3300003759: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMF_r2

Overview

Basic Information

• IMG/M Taxon OID: 3300003759
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0101298 | Ga0055525
• Sample Name: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMF_r2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 99127822
• Sequencing Scaffolds: 3
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium elkanii	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant rhizosphere

Location Information

• Location: USA: North Carolina
• Coordinates
  • Lat. (^o): 35.6667
  • Long. (^o): -78.5097
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F031516	Metagenome / Metatranscriptome	182	Y
F045820	Metagenome / Metatranscriptome	152	Y
F087885	Metagenome / Metatranscriptome	110	Y
F101290	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0055525_1001574	Not Available	3731
Ga0055525_1001612	All Organisms → cellular organisms → Bacteria → Proteobacteria	3555
Ga0055525_1013085	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium elkanii	701

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0055525_1001574	Ga0055525_10015742	F031516	MMHFDTAQMSAITQAHFFSRVAEFIRDQTTVPAYRQAALDTTLRTALWAPHWATLRDASEHDAALFMCFLLACATLGVDHTRAAEAVRQSSQPETSMKLFLSERG
Ga0055525_1001612	Ga0055525_10016125	F045820	ANAPTPRPRSDDRTRDDLPDGRNGRVVGENDDNVLESIGKAVVAPVEGADEGAEPVDGQHGRAFVDLTKTLPQGQQAAPRTPTAPKPQGKAL*
Ga0055525_1013085	Ga0055525_10130852	F087885	AVRKSCGAMISLSVRPGQTRDSATEPPLARASMFRAKRFITSVEIRLR*
Ga0055525_1019489	Ga0055525_10194891	F101290	DSPETAASLYGQSVSLPRQATACAERIADYMPRFQKFFDAWRTENAAQIAAGSKFIHEQAAKGGVDADAGMAKLADADVERLRKTSTELLARHCQLILESLAPPSVN*