3300020592: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C Kraft OP (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300020592
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191742 | Ga0180222
• Sample Name: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C Kraft OP (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 341814902
• Sequencing Scaffolds: 13
• Novel Protein Genes: 13
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	7
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	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?
F003648	Metagenome / Metatranscriptome	475	Y
F008634	Metagenome / Metatranscriptome	330	Y
F011352	Metagenome / Metatranscriptome	292	Y
F012606	Metagenome / Metatranscriptome	279	Y
F013535	Metagenome / Metatranscriptome	270	Y
F017885	Metagenome / Metatranscriptome	238	Y
F031088	Metagenome / Metatranscriptome	183	Y
F033176	Metagenome / Metatranscriptome	178	Y
F034415	Metagenome / Metatranscriptome	175	Y
F052044	Metagenome / Metatranscriptome	143	N
F064527	Metagenome / Metatranscriptome	128	Y
F099198	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0180222_1000252	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	88732
Ga0180222_1000990	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	34240
Ga0180222_1000995	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	34168
Ga0180222_1001338	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	26302
Ga0180222_1002230	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	16349
Ga0180222_1003075	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	11591
Ga0180222_1004918	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	6697
Ga0180222_1007394	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	4335
Ga0180222_1009688	Not Available	3366
Ga0180222_1010173	Not Available	3232
Ga0180222_1012919	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2669
Ga0180222_1014192	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	2497
Ga0180222_1073909	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	793

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0180222_1000252	Ga0180222_100025272	F052044	MADADRLEKIATIGQDLITTQLTMATQTPSQALEGTWVLGYCFGIFDALAQQADLDDGAEVFGLVTLGFLGLFADPADPEAAAFIRRSLDRQDNPRFQEGAAAGGTDVFVWVADRIKAPNALFEHLSR
Ga0180222_1000990	Ga0180222_100099013	F064527	MSTTRDPADRVRTLLLRADNVLKNEGDPEDRARRARAALEEARAVAAGGGVDPRVAELIERRLAALEAGGPG
Ga0180222_1000995	Ga0180222_100099537	F034415	MSAAATHTGHKRLQHLVEHEAYRRIMAGEAPETLSEFARELQGWLQRTHPDAAPTTPDAIENQIRETWHRRHELIRGG
Ga0180222_1001338	Ga0180222_10013385	F012606	MAISAGRDVTILLSDEHLRKIAEDHLLAGKDLEDRVKLARVVQKLVDASLGLPDRPWHEWDEWVKGLE
Ga0180222_1002230	Ga0180222_100223012	F099198	MADAITALIGAIIMIGYMLLIASKLAALPLWIVTLTGLALMLAAFWIDDWKPLFRRNN
Ga0180222_1003075	Ga0180222_10030759	F008634	MYGHGRELEVGNATSAILVSLLRTLIEKSVLSNGDVRTLLTDAAATLAPHEYTAPFQGAIGIILEDILPKFPENGGD
Ga0180222_1004918	Ga0180222_10049185	F034415	MTGAPGHKKSQHLIEAEAYRRIMAGEAPETLGAFAQQLLDWLQTAYPGAVPGSLATVEEQIRETWDRRHDLIRGG
Ga0180222_1007394	Ga0180222_10073946	F011352	MSRYYFRLTDGNQLLNNHTGLDLPGPAAARENAVALARDLKLGVIMPGFDWTGWFVAVIDEHGHKVDEVPVADVPG
Ga0180222_1009688	Ga0180222_10096881	F017885	MANPNADVAGFQCPKCGQELEQTIGQLKSSEHMICSGCGIGINIDTNRLADVADELQKATAKVQSEITIKFYR
Ga0180222_1010173	Ga0180222_10101734	F003648	VWLPKERLMATAASRCAVCSRAMVAALVEADPTDAALELRTFSCAECGHSRTYNVDAGDT
Ga0180222_1012919	Ga0180222_10129194	F031088	MKLNVLAIALAATAFSAFGANAQTVIEERRDPAVVIEHDKPASSVTVEKREGLIGEKKTITKETTGSAGCDSKTVHREGIGGSTTVKKTNCD
Ga0180222_1014192	Ga0180222_10141923	F033176	MEPKITLLFMLIATVIGLSYLTEENLGRLRRQLGLRRWRGFAPLRRRI
Ga0180222_1073909	Ga0180222_10739092	F013535	MPFDFILLYAYRAMAAIVAIMMIWVLFREKDWRQQLFAMLVFIPFALRAVGVK