3300013066: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 5th pass 37_C Kraft BY (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013066
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191764 | Ga0164281
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 5th pass 37_C Kraft BY (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 56230635
• Sequencing Scaffolds: 5
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria	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 → Soil → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• 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?
F000135	Metagenome / Metatranscriptome	1961	Y
F017885	Metagenome / Metatranscriptome	238	Y
F034415	Metagenome / Metatranscriptome	175	Y
F045895	Metagenome / Metatranscriptome	152	Y
F046477	Metagenome / Metatranscriptome	151	Y
F104871	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0164281_102222	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	554
Ga0164281_109739	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1501
Ga0164281_159986	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1639
Ga0164281_179808	Not Available	643
Ga0164281_182021	All Organisms → cellular organisms → Bacteria	505

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0164281_102222	Ga0164281_1022222	F045895	ADMFRAVMEEAAALASLAMFLGMIAVWAQVIAAL*
Ga0164281_109739	Ga0164281_1097392	F017885	MSSTDMNEICFQCPSCGHDLKQSIGRLKQSQHMTCPGCGIGINIDTNRLAQVSEEIQKAIDKVPPEITIKFYRPIEQD*
Ga0164281_154884	Ga0164281_1548843	F000135	FQLRSPECAEEFERLMAEDRDIVHGSLETVAEWRLTAPADVPGQSIGEADYVLIAEIVELDRFQEQASERVQQLADDLQHLVAHRGMLVVRHIL*
Ga0164281_159986	Ga0164281_1599864	F034415	MSAAATHTGHKRLQHLVEHEAYRRIMAGEAPETLSEFARELQGWLQRNYPDAAPTTPDAIENQIRETWHRRHELIRGG*
Ga0164281_179808	Ga0164281_1798082	F104871	MPDREAHLRTLAERLMFSVEQTGDRFTLTRTADVSRPVREAGLTIDQAEELLETWKLRGPHGG*
Ga0164281_182021	Ga0164281_1820212	F046477	VAGRPHALAQRIAAFLRKRNAGYCETCLIARLLVASRAAMRAALEMDCFSVRVGVCPDCKTRKQVITCKAGSNVAA*