3300000676: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 27

Overview

Basic Information

• IMG/M Taxon OID: 3300000676
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054834 | Ga0001950
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 27
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 5585350
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	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?
F016190	Metagenome / Metatranscriptome	249	Y
F019273	Metagenome	230	Y
F031318	Metagenome	182	Y
F045461	Metagenome	152	N
F064047	Metagenome / Metatranscriptome	129	Y
F072153	Metagenome / Metatranscriptome	121	N
F083637	Metagenome / Metatranscriptome	112	N
F091102	Metagenome	107	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12333J11928_100466	Not Available	996
JGI12333J11928_100476	All Organisms → cellular organisms → Bacteria	982
JGI12333J11928_100609	Not Available	865
JGI12333J11928_100720	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	811
JGI12333J11928_101333	Not Available	614
JGI12333J11928_101455	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	593
JGI12333J11928_102005	Not Available	522
JGI12333J11928_102045	Not Available	517

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12333J11928_100466	JGI12333J11928_1004661	F072153	GQDVWVQELAEEVDIRTGRERIAMHGKAQRKHSVLTFPPHHQGIPLGARRAEGKILIHLRQSAPEVEKRSLAAYERVANRGGR*
JGI12333J11928_100476	JGI12333J11928_1004762	F045461	VRQPTAPHSEFSLRSMLFGAVFIIMFVAAVIIDLAALLQFSGLVNGLPANILEMAGVLTGLTIFPLLVMGMSVSVDLNHK*
JGI12333J11928_100609	JGI12333J11928_1006091	F031318	GHRNPRNGGDQMRTTTIATVAVVVLALLIVAKSRTVGLTEATGNPQQNTVSIYDLSVGHPNMKNLTVQQPPWP*
JGI12333J11928_100720	JGI12333J11928_1007201	F083637	LMKKILVVICSVTLALGLAGCGWAGKTPIIGKGKAPAPVVTKG*
JGI12333J11928_100885	JGI12333J11928_1008851	F064047	MTLMKSPRAGRLALAFGVVLSVFLSVAAFDASYAQPAPGAAPAAPAA
JGI12333J11928_101333	JGI12333J11928_1013332	F019273	MIYRVRTNKKYPFKQMQPGETFKLNDEDVRSAQKMAWYYRTRCKRPIRIIIAKSDDGFHCHRID*
JGI12333J11928_101455	JGI12333J11928_1014551	F091102	IQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVXDIEVAHVSGSKFXRWFYPYXLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCTRGLYGTMHDENDPTSALLIVVPEGSYLFDYYVAVCRAVTHEEPYLPQKH*
JGI12333J11928_102005	JGI12333J11928_1020052	F083637	LXXXRGVLMKRTLVVICAVMLALGLAGCGWAGKTPIIGKGKAPAPVVTKG*
JGI12333J11928_102045	JGI12333J11928_1020451	F016190	GQKSVYISTTEGKVIAHSNASVVFPGSTAGDNTLRFRVISELPGVEGTLAESVLKRLSEPVGTRSSNVWEAEADGRHYFVAVGQVSNIDWPWQVVVTVPRTGLLQAASKSTVILIGAMGLAALIALAIGYATSRTIGAPMTRLLSNAQLARHGNIELMEDVNTGLREIDET