3300025225: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mTSA_r2 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025225
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0101314 | Ga0209566
• Sample Name: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mTSA_r2 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 102610665
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → unclassified Deinococcus → Deinococcus sp. KSM4-11	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Aquabacterium → unclassified Aquabacterium → Aquabacterium sp.	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?
F034241	Metagenome / Metatranscriptome	175	Y
F044564	Metagenome / Metatranscriptome	154	Y
F045820	Metagenome / Metatranscriptome	152	Y
F049748	Metagenome / Metatranscriptome	146	Y
F056275	Metagenome / Metatranscriptome	137	Y
F095729	Metagenome	105	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209566_110654	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → unclassified Deinococcus → Deinococcus sp. KSM4-11	922
Ga0209566_112037	Not Available	833
Ga0209566_112732	Not Available	798
Ga0209566_116041	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Aquabacterium → unclassified Aquabacterium → Aquabacterium sp.	660
Ga0209566_119573	Not Available	554
Ga0209566_119965	Not Available	545

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209566_110654	Ga0209566_1106542	F045820	PDGRNGRVVGENDDNVLESIGKAVVAPVEGADEGAEPVDGQHGRAFVDLTKTLPQGQQAAPRTPTAPKPQGKAL
Ga0209566_112037	Ga0209566_1120372	F034241	TRRAAPLFQRLRKAPMSQAKPRQYLGALRAALAAAKAVNKSRVAAYHVLPNGISCKMDWAGWSDPWYNATPRQQALLDVLQDLLDGGETEVPMIALKTALRLEIPESEILRSRDNVGADGESGYFFDDIMHGLYMLDAQETEQVFYGLIDRLMQPECGHAGLIDR
Ga0209566_112732	Ga0209566_1127322	F056275	MDWHCIKFDRRGAHEAEAADLVLALEDAYGSAGEPAAAEVFMTHGRVGDYAFYLSPEAARMAPAVLQRFHAVLCEPPVDLHRCTPMIL
Ga0209566_116041	Ga0209566_1160411	F044564	MTTQPDTTPRALRIDGPLSARAVLDHFNDKGRALLGAGQDDAAGRIAQLLAHEADLSAAWGGLPGTDHPRHWQPEVGDEAALSDRRSEHRRLDVHLPLWWALPLAVRDRQPQRVILPLAATREALAALIRRHMPGAWWNHTVHVTLDVETRV
Ga0209566_119573	Ga0209566_1195731	F049748	EPEQTQSSVELDPTAGGDGAASEAAEHESLGGEMVQPTGGIGGTGGADGRLDPTKTGPGAVDGLVGAP
Ga0209566_119965	Ga0209566_1199652	F095729	MPAADVAMPCNHSKETTVKIALRQIALVSTLLATAAFPLLSHAQDVRREDRVLHFLDSGHIDANKDGMVSKKEFMDAMSKTWDMHMSDAKKADPQMPKDKMT