3300000679: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 23

Overview

Basic Information

• IMG/M Taxon OID: 3300000679
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0075432 | Gp0054453 | Ga0001946
• Sample Name: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 23
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 5612930
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidisarcina → Acidisarcina polymorpha	1
Not Available	3
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
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium	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?
F018438	Metagenome / Metatranscriptome	235	Y
F019273	Metagenome	230	Y
F025553	Metagenome / Metatranscriptome	201	Y
F036895	Metagenome / Metatranscriptome	169	Y
F040358	Metagenome / Metatranscriptome	162	N
F052920	Metagenome / Metatranscriptome	142	Y
F075781	Metagenome / Metatranscriptome	118	Y
F080462	Metagenome / Metatranscriptome	115	Y
F083637	Metagenome / Metatranscriptome	112	N
F092928	Metagenome / Metatranscriptome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12586J11914_100271	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1090
JGI12586J11914_100344	All Organisms → cellular organisms → Bacteria	953
JGI12586J11914_100577	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	752
JGI12586J11914_100583	All Organisms → cellular organisms → Bacteria	749
JGI12586J11914_100868	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidisarcina → Acidisarcina polymorpha	640
JGI12586J11914_101105	Not Available	584
JGI12586J11914_101271	Not Available	555
JGI12586J11914_101502	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	521
JGI12586J11914_101537	Not Available	518
JGI12586J11914_101540	All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium	517

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12586J11914_100271	JGI12586J11914_1002712	F080462	MNSKQEHPIQALGFWMFGFLSVVLAILKLTVAGYWSWWRVMLPLLAFLGHNAVYLLAGFLCFCWLKHEEDEEEPTTVQKHSREGYNLAALLFFFLFLDNLLRRVEGQ
JGI12586J11914_100344	JGI12586J11914_1003441	F036895	LLHGHYSASLLLRTLPPPSRLRSFSRLCRLYDLPCSGDFSPGRGGLLQLLSMSLPPCCRFHPAEIEMPRRSDFGTPCCLRPSVAGSALGSTHFRGHLRVHFRYGPVTRDLPKGDLVDRLQSLGCPPPCYPNYGAPDCCPGRFVSC*
JGI12586J11914_100577	JGI12586J11914_1005771	F083637	VVICSVTLALGLAGCGWAGKTPIIGKGKAPAPVVTKG*
JGI12586J11914_100583	JGI12586J11914_1005833	F052920	MRHEVHSHGTAACIAPFSERTDVHWETTNLPVWNAEGAAEQQELVYEVSWIKELGMWRRFLTSRCKVGSGRQEVPC*
JGI12586J11914_100868	JGI12586J11914_1008681	F018438	MGIDDKSSHPELCLEVAGGVTRTIVGLFREPDAGNPPVRFDEREQETELCQTGLRRRCKNFVNSHRETNATAPVLDSTQNPPQWLLVKYSNRFVDFPRWP
JGI12586J11914_101105	JGI12586J11914_1011053	F019273	RTNKKYPFKQMQPGETFKLNDEDVRNAQKMAWYYRTRCKRPIRIIIAKSDDGFHCHRID*
JGI12586J11914_101271	JGI12586J11914_1012711	F040358	MRIAIFALAVLAGGGAAEAGQIEVISASPRHIEIAAWCWTAGSNCQQEASDVAQGYCHGSDYPDYPRRALYVRSGLVERGFFSERVIFVYRCNRRSIICEAGSC*
JGI12586J11914_101502	JGI12586J11914_1015022	F075781	RVDNQTKCSFSSKEPAMTAGAVIKKAFPVVMVSVLDSKDGSVEVIK*
JGI12586J11914_101537	JGI12586J11914_1015372	F025553	MASPLNYAANKSGKIKSPSKKKAGLNVSPALVSREGRGKIFFLDILFHRMSEIADLTVNHRNASL
JGI12586J11914_101540	JGI12586J11914_1015401	F092928	VAQGLGDAGRQAPRHEESDCRAGPPVGGDHAPRLG*