Sample 3300003717

Basic Information
IMG/M Taxon OID	3300003717 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061281 \| Ga0006766
Sample Name	Avena fatua rhizosphere microbial communities - H2_Rhizo_Litter_9 (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

3300003717 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061281 | Ga0006766

Sample Name

Avena fatua rhizosphere microbial communities - H2_Rhizo_Litter_9 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	13345477
Sequencing Scaffolds	28
Novel Protein Genes	32
Associated Families	27

Dataset Contents

Total Genome Size

13345477

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	19
All Organisms → cellular organisms → Eukaryota	1
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 → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Clavicipitaceae → Claviceps → Claviceps purpurea → Claviceps purpurea 20.1	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Klebsiella/Raoultella group → Klebsiella → Klebsiella cf. planticola B43	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Eukaryota

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

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Clavicipitaceae → Claviceps → Claviceps purpurea → Claviceps purpurea 20.1

All Organisms → cellular organisms → Bacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Klebsiella/Raoultella group → Klebsiella → Klebsiella cf. planticola B43

All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata

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?
F001633	Metagenome / Metatranscriptome	660	Y
F002654	Metagenome / Metatranscriptome	539	Y
F005048	Metagenome / Metatranscriptome	413	Y
F005905	Metagenome / Metatranscriptome	386	Y
F012439	Metagenome / Metatranscriptome	280	Y
F021791	Metagenome / Metatranscriptome	217	Y
F021903	Metagenome / Metatranscriptome	216	Y
F027071	Metagenome / Metatranscriptome	195	Y
F029638	Metagenome / Metatranscriptome	187	Y
F032070	Metagenome / Metatranscriptome	181	Y
F034588	Metagenome / Metatranscriptome	174	N
F040542	Metagenome / Metatranscriptome	161	Y
F046210	Metagenome / Metatranscriptome	151	N
F047514	Metagenome / Metatranscriptome	149	N
F048143	Metagenome / Metatranscriptome	148	N
F048649	Metagenome / Metatranscriptome	148	Y
F056192	Metagenome / Metatranscriptome	138	Y
F060086	Metagenome / Metatranscriptome	133	Y
F066797	Metagenome / Metatranscriptome	126	Y
F070259	Metagenome / Metatranscriptome	123	Y
F072008	Metagenome / Metatranscriptome	121	Y
F076940	Metagenome / Metatranscriptome	117	Y
F079670	Metagenome / Metatranscriptome	115	N
F080934	Metagenome / Metatranscriptome	114	Y
