3300000710: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 67

Overview

Basic Information

• IMG/M Taxon OID: 3300000710
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054744 | Ga0001990
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 67
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 11650658
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria	3
Not Available	6
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Staphylococcaceae → Staphylococcus → Staphylococcus aureus	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?
F012657	Metagenome	278	Y
F031799	Metagenome / Metatranscriptome	181	Y
F032469	Metagenome / Metatranscriptome	180	Y
F048487	Metagenome / Metatranscriptome	148	Y
F050785	Metagenome / Metatranscriptome	145	Y
F058548	Metagenome / Metatranscriptome	135	Y
F060758	Metagenome / Metatranscriptome	132	Y
F064047	Metagenome / Metatranscriptome	129	Y
F065344	Metagenome	127	Y
F072153	Metagenome / Metatranscriptome	121	N
F091102	Metagenome	107	N
F091204	Metagenome	107	N
F104209	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12294J11894_100094	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2537
JGI12294J11894_100114	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2379
JGI12294J11894_101310	All Organisms → cellular organisms → Bacteria	1013
JGI12294J11894_101366	Not Available	990
JGI12294J11894_102237	Not Available	763
JGI12294J11894_102470	All Organisms → cellular organisms → Bacteria	726
JGI12294J11894_104224	All Organisms → cellular organisms → Bacteria	544
JGI12294J11894_104253	Not Available	542
JGI12294J11894_104444	Not Available	530
JGI12294J11894_104454	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium	529
JGI12294J11894_104509	Not Available	526
JGI12294J11894_104703	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Staphylococcaceae → Staphylococcus → Staphylococcus aureus	514
JGI12294J11894_104961	Not Available	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12294J11894_100094	JGI12294J11894_1000941	F058548	PDLLQRAFGLRLLALRCQIAPKYDPLFAAKNDPFDGAETGGAEAHIAEQSRSWRAASGERAVMRGS*
JGI12294J11894_100114	JGI12294J11894_1001144	F012657	DPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*
JGI12294J11894_101310	JGI12294J11894_1013102	F104209	REWHSECGDAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12294J11894_101366	JGI12294J11894_1013661	F072153	EVWVREMMEEVEIRTGRERIAMHCKAQRKHSVLTFPLHHQGIPLGARRAESKILIHLRQSAPEVEKRSLAAYERVANGGGR*
JGI12294J11894_102237	JGI12294J11894_1022371	F091102	SLESKADSDFNSVVNYTVRHLGENRMKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVADIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12294J11894_102377	JGI12294J11894_1023772	F064047	MTLMKSPRAGRLALAFGVVLSVFLSVAAFDASYAQPAPGAAPAAP
JGI12294J11894_102470	JGI12294J11894_1024703	F048487	MAEPRQNRGPFQIQVSYLFDRLLEPKLAQAYELLVPCREHPVGVKEFDDEDGGNLRKSVVRAATRGEHDREPDGIADRVRQEP
JGI12294J11894_104224	JGI12294J11894_1042241	F031799	VNGQLPSVKRTASAEPEPTGINFVELLKQKQEKE*
JGI12294J11894_104253	JGI12294J11894_1042532	F065344	MTNGLPDVAKEARPSRRRTRRIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSXSFVEATIRDTWHRRHEEIGSEL*
JGI12294J11894_104444	JGI12294J11894_1044442	F091204	ARESGGKPAHNVRSAQVSDEVVAPLTDFEIAAIESLGAIFQAGGTEAFNFAAKRQLFILASLIKRILGEDGLNELLTAAGWV*
JGI12294J11894_104454	JGI12294J11894_1044541	F072153	QYAGQDVWVQELAEEVDIRTGRERIAMHGKAQRKHSVLTFPPHHQGIPLGARRAEGKILIHLRQSAPEVEKRSLAAYERVANRGGR*
JGI12294J11894_104509	JGI12294J11894_1045091	F050785	MLILVRRAQICNTLIVSILASCQKLPATVPDLANRPRQLVFLTPINSQLNDFLNEVHQIARLDPSIVERIDEDLDLHAKKKKLLRLIDAQFLAGQTPDLPKLEFQLRELKLDDIDLEIGRPRTEAYIVYLFLMLRGLIGGCKDQHARLFQEESITLKL
JGI12294J11894_104703	JGI12294J11894_1047031	F060758	VTVRFSVTIRQVRDDGSEAPLQQELAAALAAPAEQFAGLAAWAAGEAGYLDHGEREKVIGQEGRELQRRLLQATFDIDSAGEERAEGV
JGI12294J11894_104961	JGI12294J11894_1049612	F032469	MRPFDRDLIRGEHYGQRSCEPHLKAEHMXAPTKTVT*