2199352008: Thermophilic microbial communities from the Joint Bioenergy Institute, California, USA of rice/straw/compost enrichment - eDNA_2

Overview

Basic Information

• IMG/M Taxon OID: 2199352008
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063773 | Gp0052187 | Ga0026265
• Sample Name: Thermophilic microbial communities from the Joint Bioenergy Institute, California, USA of rice/straw/compost enrichment - eDNA_2
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 256665756
• Sequencing Scaffolds: 9
• Novel Protein Genes: 9
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Rice-Straw Enriched Compost Microbial Community From Berkeley
• Type: Engineered
• Taxonomy: Engineered → Solid Waste → Grass → Composting → Bioreactor → Rice-Straw Enriched Compost → Rice-Straw Enriched Compost Microbial Community From Berkeley

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Davis, California, USA
• Coordinates
  • Lat. (^o): 38.5402727
  • Long. (^o): -121.7500776
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001417	Metagenome / Metatranscriptome	699	Y
F001564	Metagenome / Metatranscriptome	670	Y
F001784	Metagenome / Metatranscriptome	635	Y
F003125	Metagenome / Metatranscriptome	506	Y
F011110	Metagenome / Metatranscriptome	295	Y
F011252	Metagenome / Metatranscriptome	293	Y
F021612	Metagenome / Metatranscriptome	218	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
2200087870	All Organisms → cellular organisms → Bacteria	1539
2200089320	All Organisms → cellular organisms → Bacteria	1482
2200140286	All Organisms → cellular organisms → Bacteria	630
2200152320	All Organisms → cellular organisms → Bacteria → Proteobacteria	20752
2200164293	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales	3494
2200166197	All Organisms → cellular organisms → Bacteria → Proteobacteria	19025
2200180134	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales	3137
2200191210	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	16341
2200219843	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales	2527

Sequences

Scaffold ID	Protein ID	Family	Sequence
2200087870	2200312922	F001564	LCDPRLCPEAPDGGGRCDHCPLDRLDAAQSSETGLLIRRALDLRAALKLGVRVSLDEIRADEFYAMLIFEEERERLDQERINSHGR
2200089320	2200318360	F011110	MNEFIWMSPPFGQGEPVQVEAKPEVLIPLMVAGYSQCEPPASREEVKEDVHG
2200140286	2200444765	F001564	LCDPALCPDAPEGGRCDHCPLDRLDAAQSSEPGQLLRRALDLRAAFKLGVKLSLDEIAADEFQAMLIVEEEQARFDEERLNRHG
2200152320	2200469600	F001784	MGDVIHVAFGIEREWERAREHAIDGLVTIGALFGDDEALMRAKAECVYQLLRRIVEDMPPLQITTALPDDLSEGQLALVTDALKSAAHKGIQVAMMHSVEALMNSIYDLCTSKLQQPEL
2200164293	2200491406	F003125	MDPFRILKETWSVGDTIEVEAYRVERQVGLEYDSYRRVYLAHGHEWQIAGQIAKDDGKKYYLLECVA
2200166197	2200494437	F021612	MSVSGADRTRKLLTVGVGTVLIVVMGAVLIAGFRLATQMNANVAALQTASMLQTYPAALAQHLTSLRDRLEARAYAGQALADLRTTVESFDRDLKRLASGPAEGPMQI
2200180134	2200520547	F011252	VSQYVFVDPGASFALPDSFDFEDYIETERELWALFPETEGKRANFGQVGLTAQIYVEVPDDGSDPGLDETYILMPCPDKTMKPIRMKACRRLTLTEYRMGHLTALKLMGKMNAAARVMQEVGRQILGEEVMEEVRARMQPKEEDDDENGNE
2200191210	2200538705	F001417	VQDAVTQMTFSSCDKDDVLELIERVENELHSPHPNLALMCTFLNSIARSLRAQPEAREACLAIEEAIEKAGMPSTWQSGI
2200219843	2200585456	F003125	MDPFRILKQTWSVGDTIEVEAYRVERQVGLEYDSYRCVYLAHGHEWQIAGQIAKDDGKKYYLLECVA