3300000660: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 16

Overview

Basic Information

• IMG/M Taxon OID: 3300000660
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054715 | Ga0001939
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 16
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 1426043
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Devosiaceae → Devosia → Devosia psychrophila	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylosinus → unclassified Methylosinus → Methylosinus sp. C49	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Forest Soil → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico

Alternative Ecosystem Assignments

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

Location Information

• Location: Luquillo Experimental Forest Soil, Puerto Rico
• Coordinates
  • Lat. (^o): 18.0
  • Long. (^o): -65.0
  • Alt. (m): N/A
  • Depth (m): .1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000466	Metagenome / Metatranscriptome	1105	Y
F007624	Metagenome / Metatranscriptome	348	N
F028105	Metagenome	192	Y
F065994	Metagenome / Metatranscriptome	127	Y
F085267	Metagenome	111	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12415J11908_10001	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	3289
JGI12415J11908_10043	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter	1413
JGI12415J11908_10135	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Devosiaceae → Devosia → Devosia psychrophila	832
JGI12415J11908_10248	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	610
JGI12415J11908_10344	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylosinus → unclassified Methylosinus → Methylosinus sp. C49	529

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12415J11908_10001	JGI12415J11908_100014	F007624	REGGRLCSEPMQLREGSFHGPRPGCPEHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSILPKNRLPYIAVNATLVESEFDARTSGTDPPSSSEKERGCLRRAFERFAARVTPVCALLGQMITRIKPSVGECWKELRQLDNLEGILLLLGTKFNTSLLADYRCVQSGF*
JGI12415J11908_10043	JGI12415J11908_100431	F085267	MSFLRHGEIYPWHEGTISRPCPRPSQWMSFQPVIPGGLLSSRARVRFTSRRH
JGI12415J11908_10135	JGI12415J11908_101352	F028105	GGFNRSTQHLLILLEKEVCDGGDCTDMVHAAAEG*
JGI12415J11908_10248	JGI12415J11908_102481	F000466	MAHLLTYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYHKYLSENSLIKSVFDEPASLPPPKRIQKIQESTAA*
JGI12415J11908_10344	JGI12415J11908_103443	F065994	MPVERRGQVTDVGSEPTGNRRSSNSRREAAAFVRWHEPDDARVSRPD