Sample 3300002866

Basic Information
IMG/M Taxon OID	3300002866 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061287 \| Ga0006772
Sample Name	Avena fatua rhizosphere microbial communities - H3_Rhizo_Litter_15 (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

3300002866 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061287 | Ga0006772

Sample Name

Avena fatua rhizosphere microbial communities - H3_Rhizo_Litter_15 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	7416223
Sequencing Scaffolds	29
Novel Protein Genes	31
Associated Families	29

Dataset Contents

Total Genome Size

7416223

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	23
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora maris	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Deuterostomia → Chordata → Craniata → Vertebrata → Gnathostomata → Teleostomi → Euteleostomi → Sarcopterygii → Dipnotetrapodomorpha → Tetrapoda → Amniota → Mammalia → Theria → Eutheria → Boreoeutheria → Euarchontoglires → Glires → Rodentia → Myomorpha → Muroidea → Muridae → Murinae → Rattus → Rattus norvegicus	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → unclassified Streptomyces → Streptomyces sp. C	1
All Organisms → cellular organisms → Eukaryota → Amoebozoa → Tubulinea → Elardia → Arcellinida → Sphaerothecina → Arcellidae → Arcella → Arcella intermedia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatibacillum → Desulfatibacillum aliphaticivorans	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

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

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora maris

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Deuterostomia → Chordata → Craniata → Vertebrata → Gnathostomata → Teleostomi → Euteleostomi → Sarcopterygii → Dipnotetrapodomorpha → Tetrapoda → Amniota → Mammalia → Theria → Eutheria → Boreoeutheria → Euarchontoglires → Glires → Rodentia → Myomorpha → Muroidea → Muridae → Murinae → Rattus → Rattus norvegicus

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → unclassified Streptomyces → Streptomyces sp. C

All Organisms → cellular organisms → Eukaryota → Amoebozoa → Tubulinea → Elardia → Arcellinida → Sphaerothecina → Arcellidae → Arcella → Arcella intermedia

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatibacillum → Desulfatibacillum aliphaticivorans

