3300000681: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 48

Overview

Basic Information

• IMG/M Taxon OID: 3300000681
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054555 | Ga0001971
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 48
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 5600810
• Sequencing Scaffolds: 4
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	1
Not Available	2

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?
F003565	Metagenome / Metatranscriptome	479	Y
F005599	Metagenome / Metatranscriptome	395	Y
F007624	Metagenome / Metatranscriptome	348	N
F012657	Metagenome	278	Y
F065344	Metagenome	127	Y
F097461	Metagenome / Metatranscriptome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12370J11904_100236	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1048
JGI12370J11904_100496	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	745
JGI12370J11904_100848	Not Available	602
JGI12370J11904_100866	Not Available	596

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12370J11904_100236	JGI12370J11904_1002361	F007624	MQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*
JGI12370J11904_100496	JGI12370J11904_1004961	F003565	VMAVRPEGANHQWRKNPPGELSIDPVADERLVRVTAWVGAS*
JGI12370J11904_100496	JGI12370J11904_1004962	F005599	VKPEQASKVTMRMPTLLPFGEGRVSGEAIDMGTRSIRRGSGLGTSEGWFG*
JGI12370J11904_100848	JGI12370J11904_1008481	F012657	KAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12370J11904_100866	JGI12370J11904_1008662	F065344	MTNGLPDVAKEARPSRRRTRRIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSISFVEATIRDTWHRRHEEIGSEL*
JGI12370J11904_101117	JGI12370J11904_1011171	F097461	AVLAGQCDNVGGEPLFVFSAPRYLALCRAMLPERRTGAALGDMHDFSDLLDIGASARGA*