Sample 3300003158

Basic Information
IMG/M Taxon OID	3300003158 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061275 \| Ga0006760
Sample Name	Avena fatua rhizosphere microbial communities - H1_Rhizo_Litter_3 (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

3300003158 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061275 | Ga0006760

Sample Name

Avena fatua rhizosphere microbial communities - H1_Rhizo_Litter_3 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	3483159
Sequencing Scaffolds	23
Novel Protein Genes	29
Associated Families	24

Dataset Contents

Total Genome Size

3483159

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	15
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	1
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	2
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Saccharomycotina → Saccharomycetes → Saccharomycetales → Metschnikowiaceae → Clavispora → Clavispora lusitaniae	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Eurotiomycetes → Eurotiomycetidae → Onygenales → Arthrodermataceae → Microsporum → Microsporum canis	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei

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 → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Saccharomycotina → Saccharomycetes → Saccharomycetales → Metschnikowiaceae → Clavispora → Clavispora lusitaniae

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Eurotiomycetes → Eurotiomycetidae → Onygenales → Arthrodermataceae → Microsporum → Microsporum canis

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea

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

Zoom:	Powered by OpenStreetMap^©

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
F001633	Metagenome / Metatranscriptome	660	Y
F001758	Metagenome / Metatranscriptome	640	Y
F006338	Metagenome / Metatranscriptome	375	Y
F010442	Metagenome / Metatranscriptome	303	Y
F012439	Metagenome / Metatranscriptome	280	Y
F014482	Metagenome / Metatranscriptome	262	Y
F015430	Metagenome / Metatranscriptome	254	Y
F021064	Metagenome / Metatranscriptome	220	Y
F027071	Metagenome / Metatranscriptome	195	Y
F033437	Metagenome / Metatranscriptome	177	Y
F034588	Metagenome / Metatranscriptome	174	N
F037587	Metagenome / Metatranscriptome	167	Y
F038031	Metagenome / Metatranscriptome	166	Y
F040607	Metagenome / Metatranscriptome	161	Y
F062739	Metagenome / Metatranscriptome	130	Y
F065302	Metagenome / Metatranscriptome	127	Y
F066797	Metagenome / Metatranscriptome	126	Y
F070802	Metagenome / Metatranscriptome	122	Y
F076133	Metagenome / Metatranscriptome	118	Y
F076940	Metagenome / Metatranscriptome	117	Y
F083540	Metagenome / Metatranscriptome	112	N
F100491	Metatranscriptome	102	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006760J45825_100048	Not Available	608	Open in IMG/M
Ga0006760J45825_100079	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	822	Open in IMG/M
Ga0006760J45825_100115	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	590	Open in IMG/M
Ga0006760J45825_100170	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	812	Open in IMG/M
Ga0006760J45825_100323	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	778	Open in IMG/M
Ga0006760J45825_100392	Not Available	529	Open in IMG/M
Ga0006760J45825_100451	Not Available	548	Open in IMG/M
Ga0006760J45825_100457	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	811	Open in IMG/M
