3300000683: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 60

Overview

Basic Information

• IMG/M Taxon OID: 3300000683
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054382 | Ga0001983
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 60
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 6274311
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria	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
F010935	Metagenome / Metatranscriptome	297	Y
F012657	Metagenome	278	Y
F034030	Metagenome / Metatranscriptome	175	Y
F069634	Metagenome	123	Y
F074315	Metagenome	119	N
F091102	Metagenome	107	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12540J11931_100461	Not Available	1026
JGI12540J11931_100500	Not Available	984
JGI12540J11931_100998	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	717
JGI12540J11931_101972	Not Available	538
JGI12540J11931_102061	Not Available	530
JGI12540J11931_102127	Not Available	525
JGI12540J11931_102325	All Organisms → cellular organisms → Bacteria	505

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12540J11931_100461	JGI12540J11931_1004612	F034030	RMRRREFILLGAYVIAGCVAAVTSADLALAQAKNSTSMEDRLSAKIRCQDFQKNSDGKWTSSSKAKIGKIDFSNHTFGVDEVDIGGADLATFLNRKCAAH*
JGI12540J11931_100500	JGI12540J11931_1005002	F012657	MAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12540J11931_100998	JGI12540J11931_1009982	F000466	TYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYXKYLSENSLIKSVFDEPASLPPPKRIQKIQESTAA*
JGI12540J11931_101972	JGI12540J11931_1019721	F074315	MEATDFTEQWSNMQKMFLASSEMSASFRESARRFWENQGKLLDDMX
JGI12540J11931_102061	JGI12540J11931_1020611	F091102	QWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFXRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDP
JGI12540J11931_102127	JGI12540J11931_1021271	F069634	MKIGIHAPDKPPVILSLLLAILAVAGYFVNAPAAFWIAMFAYIVGAAGVLVQI*
JGI12540J11931_102325	JGI12540J11931_1023251	F010935	MPEIENFQDSVQHCFELAKASDVLKEDIALEAFELLTANQYDGILAHALGVSL*