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?
F001011	Metagenome / Metatranscriptome	806	Y
F001380	Metagenome / Metatranscriptome	709	Y
F001633	Metagenome / Metatranscriptome	660	Y
F001758	Metagenome / Metatranscriptome	640	Y
F005905	Metagenome / Metatranscriptome	386	Y
F009448	Metagenome / Metatranscriptome	317	Y
F015807	Metagenome / Metatranscriptome	252	Y
F022652	Metagenome / Metatranscriptome	213	Y
F024042	Metagenome / Metatranscriptome	207	Y
F026580	Metagenome / Metatranscriptome	197	Y
F027071	Metagenome / Metatranscriptome	195	Y
F033437	Metagenome / Metatranscriptome	177	Y
F038031	Metagenome / Metatranscriptome	166	Y
F043245	Metagenome / Metatranscriptome	156	Y
F044324	Metagenome / Metatranscriptome	154	Y
F046210	Metagenome / Metatranscriptome	151	N
F055474	Metagenome / Metatranscriptome	138	Y
F059436	Metagenome / Metatranscriptome	134	N
F063283	Metagenome / Metatranscriptome	129	Y
F066797	Metagenome / Metatranscriptome	126	Y
F072008	Metagenome / Metatranscriptome	121	Y
F076910	Metagenome / Metatranscriptome	117	N
F079670	Metagenome / Metatranscriptome	115	N
F081396	Metagenome / Metatranscriptome	114	Y
F082288	Metagenome / Metatranscriptome	113	N
F088039	Metagenome / Metatranscriptome	109	N
F095062	Metagenome / Metatranscriptome	105	Y
F100491	Metatranscriptome	102	Y
F102215	Metagenome / Metatranscriptome	101	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006772J43183_100004	Not Available	617	Open in IMG/M
Ga0006772J43183_100084	Not Available	822	Open in IMG/M
Ga0006772J43183_100165	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	593	Open in IMG/M
Ga0006772J43183_100313	Not Available	569	Open in IMG/M
Ga0006772J43183_100346	Not Available	502	Open in IMG/M
Ga0006772J43183_100447	Not Available	642	Open in IMG/M
Ga0006772J43183_101283	Not Available	728	Open in IMG/M
Ga0006772J43183_101971	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → Micromonospora maris	548	Open in IMG/M
Ga0006772J43183_102235	Not Available	748	Open in IMG/M
Ga0006772J43183_102245	Not Available	903	Open in IMG/M
Ga0006772J43183_102382	Not Available	971	Open in IMG/M
Ga0006772J43183_102687	Not Available	525	Open in IMG/M
Ga0006772J43183_102711	Not Available	511	Open in IMG/M
Ga0006772J43183_103238	Not Available	813	Open in IMG/M
Ga0006772J43183_103446	Not Available	1049	Open in IMG/M
Ga0006772J43183_103833	Not Available	741	Open in IMG/M
Ga0006772J43183_103957	Not Available	601	Open in IMG/M
Ga0006772J43183_104077	Not Available	1040	Open in IMG/M
Ga0006772J43183_105557	Not Available	570	Open in IMG/M
Ga0006772J43183_106038	Not Available	683	Open in IMG/M
Ga0006772J43183_106194	Not Available	510	Open in IMG/M
Ga0006772J43183_106772	Not Available	586	Open in IMG/M
Ga0006772J43183_106781	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Deuterostomia → Chordata → Craniata → Vertebrata → Gnathostomata → Teleostomi → Euteleostomi → Sarcopterygii → Dipnotetrapodomorpha → Tetrapoda → Amniota → Mammalia → Theria → Eutheria → Boreoeutheria → Euarchontoglires → Glires → Rodentia → Myomorpha → Muroidea → Muridae → Murinae → Rattus → Rattus norvegicus	921	Open in IMG/M
Ga0006772J43183_107779	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → unclassified Streptomyces → Streptomyces sp. C	603	Open in IMG/M
Ga0006772J43183_108886	Not Available	500	Open in IMG/M
Ga0006772J43183_109575	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Tubulinea → Elardia → Arcellinida → Sphaerothecina → Arcellidae → Arcella → Arcella intermedia	790	Open in IMG/M