Ga0006760J45825_100539	Not Available	513	Open in IMG/M
Ga0006760J45825_100658	Not Available	591	Open in IMG/M
Ga0006760J45825_100720	Not Available	598	Open in IMG/M
Ga0006760J45825_100871	Not Available	709	Open in IMG/M
Ga0006760J45825_101085	Not Available	571	Open in IMG/M
Ga0006760J45825_101595	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Saccharomycotina → Saccharomycetes → Saccharomycetales → Metschnikowiaceae → Clavispora → Clavispora lusitaniae	533	Open in IMG/M
Ga0006760J45825_101600	Not Available	696	Open in IMG/M
Ga0006760J45825_101659	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Eurotiomycetes → Eurotiomycetidae → Onygenales → Arthrodermataceae → Microsporum → Microsporum canis	503	Open in IMG/M
Ga0006760J45825_101925	Not Available	520	Open in IMG/M
Ga0006760J45825_101943	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea	636	Open in IMG/M
Ga0006760J45825_101984	Not Available	822	Open in IMG/M
Ga0006760J45825_102152	Not Available	1261	Open in IMG/M
Ga0006760J45825_103236	Not Available	1175	Open in IMG/M
Ga0006760J45825_104436	Not Available	534	Open in IMG/M
Ga0006760J45825_104490	Not Available	541	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006760J45825_100048	Ga0006760J45825_1000481	F037587	GTKRKWFQVTRFTALFTTGMHGTEHCNLGAPSVLPFHSPISDFAVTGSKLRSALQLSPGRGWMLVTAFRSPATVAAFTASIPGSTFLACYFASAPIDSAARSIFGSATGPRFAPRPAASTLQTRCSFLDLDLPHTRPPLPFRTVTSLRIKAFCRICCSSTRLPIPPDLRSLPAAGLYH
Ga0006760J45825_100079	Ga0006760J45825_1000792	F076133	MSRVRPTGRFDPCADAVTPEGFGCYCADQNAVAVPGGPTPPKGLARRTSGARKGITAAGSERTWQSPSNLLNGAA*
Ga0006760J45825_100079	Ga0006760J45825_1000793	F000344	MRPKHPHAAESGVGKHIARESESVQACAAGKERVTNAHPH
Ga0006760J45825_100115	Ga0006760J45825_1001152	F001633	PGGTLLGALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSDAPCRERRAGRGADTPATFTFSRRHPYHGDGTGFWPAVGPALRV*
Ga0006760J45825_100170	Ga0006760J45825_1001701	F033437	GLGVRHALFPDRTRLGALAFAGCVLPDATLRGKRMFRSHGGTVLTVAGRDLLSEVFAPSSVAPCRERHAGRGADTSAILLRVGTVTAGTAPAFGWSLALRYGSDLLTLRLLSLLQCGGVVFTLPH*
Ga0006760J45825_100323	Ga0006760J45825_1003231	F000344	MRPKHLHAAESGVGKHITRESERAQACAAGKERVANAHSH
Ga0006760J45825_100392	Ga0006760J45825_1003921	F040607	VPSDLISSLALRGHAPHRALQSTAPGAPPVGSPTGVFTTRRINAFRHAACCYRSGPVARNGLSLACNGCSFSEPPSQGQRSWPATSQPPARSHCPFGFPLRHRFRFAPDGGSIFASIPLQRFHTVRTTAPAVSTPLRASYVPPDQSVQPHRLPLGPPSGFARFPIAPRSLFYS*
Ga0006760J45825_100451	Ga0006760J45825_1004511	F065302	VQGSRYDSATRLHADVRFAARCSGTACHSPSPLFSMRVTVTSALDGHNTLPEPESRYGLSLAHNDAFATIARSTFLTCTFVSTSETLANPFDSRLLRSVRFRGRTGALSLPGTRFPRRSPTFPIDPRSPLPFRSSCENPPDQSVQPVPFQEARLARSIASYSPPLPLSIPLQINVNSL
Ga0006760J45825_100454	Ga0006760J45825_1004542	F000203	FPALTFGAFLAEAASFPTLFSTASGVFGLVAGPSSALRSLNFE*
Ga0006760J45825_100457	Ga0006760J45825_1004572	F001633	GVGVRHSLFPGGTRLDALAFAGGVLPDATLRGMRMYRSHGGTVLTVAGRDLSSEASAPGSVTPAGGGSPDVVRTRLQTNFSRPYRCHRDGASLWLAVGPVLRV*
Ga0006760J45825_100539	Ga0006760J45825_1005391	F027071	RKQLPLFVQRRHRPSTPLAPALANLRSKHKRQHGNAPSGQRINSLRNHFTGKRFASSLPLHQLSLTLRIKITGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006760J45825_100658	Ga0006760J45825_1006581	F062739	FQVIGFPVRSPPACTALSYAIKSAGRFACRLLNERFRRSQNQCLQARRLLPLSRDRIARDGLSLACNGCHLSAASIPGSKLPACHFAPFQVSVHARSALQLRYHVTGLRRSRPPQRLWPVALPPPDSADRAYRLRSPLGCLFPLGSKRSTAFAARRSA*
Ga0006760J45825_100720	Ga0006760J45825_1007201	F076133	RPTGRFDPCADAVTPEGLGCYCADQNAVTEPGGSTPPKGLTRRTSEARKGAVTAGSEWTWQSP*
Ga0006760J45825_100720	Ga0006760J45825_1007202	F033437	RSQFVGVGVRHALFPGGTCFGALAFAGDVLPDATLRGMRMFRSHGGTVLTVTGRDLSSEASSPGSDAPCRERRAGRGADTPATFSSRVGTLTARTAPACDWPLASRYGSDLLTLRLLSLLQ*
