3300017645: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 37_C Kraft MG (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017645
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191729 | Ga0182749
• Sample Name: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 37_C Kraft MG (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 397948065
• Sequencing Scaffolds: 13
• Novel Protein Genes: 13
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Capillimicrobiaceae → Capillimicrobium → Capillimicrobium parvum	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Compost → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → anthropogenic environment → compost
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: USA: Emeryville, California
• Coordinates
  • Lat. (^o): 37.83
  • Long. (^o): -122.29
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001736	Metagenome / Metatranscriptome	644	Y
F004766	Metagenome / Metatranscriptome	424	Y
F011188	Metagenome / Metatranscriptome	294	Y
F014051	Metagenome	266	Y
F031088	Metagenome / Metatranscriptome	183	Y
F033176	Metagenome / Metatranscriptome	178	Y
F036958	Metagenome	169	Y
F056688	Metagenome / Metatranscriptome	137	Y
F060456	Metagenome / Metatranscriptome	133	Y
F061999	Metagenome / Metatranscriptome	131	Y
F064527	Metagenome / Metatranscriptome	128	Y
F064904	Metagenome / Metatranscriptome	128	Y
F085355	Metagenome / Metatranscriptome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182749_1014574	Not Available	3880
Ga0182749_1017059	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3444
Ga0182749_1019688	All Organisms → cellular organisms → Bacteria	3078
Ga0182749_1027480	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	2327
Ga0182749_1061135	All Organisms → cellular organisms → Bacteria	1181
Ga0182749_1064436	Not Available	1129
Ga0182749_1071038	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Capillimicrobiaceae → Capillimicrobium → Capillimicrobium parvum	1039
Ga0182749_1107774	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	738
Ga0182749_1108760	Not Available	733
Ga0182749_1109209	Not Available	730
Ga0182749_1118904	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	682
Ga0182749_1139321	Not Available	602
Ga0182749_1143514	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	589

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182749_1014574	Ga0182749_10145745	F064904	MLMNLVVLLSWLAIPVGLIAIVDDWFLRPRRQLAAAP
Ga0182749_1017059	Ga0182749_10170595	F056688	MNSDEAEQLCDALAELASKGPAQDARALVEAKGILRKITHAPEANAHVRARASDVERALTGWLDADERFHRVLKDYRKDIDALIDRLHSAMREATRFKAR
Ga0182749_1019688	Ga0182749_10196881	F014051	LPQKKIDAVAALMKKVGAIKEDKQPVKYADFVDQSVWKDANAKVK
Ga0182749_1027480	Ga0182749_10274801	F011188	GAWPAGRSIDTGTTRGETNTVDTYNIYMDELPAGEEIDGEEIIEVEFRVVPGSSDDNDPESNAVIAGLDLVDLINLRDALQQEIDNYALTALEASASQIADIEVGGL
Ga0182749_1061135	Ga0182749_10611352	F060456	MPPSLTKEALDYLVASAGLDLDEAQKADLASIHDELQMMKALVRQPRGHMAELAHTYGFAEEDLA
Ga0182749_1064436	Ga0182749_10644361	F061999	AHFNRGILRSLEPKRHDVQLLHRNPPRLGEMLGEDDWFEKISAQGRDYGRLAYMNKLHAFTEAKKREILGLGAEAADAVQDVGALVRG
Ga0182749_1071038	Ga0182749_10710381	F064527	MSTPRDPADRVRTLLLRADNVLKNSTPPTLDPADRARRARAALEEAREVAAGGGVDPRVAELIERRLAALEAGGPG
Ga0182749_1107774	Ga0182749_11077741	F031088	MKLNVLAIALAATAFGAFGANAQTVIEERRNPAVVIEHDKPASSVTVEKREGLIGEKKTITKETTGSAGCDSKTVHREGIGGSTTVKKTNCD
Ga0182749_1108760	Ga0182749_11087602	F033176	MDPKLTILFMLIGVVIGLSYLGDGSLRRMRRQIADGGWRQFVPLRRRS
Ga0182749_1109209	Ga0182749_11092092	F036958	MSVILVFAGFVIIGDAFAVTISYLLESISTTVSLLVFLTLFIFVFWASWQLAVRIVERYIVRQD
Ga0182749_1118904	Ga0182749_11189042	F001736	MPDHGDRTPRSTYLREFVERAKRGAEAERDALAVVRAFNARSSSGRPVWFWPKIAAALVAKHPWLVVVCESCDLVVDLDLRVKPRDPEASIRVALRDVRCPRCNGHGRPRIIALSKIPSR
Ga0182749_1139321	Ga0182749_11393211	F085355	MDSIRAALTHLNDWLNWLPDLVVAVLILAFAVAIALALHYW
Ga0182749_1143514	Ga0182749_11435141	F004766	DRDIVHGSLETVAEWRLTAPADVPGQSIGEADYVLIAEIVELDRFEQQASERVQQLADDLQHLVAHRGMLVVRHIL