F095010	Metatranscriptome	105	N
F100491	Metatranscriptome	102	Y
F104573	Metagenome / Metatranscriptome	100	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006766_100388	Not Available	587	Open in IMG/M
Ga0006766_100390	All Organisms → cellular organisms → Eukaryota	1288	Open in IMG/M
Ga0006766_100623	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	705	Open in IMG/M
Ga0006766_100717	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa	598	Open in IMG/M
Ga0006766_101151	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	809	Open in IMG/M
Ga0006766_101802	Not Available	545	Open in IMG/M
Ga0006766_101928	Not Available	1244	Open in IMG/M
Ga0006766_102526	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	594	Open in IMG/M
Ga0006766_105358	Not Available	740	Open in IMG/M
Ga0006766_106615	Not Available	617	Open in IMG/M
Ga0006766_107061	Not Available	760	Open in IMG/M
Ga0006766_107509	Not Available	533	Open in IMG/M
Ga0006766_108130	Not Available	717	Open in IMG/M
Ga0006766_109410	Not Available	607	Open in IMG/M
Ga0006766_109583	Not Available	1547	Open in IMG/M
Ga0006766_110238	Not Available	740	Open in IMG/M
Ga0006766_110440	Not Available	713	Open in IMG/M
Ga0006766_111170	Not Available	1189	Open in IMG/M
Ga0006766_111451	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Clavicipitaceae → Claviceps → Claviceps purpurea → Claviceps purpurea 20.1	2153	Open in IMG/M
Ga0006766_112189	Not Available	671	Open in IMG/M
Ga0006766_112705	Not Available	635	Open in IMG/M
Ga0006766_113256	Not Available	703	Open in IMG/M
Ga0006766_113662	Not Available	636	Open in IMG/M
Ga0006766_114701	All Organisms → cellular organisms → Bacteria	696	Open in IMG/M
Ga0006766_117083	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Klebsiella/Raoultella group → Klebsiella → Klebsiella cf. planticola B43	766	Open in IMG/M
Ga0006766_117137	Not Available	641	Open in IMG/M
Ga0006766_117831	Not Available	547	Open in IMG/M
Ga0006766_128181	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	605	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006766_100388	Ga0006766_1003881	F104573	MQPELGSRFYLKLLNYCLETDSKKVSNGKVKRTLKKGLKVLEMVKRERNKNYHNR*
Ga0006766_100390	Ga0006766_1003901	F079670	VWKPIVKKYSNGKVKRTLKKGLKVLEMVKRERNKIIIIDNSLKLIQFLYIFFKKIYKFVLIIFEF*
Ga0006766_100623	Ga0006766_1006232	F001633	TRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERRAGRGADTPATFTFSRRHPYHGDGTGFWPAVGPALRV*
Ga0006766_100717	Ga0006766_1007171	F034588	DRSSSRLDSLSFGGAGCESSRLPLRFASPVSPTISFWVAPDPHPPVPADFRSESPRSSVPSGRPLRISGLLRLFVLGFVAQTFPKSPWFLLAQRRRFRLSRVAPKLPSSADPYLPPQVAPASASTAGSMITPWLNRTLHPQLAPRMNLRYHSGTSIPDLISSALLISIHCPQSADHEP*
