3300003156: Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_11 (Metagenome Metatranscriptome, Counting Only)

Overview

Basic Information

• IMG/M Taxon OID: 3300003156
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0110115 | Gp0061283 | Ga0006768
• Sample Name: Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_11 (Metagenome Metatranscriptome, Counting Only)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 472429
• Sequencing Scaffolds: 9
• Novel Protein Genes: 11
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
Not Available	6
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Eurotiomycetes → Eurotiomycetidae → Onygenales → Arthrodermataceae → Microsporum → Microsporum canis	1

Ecosystem and Geography

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

Location Information

• Location: Hopland, California, USA
• Coordinates
  • Lat. (^o): 38.97364
  • Long. (^o): -123.117453
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001418	Metagenome / Metatranscriptome	698	Y
F001633	Metagenome / Metatranscriptome	660	Y
F006338	Metagenome / Metatranscriptome	375	Y
F014312	Metagenome / Metatranscriptome	264	Y
F014482	Metagenome / Metatranscriptome	262	Y
F037587	Metagenome / Metatranscriptome	167	Y
F038563	Metagenome / Metatranscriptome	165	Y
F056192	Metagenome / Metatranscriptome	138	Y
F062739	Metagenome / Metatranscriptome	130	Y
F076940	Metagenome / Metatranscriptome	117	Y
F100491	Metatranscriptome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0006768J45827_10002	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	521
Ga0006768J45827_10017	Not Available	606
Ga0006768J45827_10054	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	643
Ga0006768J45827_10056	Not Available	652
Ga0006768J45827_10193	Not Available	593
Ga0006768J45827_10357	Not Available	587
Ga0006768J45827_10382	Not Available	565
Ga0006768J45827_10393	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → Eurotiomycetes → Eurotiomycetidae → Onygenales → Arthrodermataceae → Microsporum → Microsporum canis	536
Ga0006768J45827_10440	Not Available	697

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006768J45827_10002	Ga0006768J45827_100021	F014312	VTKVTAFETNKGTANGVVRLWERVKAERFALAMTPLVEAERLARKTERFSERPDKNG*
Ga0006768J45827_10017	Ga0006768J45827_100171	F037587	GTKRKWFQVTRFTALFTTGMHGTEHCNLGAPSVLPFHSPISDFAVTGSKLQSALQLSPGRDWMLVTAFRSPATVAAFTASIPGSTFLACYFASAPIDSAARSIFGSATGPRFAPRPAASTLQTRCSFLD*LDLPHTRPPLPFRTVTSLRIKAFCRICCSSTRLPIPPDLRSLPAAGLYH*
Ga0006768J45827_10054	Ga0006768J45827_100541	F001633	GVGVRHTLFPGGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERRAGRGADTPATFTVSRRHPYHGDGTGFWPAVGPALRV*
Ga0006768J45827_10056	Ga0006768J45827_100561	F001418	EPKGLKGEAEFTSSSDSVRALSVNAKKGLRDEERLETVPNSVK*
Ga0006768J45827_10089	Ga0006768J45827_100891	F056192	RFEGQRAKREVAELER*SAARWYVKTIATRRGVKADRATRYGKFLRLKSGRAL*SGRDRKVLKGSGSPNTSGELWERKLATGDSR*SSPAGRKKPGEAGSGKPNGSIEILRQL*RCRPGASTRPRGFAARQTFAAGE*KAASRSKLLPERRADEHQSYDPRLNKTGRGERRAHVTSDPDAKLRPCMPVGERAIHRVTWNQ
Ga0006768J45827_10193	Ga0006768J45827_101931	F062739	WFQVIGFPVRSPPACTALSYAIKSAGRFACRLLNERFRRSQNQCLQARRLLPLSRDRIARDGLSLACNGCHLSAASIPGSKLPACHFAPFQVSVHARSALQLRYHVTGLRRSRPPQRLWPVALPPPDSADRAYRLRSPLGCLFPLGSKRSTAFAARRSA*
Ga0006768J45827_10249	Ga0006768J45827_102491	F100491	VPSDRQAACSPTGMHGPNVASGTGET*ALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPT*RLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLKP
Ga0006768J45827_10357	Ga0006768J45827_103571	F076940	VPSDRFPALLSAGMHRTEQRNRKCRAFRLLAPRLAFSPPAGSKPPGTPRAAFDQDRSLVTAFRSPVTVAPSRSHHPGVNASSLLLRVQPLVCTARSDLPLHHRYRFAPASGDFVASIPLQRLRAARVAAPAISTPLQDYYFLPDQSVQSRWPPLGPPSEFARFPLAPWCRLLLGLAPDHRSWFATFPAACCSSNL
Ga0006768J45827_10382	Ga0006768J45827_103821	F038563	MARNRNRRRNRGAGQGTLPGPSAFIQPVQGKDSETLYAQVKKPGGVPSQLTPTHFSVTLKGSPGQMLLHGSRCANTWTTGKIPVEDWKDMFIKVSSGEIIAQTSTIWYKSQ*
Ga0006768J45827_10393	Ga0006768J45827_103931	F014482	LQAKVPDDSPLSSPNSGFPGPRLNASWLAACFLLPGTGSLVTAFRSPATAAASRLPPFRGQSSQPAPSRPSKSFPCPVHPRLCYRTPGLRRWRLLLRLGPVTLPLPGLACRIALPPLPSGNLTSLGIKAFSRARCLPGSPDESARSPFAPRCPFSKVRASDHRSRTATFPPACCSSNL
Ga0006768J45827_10440	Ga0006768J45827_104402	F006338	MLGGPATRPKTPLAVENSVGKLAAPETGRQMPARERESGELPSP