Ga0006760J45825_100871	Ga0006760J45825_1008711	F012439	RFHSPASFPPPPECYGLRAALLAWLNLATQPNGRRAPPMGSSSLIAASTGGVYHSAGNPDPAVTFRPRRFSRPRRFAPPPAFAGLFHPAATSRVCPSGVYPSPRSRAGFPRPCHALLPLGAPAFDQRTRPRLQGLAPRGECGAGGDGLGHHRSAPLMGFSSPGHSPRASWECLHIPSAHGLHREEPLAADPRRFADARVGLPGFRLPTRSSFLA*
Ga0006760J45825_101085	Ga0006760J45825_1010851	F034588	SRLDSLSFGGAGCESSRLPLRFTSPVSPTISIRVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPWLAPWMNLRYQSGTSIPDLTSSAFSISIHCPQSADHEHKTKTVTCAFHQAGAA
Ga0006760J45825_101305	Ga0006760J45825_1013051	F100491	ACSPTGMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLK
Ga0006760J45825_101595	Ga0006760J45825_1015951	F076940	EQRNRKCRAFRLLAPRLAFSPPAGSKPPGTPRAAFDQDRSLVTAFRSPVTVAPSRSHHPGVNASSLLLRVQPLVCTARSDLPLHHRYRFAPASGDFVASIPLQRLRAARVAAPAISTPLQDYYFLPDQSVQSRWPPLGPPSEFARFPLAPWCRLLLGLAPDHRSWFATFPAACCSSN
Ga0006760J45825_101600	Ga0006760J45825_1016001	F066797	VQGLNLYQIISSADLGGSSNYSKEKHYQIAILKTEVAKVFMTTEIAHELVDPNPKDYEK*
Ga0006760J45825_101659	Ga0006760J45825_1016591	F014482	LSSPNSGFPGPRLNASWLAACFLLPGTGSLVTAFRSPATAAASRLPPFRGQSSQPAPSRPSKSFPCPVHPRLCYRTPGLRRWRLLLRLGPVTLPLPGLACRIALPPLPSGNLTSLGIKAFSRARCLPGSPDESARSPFAPRCPFSKVRASDHRSRTATFPPACCSSN
Ga0006760J45825_101925	Ga0006760J45825_1019251	F014482	AGRFASLLPENLFPGSRINASWLAACLTLPETGPLVTAFRSPATAAASRLPPFRGQCSQPATSRPTESFPCPVRPRLRNCLPGLRRWRLPHSLEPVTLPLPGPACRIALSPLPSGSFCSLGIKAFDCACCLPGPPGESARSPFAPRCPFSKVGASDHRSRAATFPPACCSSNL
Ga0006760J45825_101943	Ga0006760J45825_1019431	F015430	VLILAATLAMAFADTPCTPPQTKIYWKAPCDGQTFENKIIPTNVTVTQAGQLVDDRGGLDLEVAIDIVSTIQNNYGTTTKPLVDLAIFEYSKPLFGGDCSWKALPTFGLLSNLDACTMIENCHMTGLPTTLKASVNVKSIAGPLLHLVTKDAYYGLTLTFKDDKTQTVCVYIQDRVHNV*
Ga0006760J45825_101984	Ga0006760J45825_1019841	F001758	VTGQRLSQAGWLSPSKAGSQGSGTEAEFTSSSGEVRASLVNAKKGLSDEER*
Ga0006760J45825_101984	Ga0006760J45825_1019842	F006338	LSGPATRPKTPLAVENSVGKLAAPEMRRLMSAWEREIGELP
Ga0006760J45825_102152	Ga0006760J45825_1021521	F070802	RPALRIIRILPSAISSILYISSSVLAIMKQYSSIVLFMLVAISGHALGAPLDGSNGDCPGGLANGAQIERGRSVFECRNGNVVAKACVADDLKHIDIGSTTDKKAFRLQCTVNSDGSATLEPTACLHQGQEHKVDEQWEDSTNFYTCKKSETELKVITAGCIDQGKRVPLNQQAAHDDFVFVCNGTVNNGARMMPSGCVKDGKQYNVGDSFEAGNLWFNCTRTGSEKVAAKAAGCVTNGKRVNDGDRYSDNEVIQECDISGQPRLIGCAQRDDKGEIVERRVGCTWVEGPEPFQYEWTCRQESNSAKKVQVRCNYKVGGGVYNIEPGCYRVIDKSAFGCLNNAGTLKLQSFQGDNAEQSAQGAGLHAC*
Ga0006760J45825_103236	Ga0006760J45825_1032361	F010442	MMHSSFFASLLVAALASTILADTTSSGNRQCPGGYDNGKQMNIGRYWYECRDGQVIPKGCLTPEESRIDIDGTFDTNEYRMQCVMGQDGFLSLTYKACMHKGSEHDVGAQWDNGVAYFTCVKEGNNVRVITLGCVDQGKQMKLDDRVAKGDFIFQCKEATDGTPKVNKVGCMQEGRKYNIGETFEGPKWWYTCTDSGAKVVGCMYQGHRLVDGDHFTEGDMMYSCRVRADKTFFEPFACLQREENGASIERKVGCFWVEGQGSNAFEYTCKPDNNNLISKVQVKCVYRASQGNFKLEPGCVQQAGDIAVGCLQDSSSGKLTIQTYSPDQMGSLPGLHKC*
Ga0006760J45825_104241	Ga0006760J45825_1042413	F021064	KKANLLNGLNWKPFDLPKSVIGNSIIAKIAANIAITPNNLFGIDLNIA*
Ga0006760J45825_104436	Ga0006760J45825_1044361	F083540	SFSLFQNSPVQKSLDQLQYRVDFKGSAFKDCAYMRDIHDNKILKAKTATWSMDHKFKVTNLQQHDVWGTASCKLGLDACKYLIYFRDIEKAWFRKTMCKNRQYFYEVEFMDFRPNKWTIEAPALHRMVIKRDEGVVATLNRGSFEIHEFLDTEDTFVVQCIVLLFAQAYADGVCLP*
Ga0006760J45825_104490	Ga0006760J45825_1044901	F038031	VFSDPFSITYDGNVKSLPRTEVARDYNRYTTADGEFEVLISNNLRKPQNGIATVSFKLARYLPDPTPGDFSNPYRNVRNSFGFSYGFDAITRAEVSVDVPRLRATVNTLIDSAFQGRLLGGER*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300003158: Avena fatua rhizosphere microbial communities - H1_Rhizo_Litter_3 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences