3300001283: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM1_M3

Overview

Basic Information

• IMG/M Taxon OID: 3300001283
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0071004 | Gp0054019 | Ga0000203
• Sample Name: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM1_M3
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 18058404
• Sequencing Scaffolds: 9
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	2
All Organisms → cellular organisms → Bacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Forest Soil Microbial Communities From Multiple Locations In Canada And Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): forest biome → solid layer → forest soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: El Dorado National Forest, Georgetown, California, USA
• Coordinates
  • Lat. (^o): 38.88
  • Long. (^o): -120.64
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003829	Metagenome / Metatranscriptome	466	Y
F005078	Metagenome / Metatranscriptome	413	Y
F006571	Metagenome / Metatranscriptome	370	Y
F014301	Metagenome / Metatranscriptome	264	N
F044693	Metagenome / Metatranscriptome	154	Y
F045203	Metagenome / Metatranscriptome	153	Y
F081826	Metagenome / Metatranscriptome	114	N
F090819	Metagenome / Metatranscriptome	108	Y
F094125	Metagenome / Metatranscriptome	106	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI11804J14045_100374	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1263
JGI11804J14045_100939	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	857
JGI11804J14045_101082	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	801
JGI11804J14045_102597	All Organisms → cellular organisms → Bacteria	581
JGI11804J14045_102664	Not Available	576
JGI11804J14045_102862	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	564
JGI11804J14045_102946	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	559
JGI11804J14045_103576	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	525
JGI11804J14045_104028	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI11804J14045_100374	JGI11804J14045_1003743	F090819	MRADIHDGPEQKLQLETGYIDATAYHQIDENLLQRAAGPY
JGI11804J14045_100939	JGI11804J14045_1009391	F003829	VCDDNSDTDRLKVILREAGFVSEWAKSITEGCEAAKSGRFQVVVSSPRMRDGSWRRLTDIANHYDLGFEVVLWARSFDLLEWTEALKDGAFDVLDAMCEQPKAVESTKRALWAAYLKGAGPDPRAANPQRAA*
JGI11804J14045_101082	JGI11804J14045_1010822	F081826	MSGMRGYLRLYMLALAASVGLGVPVMAQDSSDLAAGQNAWNRAGCYNCHGSRAQGGDGGDYPMGPALTTTALDKE
JGI11804J14045_102597	JGI11804J14045_1025972	F014301	VQLTLALLELPTPPAMPGVPLDPEARAKAIKILARMIAQTLATSTQPQNEMADE*
JGI11804J14045_102664	JGI11804J14045_1026642	F044693	MAIPAAGQSPALKVEAAVTVRADSFACKETSELDRLLQRNQRGEFTSGVQLYDYLQSHKCIGLTAGRARVYANQGQYVCIYDPKDKNRTIKPCAWTRRDMLSK*
JGI11804J14045_102862	JGI11804J14045_1028622	F005078	MRIKDAREGLHTLLHTQGLDGLLHLYKRLEKRGRALLLCLLCAEAGWLILVNAWLRLERAYLKLRLFLRV*
JGI11804J14045_102946	JGI11804J14045_1029461	F045203	MNARARSFWREEIALVALLFAFFAGIVCFALPLPFDARLFPLVIGGAGILLTLAIAAV
JGI11804J14045_103576	JGI11804J14045_1035762	F094125	MSTGLETSKALERSKALRHRREAAACGVFATNAKSATDRDLLLRMQRSLLTRAYHEDWLDGLPPAPPAGCNSLSLPARS*
JGI11804J14045_104028	JGI11804J14045_1040281	F006571	MKAGVHSMPEACSEASPTVQLVQIEVSPTHPLLLLKRALPWDTLTEVMTRHWRQHGKNVDGGPGLPWDVSLYVPLVVLMLIKAFDSRQMEAYLAENVVARVFIGRQHDPQAQMRDHSHIA