2189573022: Soil microbial communities from Puerto Rico rain forest, that decompose switchgrass - feedstock-adapted consortia SG only

Overview

Basic Information

• IMG/M Taxon OID: 2189573022
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063182 | Gp0052018 | Ga0026427
• Sample Name: Soil microbial communities from Puerto Rico rain forest, that decompose switchgrass - feedstock-adapted consortia SG only
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 152660070
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → Methanosarcinaceae → Methanosarcina → unclassified Methanosarcina → Methanosarcina sp. MSH10X1	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Flavobacterium → Flavobacterium indicum	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Puerto Rico Rain Forest, That Decompose Switchgrass
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Tropical Rainforest → Soil → Soil Microbial Communities From Puerto Rico Rain Forest, That Decompose Switchgrass

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 LTER tropical forest, Puerto Rico
• Coordinates
  • Lat. (^o): 18.3724
  • Long. (^o): -65.7166
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F010231	Metagenome	306	Y
F017253	Metagenome	242	Y
F018557	Metagenome / Metatranscriptome	234	Y
F051098	Metagenome	144	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
PRSSG2_Sequence0000006350	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	4316
PRSSG2_Sequence0000006976	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	4031
PRSSG2_Sequence0000016035	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → Methanosarcinaceae → Methanosarcina → unclassified Methanosarcina → Methanosarcina sp. MSH10X1	2161
PRSSG2_Sequence0000035312	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Flavobacterium → Flavobacterium indicum	1161

Sequences

Scaffold ID	Protein ID	Family	Sequence
PRSSG2_Sequence0000006350	PRSSG2_01059190	F018557	VYLTEPKNGRPIFFPERLVLWGNLALFLWIVLDTVAFLLYDVTGGIVFFVLTLILIYGVLHFLGCLRPCYNCIKCTHGMGRLAALYFGRRIFKDYKYNYKLPGAIFFTLYVGAFPAAFALYSTIVDFTPLKAAVFAALLAITIYSALTWRPKKPKLAQAETNNTA
PRSSG2_Sequence0000006976	PRSSG2_01103070	F017253	MNDVALSLAHNVGSYTQGRIAGDFLSSRKAARAERCTPKTTAAALDG
PRSSG2_Sequence0000016035	PRSSG2_01619630	F051098	MIITPFYYCRNCRKLYPGNKLEIANAPIEKLVSAARYTLGSQEHIFRIGGKTIQLSDLHHCNDHEIGLANFIKIQITKEKKE
PRSSG2_Sequence0000035312	PRSSG2_00398000	F010231	WHWLADVHSVGFAPAFTLSFHDSERSRKPPNAHSLGR