Ga0006772J43183_110264	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatibacillum → Desulfatibacillum aliphaticivorans	501	Open in IMG/M
Ga0006772J43183_114240	Not Available	544	Open in IMG/M
Ga0006772J43183_114448	Not Available	597	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006772J43183_100004	Ga0006772J43183_1000041	F079670	VKRTLKKGLKVLEMVKRERNKIIIIDNSLILRTILYFLKKKKYNLS*
Ga0006772J43183_100084	Ga0006772J43183_1000842	F001633	GVGVRHTLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPAGSGAPDVVLTRLQFFCLASAPYHGDGASFWPAVGPALRV*
Ga0006772J43183_100165	Ga0006772J43183_1001651	F033437	LGVRHALFPDRTRLGALAFAGCVLPDATLRGMRMFRSHGGTVLTVAGRDLLSEVFAPSSVAPCRERHAGRGADTSAILLRVGTVTAGTAPAFGWSLALRYGSDLLPLRLLSLLQCGGVVFTLPH*
Ga0006772J43183_100313	Ga0006772J43183_1003131	F026580	TQERFELERIAVTQRVNGCYCVSARTNDSGGLRKKVCQTKDAEKRDKVSVRTGKDTRSGQDP*
Ga0006772J43183_100346	Ga0006772J43183_1003461	F079670	VKRTLKKGLKVLEMVKRERNKIIIIDNSLKLRTILYFFKKKI*
Ga0006772J43183_100447	Ga0006772J43183_1004471	F001758	VTGEKLSQAGWLNSSENGPKGLEREAEFTSSSGSVRALSVNAKKGLKG*
Ga0006772J43183_101283	Ga0006772J43183_1012831	F027071	TELSQANRVFSLSTILTSSYPLIKRARKKRCSNLISFYQHSRSIFAALPCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSTPLAPALANLRSKHKRQHGNAPSGQRINFLRNHFTGKRFAPSLPLHQLSLTLRIKIIGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPSNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006772J43183_101971	Ga0006772J43183_1019711	F022652	SRVHGTIERTTRMLSVRSAAKCASSFVCCSPLLLFSLPRVNTANAVFGYRTLPEPASRCGLSLTRNDAFAPFRGQGSRPAPSIPRQTPSRIRSIPGSIAPFGFEADPGRHPRPKPVFRADFRRSRDFFQPPLPFGLFRALRIKAFNRLLPHEARPARLRSPFCSPSRSLSIPLRIDACGSLR
Ga0006772J43183_102235	Ga0006772J43183_1022351	F046210	IEAEKGFRRTLFEPELVDPNLEINFVNDAGAALKSCNVNS*
Ga0006772J43183_102245	Ga0006772J43183_1022451	F081396	PEKERDLVAGSKGSEAGQEPRAGRLFSGESDQAPDRRTLKVIIESDCDELGERSWAAPAVTLLVGFGEKNPEEEKPRRGSDPVGG*
Ga0006772J43183_102382	Ga0006772J43183_1023821	F063283	YELTNLQWSGTGDLTGTNNSPSFYFYMTPPFTTADSLIRIILSWGTLISNPSNSLPDMDLVVAGPVDQQSIATYGNGIINFENKDLHSSNKLLPYAKLVTDSAQGFGPEVMDFYGTGSSSLAVGFSSTYAAGAAANAYEIWVDRPNSSPNQDSSFTFLYDTNAFIVVYQADGTPTGNKQVLFDARTKVPYAYGFYNRDVWNKVPTTATLWHIIDISQPQGGVVFNGFPGENNTADTSATPGAKYGFDGFNFEKTKSIPCGHVASRGANPAYCPATLTYPQLKK*
Ga0006772J43183_102687	Ga0006772J43183_1026871	F001380	RTFASQQVLRIDRSSLAITAFQHVTGQCNKRVVIGQHLPESESRYGLSLARNDACATIARSMFPACTFVSTLKIFANPFDSRLLRSVRFRGRTGAISTPGTRYSRRLQHFFFPGLHSPLGLFQNPPDQSVQPVPSQKTRLTLRSIASYSPLLPLAIPLQINANSLRTARLSFR
Ga0006772J43183_102711	Ga0006772J43183_1027112	F095062	LPLNSQVAFRSQVSGPLSGIADFLEGFHGPCLDPESFPVQTLSLSRLSAPFIWLISFPKPPESSVRADTQ*
Ga0006772J43183_103238	Ga0006772J43183_1032381	F024042	MIEPVTRAHEDGLVPDSSLSAEGKLRRAESALWGTSFRDEGKHGEPHDRQQGATPLHGRGGETVEVVRNHGDGTRGGLAAHPRRETRRRGSRASDSSASYDGGAIFGQPQERKSDRQVGPHGSGRDGKVGVKVRRVARVHGFVITRARS*
Ga0006772J43183_103446	Ga0006772J43183_1034462	F066797	LNLHQIISSADLGGSSNYSKETIFNSSTLKTEVAKVFMTTEFAHELVDPNPKDYEK*
Ga0006772J43183_103833	Ga0006772J43183_1038331	F027071	QVTTELSQAYRVSFLSSILTSSCPLIKRARKKICSNPISCYQHSHSGIAALPCGGAVSSNATDYNIELKLTTTLLRKQLPLFVQRRHLPSMPLAPVLANLRSKHKRQQGNAPSGQRFDSLRNHFTGKRFASSLPLHQLLLPLRTKITGHFNKAKLNSTDTSLLAKLCISSANALANILAISNFTLLAKHQTAVPEEISFDLLGPRLTGHIATTGLLPYQSVARSIQQPRTDELTPVNIAI
Ga0006772J43183_103957	Ga0006772J43183_1039571	F015807	MERLVRHDGESRDTDRPTWSHHRRCSGGQGARREAGSERLEENHRVVINGSDPER*
