3300000897: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_M3

Overview

Basic Information

• IMG/M Taxon OID: 3300000897
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0071004 | Gp0054663 | Ga0002406
• Sample Name: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_M3
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 9953084
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	2
All Organisms → cellular organisms → Bacteria	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria 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?
F006963	Metagenome / Metatranscriptome	361	Y
F017693	Metagenome / Metatranscriptome	239	Y
F028293	Metagenome / Metatranscriptome	192	Y
F033929	Metagenome / Metatranscriptome	176	Y
F052046	Metagenome / Metatranscriptome	143	N
F053353	Metagenome / Metatranscriptome	141	N
F064912	Metagenome / Metatranscriptome	128	Y
F093557	Metagenome / Metatranscriptome	106	Y
F097852	Metagenome / Metatranscriptome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12167J12862_100930	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	705
JGI12167J12862_101215	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	640
JGI12167J12862_101715	All Organisms → cellular organisms → Bacteria	567
JGI12167J12862_101905	Not Available	548
JGI12167J12862_101931	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	546
JGI12167J12862_101975	Not Available	542
JGI12167J12862_102002	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	539
JGI12167J12862_102302	Not Available	515

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12167J12862_100930	JGI12167J12862_1009302	F006963	MTRLLFTPVLCALCTAHASAQNEVSQKFLELSEDKRNTAFTLVLRESNRKCDQVIRTLFKGTFLGVDDWEALCRDRNSYSFSVLAESDDTIIMSLSCRQLLATNKMLLHRAGSKSKATGCRIK*
JGI12167J12862_101215	JGI12167J12862_1012152	F017693	MSAKKNLLGLIDAGSEVRRPPLVGMQFLHECAVGTSDFLRTRPRLKA
JGI12167J12862_101715	JGI12167J12862_1017151	F053353	LSSLNLSKVRTSRQILRKVARSTELSRGDIATEAKLAVGYYVYTISVAGVVRYIGKGKGLRLYSHMKEVRSRLKRDFRVQSIGSILQRNLTKAFLSEAQVTEQVLIDDLTEKAAYKLEYDKLREYVFAGKGDQLWNVIPASIQTPQEIQAYTERLQRNLNSRDRWVRTLSAMTLEALRGGQRQHRTET
JGI12167J12862_101882	JGI12167J12862_1018821	F028293	MRLAAIASALAILLCAAVFGAIFLQRTSVSGPAPSPALAAPGEGQA
JGI12167J12862_101905	JGI12167J12862_1019051	F093557	MPFGSGERLLTILLDAGGAQSGKAVLIDGKLPGEEFVDGQRXTAASLLEGEQAAADCGNDFGLTANYP
JGI12167J12862_101931	JGI12167J12862_1019312	F033929	MPRGILSRRSDTGQISWGNLSRLPRTVAESTLRIFDGYGLRGTLPARPTLAPCIRFLSIDSRVCSMLPSDTASRR*
JGI12167J12862_101975	JGI12167J12862_1019751	F052046	MFNYRAMSDVELLAAYREILVAKRRQILWRAMENHNTAEKQIPRPGADFEKLAVMSSGSGCGTELLDIQTKIAAIDAAVIEEERRLGERTKAA*
JGI12167J12862_102002	JGI12167J12862_1020022	F097852	LTAKPISIKGTGCKFGGCARKAVELTSGDLSLVAKSRLGVERSILTGWEKSAEGKVLTKVRKARTVLRKEGKGSGE*
JGI12167J12862_102302	JGI12167J12862_1023022	F064912	MGSHMHTEDKEPDGIAEGQTSNATQQSKHFQXGSATVLCATVNSKA*