Ga0006766_101151	Ga0006766_1011512	F001633	GVGVRHSLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVTPAGGGSPDVVRTRLQTNFSRPYRCHRDGASLWLAVGPVLRV*
Ga0006766_101802	Ga0006766_1018021	F079670	VWKPIVKKYSNGKVKRTLKKGLKVLEMVKRERNKIIIIDNSLKLSTTLYFS*
Ga0006766_101928	Ga0006766_1019281	F046210	VIVANIQMKNLKIEAEKGFRRTLFEPELVDPNLEINFVNDAGVAVKGCNVNS*
Ga0006766_102526	Ga0006766_1025261	F001633	QMFRSHGGTVLTVAGRDLSSEASAPGSDAPCQERRAGRGADTPATIAFARRHPYHGDGAGL*
Ga0006766_103293	Ga0006766_1032931	F056192	FEGQRAKREVAELERSAARWYVKTIATRRGVKADRATRYGKFLRLKSGRALSGRDRKVLKGSGSPNTSGELWERKLATGDSRSSPAGRKKPGEAGSGKPNGSIEILRQLRCRPGASTRPRGFAARQTFAAGE*KAASRSKLLPERRADEHQSYDPRLNKTGRGERRAHVTSDPDAKLRPCMPVGERAIHRVTWN
Ga0006766_104931	Ga0006766_1049311	F012439	LIATSAGGVHHSAGNPDPAVTFRPRRFSRPRRFPPPPAFAGLFHPAATSRVCPSGVCPSPRSRTGFPRPIHALLALNADTCDQRPRPRLQGFAPRFECGVGRDGLGLDRSAPLVGFSSSGCSLRATWECLHIPSALDLHAARNP*
Ga0006766_105358	Ga0006766_1053581	F027071	PQVTTELSQAIRVFFLSSILTSSCPLIKRARRKSCSNLISFYQHSRSIFAALPCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSTPLAPALANLRSKHKRQHGNAPSGQRINFLRNHFTGKRFAPSLPLHQLSLTLRIKIIGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006766_105495	Ga0006766_1054951	F100491	VPSDRQAACSPTGMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLS
Ga0006766_106615	Ga0006766_1066151	F047514	VLNRSMPESSEAVPRGAGEEDNMGTRDGAGVRAGCNACSDARPSRESYMEKGRQHIR*
Ga0006766_107061	Ga0006766_1070611	F066797	LIIYKIFSSADLGGVATIKGDNFIITHNTLKTEVAKVFLTTVIDQELVDPKLKDYEK*
Ga0006766_107509	Ga0006766_1075091	F076940	RTEQRNRKCRAFRLLAPRLAFSPPAGSKPPGTPRAAFDQDRSLVTAFRSPVTVAPSRSHHPGVNASSLLLRVQPLVCTARSDLPLHHRYRFAPASGDFVASIPLQRLRAARVAAPAISTPLQDYYFLPDQSVQSRWPPLGPPSEFARFPLAPWCRLLLGLAPDHRSWFATFPAACCS
Ga0006766_108130	Ga0006766_1081301	F048143	PDAPMREQPSADMIDERLAAWQAGDYPEGWSVYDALGWSRDEYMIWLADPSRVPERPLSALPDPEIYAPVERHEERVESA*
Ga0006766_109410	Ga0006766_1094101	F060086	AGQEDPFELDSSLLLSSGRLGEDVRGSTSYDHETPLLVDLADLLYNGIA*
Ga0006766_109583	Ga0006766_1095831	F066797	MFEHLSNNPSADLGGSSNYSKEISVKFDKIFLTVTLKTEVAKVFMTTEIAHELVDPNPKDYEK*
Ga0006766_110238	Ga0006766_1102381	F027071	QVTTELSQAYRVSFLSSILTSSCPLIKRARKKICSNPISCYQHSHSGIAALPCGGAVSSNATDYNIELKLTTTLLRKQLPLFVQRRHLPSMPLAPVLANLRSKHKRQQGNAPSGQRFDSLRNHFTGKRFASSLPLHQLLLPLRTKITGHFNKAKLNSTDTSLLAKLCISSANALANILAISNFTLLAKHQTTVPEEISFDLLGPRLTGHIATTGLLPYQSVARSIQQPRTDELTPVNIAI
Ga0006766_110440	Ga0006766_1104401	F040542	MTKFLLMSAAAAALIATPTMAAKNISPRASGVVGFHGVKAPAHQVKNPAAPLCGTGFGAELPTPDGLIAWNDTSNGYNTAGGADFKCTLAKTKIKEVDVYGYNAPANPEQYNVTIYKNSGADGTDEPNDSKVKCAYTGVSAEGGGQYPTHTLSHIKLPTACKVKAGHYWVAVQNNDSAGPWYWEMTSTLGGSAQGDWDDVNNFFGSGCTSFNNDEYLQQCLGYTY
Ga0006766_111170	Ga0006766_1111702	F048649	MKKLIITLAALMVSIAAYGQGQFNFNNRIGTEVNARFVQASDATGQSSVGSPDWTVQLLGGPVGGTLAPLNPSSTTFRGAGGTASAGYVTSVAPIVPGVDVGGTAAIVVRVMGPGGITQDFPYTVANLGGGTVIPPNLQMGTTPLVVGVPEPT
