3300001075: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 63

Overview

Basic Information

• IMG/M Taxon OID: 3300001075
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054813 | Ga0001986
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 63
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 11452645
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
Not Available	6

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?
F011271	Metagenome	292	Y
F032469	Metagenome / Metatranscriptome	180	Y
F062933	Metagenome / Metatranscriptome	130	Y
F063348	Metagenome	129	N
F065344	Metagenome	127	Y
F065502	Metagenome / Metatranscriptome	127	N
F083637	Metagenome / Metatranscriptome	112	N
F091102	Metagenome	107	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12453J13212_100083	All Organisms → cellular organisms → Bacteria	2394
JGI12453J13212_100538	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1397
JGI12453J13212_101857	Not Available	806
JGI12453J13212_102105	Not Available	758
JGI12453J13212_102473	Not Available	700
JGI12453J13212_102750	Not Available	667
JGI12453J13212_102960	Not Available	645
JGI12453J13212_103091	Not Available	632

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12453J13212_100083	JGI12453J13212_1000831	F083637	MKKMLVVICSLVLALSLAGCGWGPWAGKGKAPIIGKGKAPAPVV
JGI12453J13212_100538	JGI12453J13212_1005383	F065344	LPDVAKEARPSRRRTRRIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSISFVEATIRDTWHRRHEEIGSEL*
JGI12453J13212_101857	JGI12453J13212_1018572	F083637	RALRLTIPWGGIMKKVLVILCSVIVSASLAGCVAGKAPWIGKGKAPAPVVTKG*
JGI12453J13212_102105	JGI12453J13212_1021052	F011271	IDLQLEPKERQALKLTEIREALVAAGYDTTAKQAAVLGVCRSTAWVLLNRDKRAGPSAKVIKRILSSPQVPARARRKVEQYVEQKARGLYGHCESATRTFGNQFQHL*
JGI12453J13212_102473	JGI12453J13212_1024731	F062933	MHLVSKIGIAIFAAAAVAAVIVDTMRPIAARRLFALVAALIAGVTAFYLVPEPLPELTRAEFMXEVRAGHVRRVEIEDQQVIIGESSTRGEFRTEFDRYKDVDLPAELRALGIEVLFSTSPPGI*
JGI12453J13212_102750	JGI12453J13212_1027501	F091102	ICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12453J13212_102960	JGI12453J13212_1029601	F063348	MTGFDQTVRLPDRQAVPSVNLKKAEIEDLAFRFRDEVKAEILQHRGSNAVGVVGSFVVNIEAHRARYAKKLEAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAADHQIPLEIHKIGLSDNQLEVIMRTAEPLAEEKCQEFLQRVAAILPMRGQISDDVVSVAVHRAL
JGI12453J13212_103091	JGI12453J13212_1030912	F032469	MRPFDRDLIRGEHYGQRSCEPHLKAEHMAAPTKTVT
JGI12453J13212_104192	JGI12453J13212_1041921	F065502	MRENMSLLSFWGLVFSLIAVTLFVVIYSYQKSKYANRNIVGDLRQRSVDVYLAAKTPEAESDSKKFREASNEIERLRAE