3300025303: Arabidopsis rhizosphere microbial communities from North Carolina, USA - plate scrape MF_Cvi_mMS_r2 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025303
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0101313 | Ga0209051
• Sample Name: Arabidopsis rhizosphere microbial communities from North Carolina, USA - plate scrape MF_Cvi_mMS_r2 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 421927747
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Alcaligenaceae → Azohydromonas	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium	1
Not Available	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?
F026918	Metagenome / Metatranscriptome	196	N
F027546	Metagenome / Metatranscriptome	194	Y
F033107	Metagenome / Metatranscriptome	178	Y
F044538	Metagenome / Metatranscriptome	154	Y
F073010	Metagenome / Metatranscriptome	120	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209051_1001844	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	16718
Ga0209051_1004716	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	8276
Ga0209051_1006732	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	6414
Ga0209051_1008803	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Alcaligenaceae → Azohydromonas	5292
Ga0209051_1008989	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium	5203
Ga0209051_1016835	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	3285
Ga0209051_1100411	Not Available	780

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209051_1001844	Ga0209051_10018443	F044538	MRLIARFVVLMVAVFGVSLAFAWAWDRSDTPPATTPVRGS
Ga0209051_1004716	Ga0209051_10047166	F073010	MNGWLLRPRVLAVLACATFACILLYQLPWSPAASAHFTARTGQLPFDERPAGYTLSGALRDFQRLGPEGLQDYRAYRVLDLLFPWLLCALVAGVMLRLEAARATMWPWLAALADSAENVALWAMFLTRDDLSPRLVPVASFLTQLKFCLYAAMLLMLLAVGVRYVLRERRRARMAG
Ga0209051_1006732	Ga0209051_10067326	F027546	MKTAGETDPAPVQPLGDRVQAPKPVRPEWQPLAHAPCIEVNRQGQLRTNLPLPK
Ga0209051_1008803	Ga0209051_10088036	F033107	MKTLSALALLGLGFVALSRVANVHKGRNHGRPAAKPEEVQTWEGEGGGLPTGGPGPGVKVSTPVSDPDLAHGTTH
Ga0209051_1008989	Ga0209051_10089893	F026918	MDSKQLFIEHLAGELQAMEVGRVPMNPLRYRVHAKMLKKALGDLPAPLVMSRPGGAHPQVLHEMANRFFEDTGHLPRPDAAAHKARSLLERTLAQCRAPRPL
Ga0209051_1016835	Ga0209051_10168352	F044538	MRLIARFVVLMVAVFGLSIAFAWAWDRSDAPKTAQHA
Ga0209051_1100411	Ga0209051_11004112	F027546	MKTAGEPDPAPFQPLGDRVQAPKPARPEWQPLAHAPSIEVNRQGQLRTNLP