Ga0006772J43183_103957	Ga0006772J43183_1039572	F059436	MNRSAEDGEWSSPHYGGEGTWVPPRRTKVCAGDTVGKSVSDPGRPGIVHREGMAGIVRHSQTKGRETGNAKPGLKPPMVGADISASEIPTEAVPGVGSGRGTQERGQSKRPRIAAG
Ga0006772J43183_104077	Ga0006772J43183_1040771	F038031	VKVPPALRSRQGWKERSVFSDPFSITYDGNVKSLPRTEVARDYNRYTTADGEFEVLISNNLRKPQNGIATVSFKLARYLPDPTPGDFSNPYRNVRNSFGFSYGFDAITRAEVSVDVPRLRATVNTLIDSAFQGRLLGGER*
Ga0006772J43183_105557	Ga0006772J43183_1055571	F076910	RCQARSVQTYQVFRAQAGECRAVATVPYVPKSSRTAGPLMVSRCVSTGAPPVLGGHGDRQLAGSVHTYRVCRGTETLGPSSEVTRLRRSRNPARAILLDLANDTDEHVRPGNPAPANGSPSSNRGRLEEKPITLKARPHRSTVAPITGPRLGGRGSKEAHQKWPDLGVALRGEGSVLPNVLGAVTEQAI
Ga0006772J43183_106038	Ga0006772J43183_1060381	F005905	IYDLQLTFVNSCVVPGGPSTATSQIAVVIGGSTAGLVNTSNVEISPAPGSDDDARLDIRIRDAASIPIPNAHVTVLIDKGALALRRDFSSFPNSGFDPIEPFPAAANFASPFSGDTCDQSNNGWLTQSATSGSYSWPFLSTSRQQADGYTNYEGVLSACVYVDTVLAPGTTPGKINVQAIVESPGQGGLYNPGGVPNNQFGFNPYYPLGNTLSLPNYLGVPNIVLTA
Ga0006772J43183_106194	Ga0006772J43183_1061941	F044324	GRRKPEEPKARKLEREDHLGIDGRAGDGDTLWIIAAGHTQHRREKIVNGDDGNDVVEVIRAEPEGAGTHEGIRMFVGGNTTADVADPGLEQSFEVDASQAGVGSNTDRKAAPTARKQRVSTRDHGWPGGGSP*
Ga0006772J43183_106772	Ga0006772J43183_1067721	F082288	PNNKTKNMISFLVLSSILGMALASTNAILTAQTANAQFVAKIGGPDTDQVNSRIIGTLLKPGFTNQYNLTMNGKTVPIQYSVLDGSLVGILSDPSRKSLDLAVNPQANGAALEVNVPRHVIDSKNAAGKDAPFIVKVDGNRISGEPSGICVGTCPNILNSFKETYNTNTDRVLTVLVGPESRFIEIIGNHTSA*
Ga0006772J43183_106781	Ga0006772J43183_1067811	F088039	MTGNTQTLNPMTGTNAYANGAYGTTQPGFWGSSTPTVFGTQAFQTQVPMNQLNPFTSSLIQQQPGLFGQPTQQWQTGFGQPSLQWQTGFNSPQIASQAILNAALQTTSPQVINAALQNTPPQVINTVLQTTPPQVLPYILNALACQQVCQQVLQQNPQAIQTIAQQGINQPLFGYGTTSQGQYGFGGTIGGVGFNQVPFVNSYQGQTVPQQFLQGQTVPQQFLQGQNCAGCAPGMQQWAPNSLGFQGGFGQVVPQQPWFNTTYGTW*
Ga0006772J43183_107779	Ga0006772J43183_1077791	F072008	ANFASPFSGDTCDQGTNGWWQQSTVNGNYTWPFLTTSRQQGDGYTNAEGVISACVYVDTTLAPGTTPGKINVQAIVESPTQGGLYNPGLGVNPYYPLGNNLSLPNYLGVPNIVLTATITVVGPPASITVAAAPTSLNCGEKATITVTVKDSAGQNVSDRTRVELVTNFGGVIGGTTATLGPVGITGGNVYPISSSSAETFN
Ga0006772J43183_108016	Ga0006772J43183_1080161	F100491	GTGETALCSPPLVLANRGSVRRCASAFNPGRSPLLDATFRSTASRTGLATDPRNCVNVPGLHLRNDPQIFGPFGAALLPPLSLLLASRGAIYARNPLLDPISGLMTRLRIPAPLWDLSTPRDQSSQPGFEP*SLPLQVARSSFAPRSAATIVSHHSSATDHRSRSATPCQARCPSN
Ga0006772J43183_108886	Ga0006772J43183_1088861	F102215	IEKDSHIAANFWDKYSEPAAHEIQSVGLHMNVDHMAIARQTAAANLTTWCFEYQAFTDLFHWGLAATDPATNTEYFAGTVTDPTMTPATIVGYMYGYSLDNQRLVQMAVDYVSNGNMRAFSFQFNPRNQRYSDAFTVYSTADITQTPQFLGSPEYTSLEKC*
Ga0006772J43183_109575	Ga0006772J43183_1095751	F001011	NDLILNIKNDEFLQILSQHAGIVQSDLSYTDSQGLLQVDTDLLSKLQSVLLPVLVDALKYIPVPKISSNDHDREFWLDKVVLCSYDIIPQNIKFHLQADSEISLPDIETKGTRTYLVIKLEKLLTELKDMEFYYRKKTFPELEDHGRVTFRIKGNGAKLTFTYKLLQGPQDAVPKISQGYASFDISEMEIDFDKSTLKHPLIVPMLTQLFKTQIRMEIERQVEQNLIKFMDQLGERLTSSLKEMNKPFHYGLEAAKKAVKSSQ
Ga0006772J43183_110264	Ga0006772J43183_1102641	F043245	KATITVTVKDSAGQNVSDRTRVELVTNFGGVIGGTTATLGPVGITGGNVYPISSSSAETFNGVATAYLLTSTDHVGPYEVVAAAGGSVMASNGYLAPWYPGGYGTFPNPLSVPSVGGTINATPIVNNYFPWYNQGMLSYSPSSAPVNAQATVTCSVPGAPAGAAPA
Ga0006772J43183_114240	Ga0006772J43183_1142401	F009448	LTIASKYFSGFSTLKDPNGNFWIDQTNGTDDEPVWCPSQTIDYSFYNNADHNGIYQFEIMAGKPGDEKETGFKNFTEWKSINNDPSTTYYKEDGVTPYKAGICSNGKAWTPETAHCRDNAFWKSSFKLPNLSPGNYIFRWIWYGAMTVDGKRVNGPEPSLFVNCKDIIIGTPQQCKNV*
Ga0006772J43183_114448	Ga0006772J43183_1144481	F055474	MPLWIEAFSRFSIPEAHHHKPPDFPSLPVARLQFNDDSRGSTFRVRYVLRGSLFP

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300002866: Avena fatua rhizosphere microbial communities - H3_Rhizo_Litter_15 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences