3300000674: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 52

Overview

Basic Information

• IMG/M Taxon OID: 3300000674
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054450 | Ga0001975
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 52
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 4941622
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	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?
F007624	Metagenome / Metatranscriptome	348	N
F012657	Metagenome	278	Y
F015573	Metagenome	253	Y
F040358	Metagenome / Metatranscriptome	162	N
F057789	Metagenome	135	N
F104209	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12583J11890_100046	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1789
JGI12583J11890_100277	All Organisms → cellular organisms → Bacteria	962
JGI12583J11890_100508	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	729
JGI12583J11890_100671	Not Available	656
JGI12583J11890_100706	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	645
JGI12583J11890_101149	Not Available	538

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12583J11890_100046	JGI12583J11890_1000461	F015573	VAETESPPQDELHNPAVYLERIAREIKIIREMMSKVVNYMVDAESEIPEKMRRFIMYMHDVHDVLNMYQEIGQEPPQHVKREAERCDDRYRQILYEMHTDGGAFEKVRRNMASDPENRWDHTRFLPKRKE
JGI12583J11890_100277	JGI12583J11890_1002771	F104209	QVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12583J11890_100508	JGI12583J11890_1005081	F007624	GAVSGRCRLLFEPMQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRPIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*
JGI12583J11890_100671	JGI12583J11890_1006711	F012657	LLWKSGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPXTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDAT
JGI12583J11890_100706	JGI12583J11890_1007062	F057789	MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEELQPHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAPRQAAKMSALAVAEPAPFRNRGFSERTIKALLDCSIDQPERLLFMQSADLKKIPGVGKASFDEIMRYRAKF
JGI12583J11890_101149	JGI12583J11890_1011491	F040358	MRIAIFALTILAGGGAAEAGQIEVISANPRHIEIAAWCWTADSNCQQEASDVAQGYCHGSDYPHYPRRALYVRSGILERDFFSERVIFVYRCNRRSIICEAGSC*