Ga0006766_111451	Ga0006766_1114511	F032070	MPFVADASTVGIPNFGIIHIDPDQTAKAFQTYLDTASKLTGVALDDINRTVISLPPDPQRTNLVELTGLGMKLFDAVVWLTAGRPTSHPLRADPGKTKESIPSQHQIARAVFYCYFMLVTQARYPGRLGSTVQAKIPNFLNTIMGMSEEQGVYVDRICSFEPQKFDPKWAQYVKFSGFGQEVLSRFGLGVAGYRMFGPFSLYQPKPGVDASLQNAITFARTVATAPSSWSVHPLTRDPNILTSRGNLNKNLGNLILEVFTTEDIDEMVAAKILFKKPEKEPTHRQYKLWAPQDDITGLSKIF*
Ga0006766_112189	Ga0006766_1121891	F005048	VDILLHLPHRAPLALSAQVRRRDSLSMGLKFEHTTPKAEDSIQDFVVETFASATTDNGRVALVVEPRHAERQALVRTLRELGRRAIGVATALDAVQMLVEEGAHVDTVFIEAVSESLPSLELVEFLSHNHPRIRRVLIGEQHEIAASWVAQATGEVHALLETPCDPEAVHRVLHRLQFTPNDAALS*
Ga0006766_112392	Ga0006766_1123921	F080934	QVTYPTIQLPPGMHGSCAIRVIVRIASLLPVPDFRPTRINALKRASRLTPVRNLLLGTTFRSLEKTARFRATFPKSMLLAYPFGSPLSLRRTRSTPLVHAVWLAPDCANSSRQTRCPVPSERPRPFSRSALPFRAFWTPPDQSANLDTSREAHRIETPDFLRSPLPAVLIEPAMDQRSGPATFRSAYC
Ga0006766_112705	Ga0006766_1127051	F021903	INFENKDLHSSNKLLPYAKLVTDSAQGFGPEVMDFYGTGSSSLAVGFSSTYAAGAAANAYEIWVDRPNSSPNQDSSFTFLYDTNAFIVVYQADGTPTGNKQVLFDARTKVPYAYGFYNRDVWNKVPTTATLWHIIDISQPQGGVVFNGFPGENNTADTSATPGAKYGFDGFNFEKTKSIPCGHVASRGANPAYCPATLTYPQSKK*
Ga0006766_113256	Ga0006766_1132561	F072008	FASPFSGDTCDQSNNGWWQQSTSSGGYTWPFLSSSRQQADGYTNSEGVISACVYVDTTLAPGTTPGKINVQAIVESPTQGGLYNSSGVAGNINGINPYYPLGNNLSLPNYLGVPNIVLTATITVVGPPASITVAAAPTSLNCGEKATITVTVKDSAGQNVSDRTRVELVTNFGGVIGGTTATLGPVGITGGNVYPISSSCAETFNGVATAYLLTSTDHVGPYEVVAAAGGSVMA
Ga0006766_113662	Ga0006766_1136621	F029638	LNLGGSVVQNPCDTAGTQGSWNFVNTLPVITGQTSAQFGFSCASVGVVTPSTFPNGLPAGQYRVVEVAGPNSFCTLVQVYNGNQANNQQLTLPYSGAMLTQPVTLNLPSANIYDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTPGLVNTSNVEISPAPGSDDDARLDIRIRDSASIIIPNAHVTVLIDKGALALRRDLSSFPNSGYDPIE
Ga0006766_114701	Ga0006766_1147012	F021791	VRFCVDYRIKPHIPPFEQIPANSVKFQPCDFTAQAEYFSR*
Ga0006766_117083	Ga0006766_1170831	F070259	MKMESLVIVNQDVTVNDISNFAHTAHHARRVALFGNLISFVKLSRN*
Ga0006766_117137	Ga0006766_1171371	F005905	YDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTAGLVNTSNVEISPAPGSDDDARLDIRIRDAASIPIPNAHVTVLIDKGALALRRDFSSFPNSGFDPIEPFPAAANFASPFSGDTCDQSNNGWLTQSATSGSYSWPFLSTSRQQADGYTNYEGVLSACVYVDTVLAPGTTPGKINVQAIVESPGQGGLYNPGGVPNNQFGFNPYYPLGNTLSL
Ga0006766_117831	Ga0006766_1178311	F095010	STNAFVQSILVGTRPTAAGSVRVAKGGCNSLRPDPGGRDAQTPETRGTIGSVLTKLVSPGSASSRTGPNGGRMSRNPIERRAPPQAVWSFDSHTSFVASPGGQRQGRIGEVLIRYFGRDAQGIITSRPRKCRTPTERWPPRTESETVSRFFPESGHPIGSRSGLRLLPSGRRGRLVVGLP
Ga0006766_128181	Ga0006766_1281811	F002654	VVCLKGNSPEQELKVPKLLLSENKEVFFKYNQEIGLEAAIF*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003717: Avena fatua rhizosphere microbial communities - H2_Rhizo_Litter_9 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences