*
Ga0006762J43184_104792	Ga0006762J43184_1047921	F105213	RSSQSGMGASNHGWNFFNSLSGELEKEDVFSLLHREETTFEGYVERTDTFEDLFVSSTDYEEATDLLEHKVAADLGVPWMHKCGIPKVLRGIVIETCYKPREVFFKATGLLKDLGEPVEGDIHKITLRRGVLMGDPLTKPVLHLINVCNRHLQNRIMDPDFYSRLPNSAEIREVILRKRQCLNAKDLSRLAI*
Ga0006762J43184_104869	Ga0006762J43184_1048691	F027071	PQVTTELSQAIRDLSLSSILISSCPLIKSAWKKIGSNLISFYLHTHSKIAALPCGGAVSPNAIDNNIELKLTTTSLRKQLPLFVQRCHPPSASLAPILANLRSKYKRQQSNAQSGQRINPLRNYSAGSCLAPSRPLHQSPSSLRIRITGNINKAKLNNIGTSLLAKNCAGGSITLAGSLAVSNLTLLANHQTAMPEEISFDLLGPLIRRYCYLRSATASAGCPVNTTTPNKRANSRKYCYLAKVIRV
Ga0006762J43184_104924	Ga0006762J43184_1049242	F048649	MKKLIITLAALMVSIAAYGQGQFNFNNRIGTEVNARFVQASDATGQSSVGSPDWTVQLLGGPVGGTLAPLNPSSTTFRGAGGTASAGYVTSVAPIVPGVDIGGTAAIVVRVMGPGGITQDFPYTI
Ga0006762J43184_105592	Ga0006762J43184_1055921	F040542	FHGVKAPAHQVKNPAAPLCGTGFGAELPTPDGLIAWNDTSNGYNTAGGADFKCTLAKTKIKEVDVYGYNAPANPEQYNVTIYKNSGADGTDEPNDSKVKCAYTGVSAEGGGQYPTHTLSHIKLPTACKVKAGHYWVAVQNNDSAGPWYWEMTSTLGGSAQGDWDDVNNFFGSGCTSFNNDEYLQQCLGYTYPDYMLELH*
Ga0006762J43184_105994	Ga0006762J43184_1059941	F005082	KRTRRVLRIDANKVTADPFRPSENVKVSMSNYIVFDLPPAGYTGAEAQAVYAGFKALFTATSDQMIVKLLGGES*
Ga0006762J43184_106018	Ga0006762J43184_1060181	F000237	MPEPGLVIELREEMFNDTRFGAEVFYMHVRGVDTVFVLSYMHILKKIYVKNYVSAESDGILGGYAFLWYHYIVALGICLSASHLSDLTLTIVANIFSLLDNIHKTYYVIFTNKHLNIDQMTRLMMFHYFTPWYYLYLIQLHVLFCHESDSDSGESTYEDKSGSYISFYDAFLKEIQDAYITVLVFLYFHHFKAHTVNYFFFERNIAELDEIRFYGVAPHWYFRPLMGILVISPTHYEGLMMGLFFILLTFLPIIYNFNVYNKHVPAIPMQNSLLQTFAFVIFCMSLYCTASILPCGRYYYEPEGGYVGNPIKFSLQYIYLYLAFIHHLDLIDHHIFQFFSTFLIKTKKYKSYNSYSTNLRNNAIKPQLFKFRTNKYGNKTL*
Ga0006762J43184_106222	Ga0006762J43184_1062221	F029638	VVRLNLGGSVVQNPCDTAGTQGSWNFVNTLPVITGQTSAQFGFSCASVGVVTPSTFPNGLPAGQYRVVEVAGPNSFCTLVQVYNGNQANNQQLTLPYSGAMLTQPVTLNLPSANIYDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTAGLVNTSNVEISPAPGSDDDARLDIRIRDAASIPIPNAHVTVLIDKGALALRRDFSSFPNSGFDPIEPFPAAANFASPFSGDTCDQSNNGWLT
Ga0006762J43184_107338	Ga0006762J43184_1073381	F008500	IPVVDEVRDIAVANARDIGLDRDEVEQLEGIYVSPQEFARQVTDDSQGFYQAALQRADLPIQGGDPVSSVFLRFDQDISIKDAAGDLGLTPNELQDNLDLLNPVLSVLDRGTLDRDDFTALFVDSLCILSTPLENQPDAAVCDAAAAAAQ*
Ga0006762J43184_108682	Ga0006762J43184_1086821	F009606	KQIKYIMSSGKKPVNNDAGRGANVVRTKARPKVNPISGANFEYVNEPRIGDSFVVCVAGPSGVQSFTFHHPIGITEVDGEDWVCTPTGDIASLLSRQVDPDEADRKVKRDKHRLDLAVAAGLLSRTGDDGLLVYPDTEINRQDALARARTLAKNAVKAEKGKPSPDLYIRFMDASVQEKESAVRKFLAEKSTIRKAETKFPASGYLTRGGPLADRDQKEVSYLSGMTRPQAQDAVVKRIFGLDDEEED*
Ga0006762J43184_114185	Ga0006762J43184_1141851	F001583	LSASHLSDLTLTIVANIFSLLDNIHKTYYVIFTNKHLNIDQMTRLMMFHYFTPYYLYLIQLHVLFCHESDSDSGESTYEDKSGSYISFYDAFLKEIQDAYITILVFLYFHHFKAHTVNYFFFERNIAELDEIRFYGVAPHYFRPLMGILVISPTHYEGLMMGLFFVLLTFLPIIYN*FNVYNKHVPAIPMQNSLLQTFAFVIFCMSLYC
Ga0006762J43184_116059	Ga0006762J43184_1160591	F041033	VLLIQTIGKTKVLKMSVPGPTPNTTRARGNPQRNAPLPQNAGQDVGATPARFNVVPEINDNEFKGWVNALMEQSKMDDKELATYWDMFSYKGFNRVEVLKQMAVAIPNPKTAAQAVIVVALRGPQQGSKIKLTEGRSLLEMGIPASGGQGTKVLTCNKIQAATADLAAFFLKRLNVPKRMDIPLPGWLQFPSAGGIKMPENYRRDHIEFSRRFSALIGGVFQEQIYMQMQSNAYLDERLRLFD*
Ga0006762J43184_116060	Ga0006762J43184_1160601	F041033	TIGKTKVLKMSVPGPTPNTTRARGNPQRNAPLPQNAGQDVGATPARFNVVPEINDNEFKGWVNALMEQSKMDDKELATYWDMFSYKGFNRVEVLKQMAVAIPNPKTAAQAVIVVALRGPQQGSKIKLTEGRSLLEMGIPASGGQGTKVLTCNKIQAATADLAAFFLKRLNVPKRMDIPLPGWLQFPSAGGIKMPENYRRDHIEFSRRFSALIGGVFQEQIYMQMQSNAYLDERLRLFD*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300002872: Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_5 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences