3300000693: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 3

Overview

Basic Information

• IMG/M Taxon OID: 3300000693
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054387 | Ga0001926
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 3
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7282968
• Sequencing Scaffolds: 12
• Novel Protein Genes: 12
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Patescibacteria group → Parcubacteria group → unclassified Parcubacteria group → Parcubacteria group bacterium GW2011_GWA2_47_8	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?
F011271	Metagenome	292	Y
F012657	Metagenome	278	Y
F014533	Metagenome / Metatranscriptome	262	Y
F018438	Metagenome / Metatranscriptome	235	Y
F045461	Metagenome	152	N
F075614	Metagenome	118	N
F075781	Metagenome / Metatranscriptome	118	Y
F083637	Metagenome / Metatranscriptome	112	N
F091102	Metagenome	107	N
F104209	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12545J11889_100205	All Organisms → cellular organisms → Bacteria	1384
JGI12545J11889_100317	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1177
JGI12545J11889_100638	All Organisms → cellular organisms → Bacteria	872
JGI12545J11889_100755	All Organisms → cellular organisms → Bacteria	805
JGI12545J11889_100764	Not Available	802
JGI12545J11889_100779	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	795
JGI12545J11889_100833	Not Available	767
JGI12545J11889_101704	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Patescibacteria group → Parcubacteria group → unclassified Parcubacteria group → Parcubacteria group bacterium GW2011_GWA2_47_8	581
JGI12545J11889_102335	Not Available	513
JGI12545J11889_102407	Not Available	506
JGI12545J11889_102416	Not Available	505
JGI12545J11889_102436	Not Available	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12545J11889_100205	JGI12545J11889_1002051	F104209	SECGDAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12545J11889_100317	JGI12545J11889_1003172	F011271	MRSNRTRSVGRRSRIDFQLEPKERQALKLAEIREALVAAGYNTTAKQAAVLGIGRSTAWWLLNHNKRAGPSAKVIKRILLSPQIPKRVRRKVEQYVEEKVRGVYGHSEQRTQWFSEQFQRSPNS*
JGI12545J11889_100638	JGI12545J11889_1006382	F045461	NSVVFLAISFFAYCTCARKEIAVRQPTAPHSEFSLRSMLFGAVFIIMFVAAVIIDLAALLQFSGLVNGLPANILEMAGVLTGLTIFPLLVMGMSVSVDLNHK*
JGI12545J11889_100755	JGI12545J11889_1007552	F018438	MGIDDKSSHPELCLEVAGGVTRTIVGLFREPDAGNPPVRFDEREQETELCQTGLRRRCKNFVNSHRETNATAPVLDSTHWQLG*
JGI12545J11889_100764	JGI12545J11889_1007642	F091102	TVRHLGENRMKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12545J11889_100779	JGI12545J11889_1007791	F083637	VVXCSXVLALSLAGCGWGPWAGKGPIIGKGKAPAPVVTKG*
JGI12545J11889_100833	JGI12545J11889_1008331	F012657	MPWFKKFEKKRLLDASPAMIAASLHQMAEKDAPQVAPETLGLPEAVHAQFREKLFLYREANVLLALVDRVNPSSDDRDPLFEPVFWEYERIVFWELADPVIRATRRQSVIAALRDLNLRTDLGNGHDFALSWSRNWFAGIGHNEMYPARLERLSRFWSHEYSAVQKVLKAAVRTSRI*
JGI12545J11889_101704	JGI12545J11889_1017042	F075781	TKCSFSSKEPAMTAGAVIKKAFPVVMVSVLDSKDGSVEVIK*
JGI12545J11889_102335	JGI12545J11889_1023351	F014533	MSKKDTRRKWMWLFLAVIASLQIYAVRELLAAFALFVLGFGSIAVCVAALYLAQKTWEAGVARAVVSQNPLILAARRSVAALEDWSRRPVRRPGS
JGI12545J11889_102407	JGI12545J11889_1024071	F012657	AEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12545J11889_102416	JGI12545J11889_1024161	F045461	MLFGAVFVIMLAAAIIVDLAALLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHLK*
JGI12545J11889_102436	JGI12545J11889_1024361	F075614	GMARKDEIVTAIIHVRQSWVETTGASAIFASANVVLGQGDILGIPVTRWDISDEFFVEFTFYPRALENDPVKSIKVLIPKKEVVLIVELKKPEGMGTLGYKTEASE*