Sample 3300000716

Overview

Basic Information
IMG/M Taxon OID	3300000716 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0075432 \| Gp0054832 \| Ga0001989
Sample Name	Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 66
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	12978623
Sequencing Scaffolds	18
Novel Protein Genes	18
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	1
Not Available	7
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae 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
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F002851	Metagenome / Metatranscriptome	526	Y
F003090	Metagenome / Metatranscriptome	508	Y
F008634	Metagenome / Metatranscriptome	330	Y
F009024	Metagenome / Metatranscriptome	324	Y
F011271	Metagenome	292	Y
F012657	Metagenome	278	Y
F024236	Metagenome	206	Y
F045461	Metagenome	152	N
F057789	Metagenome	135	N
F059482	Metagenome / Metatranscriptome	134	Y
F062933	Metagenome / Metatranscriptome	130	Y
F069413	Metagenome / Metatranscriptome	124	Y
F069634	Metagenome	123	Y
F072153	Metagenome / Metatranscriptome	121	N
F078037	Metagenome	116	N
F083637	Metagenome / Metatranscriptome	112	N
F104209	Metagenome	100	N

Family

Category

Number of Sequences

3D Structure?

F002851

Metagenome / Metatranscriptome

526

F003090

Metagenome / Metatranscriptome

508

F008634

Metagenome / Metatranscriptome

330

F009024

Metagenome / Metatranscriptome

324

F011271

Metagenome

292

F012657

Metagenome

278

F024236

Metagenome

206

F045461

Metagenome

152

F057789

Metagenome

135

F059482

Metagenome / Metatranscriptome

134

F062933

Metagenome / Metatranscriptome

130

F069413

Metagenome / Metatranscriptome

124

F069634

Metagenome

123

F072153

Metagenome / Metatranscriptome

121

F078037

Metagenome

116

F083637

Metagenome / Metatranscriptome

112

F104209

Metagenome

100

Scaffold	Taxonomy	Length	IMG/M Link
JGI12331J11884_100016	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3733	Open in IMG/M
JGI12331J11884_100412	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1488	Open in IMG/M
JGI12331J11884_100435	All Organisms → cellular organisms → Bacteria	1456	Open in IMG/M
JGI12331J11884_100836	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1171	Open in IMG/M
JGI12331J11884_101125	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae	1045	Open in IMG/M
JGI12331J11884_101588	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	897	Open in IMG/M
JGI12331J11884_101885	All Organisms → cellular organisms → Bacteria	832	Open in IMG/M
JGI12331J11884_102102	Not Available	792	Open in IMG/M
JGI12331J11884_102166	Not Available	780	Open in IMG/M
JGI12331J11884_102361	Not Available	752	Open in IMG/M
JGI12331J11884_102564	Not Available	724	Open in IMG/M
JGI12331J11884_102694	Not Available	708	Open in IMG/M
JGI12331J11884_102767	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	698	Open in IMG/M
JGI12331J11884_104095	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	582	Open in IMG/M
JGI12331J11884_104588	Not Available	553	Open in IMG/M
JGI12331J11884_104778	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	543	Open in IMG/M
JGI12331J11884_104913	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium	536	Open in IMG/M
JGI12331J11884_105579	Not Available	506	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI12331J11884_100016

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

3733

Open in IMG/M

JGI12331J11884_100412

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

1488

Open in IMG/M

JGI12331J11884_100435

All Organisms → cellular organisms → Bacteria

1456

Open in IMG/M

JGI12331J11884_100836

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis

1171

Open in IMG/M

JGI12331J11884_101125

All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae

1045

Open in IMG/M

JGI12331J11884_101588

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1

897

Open in IMG/M

JGI12331J11884_101885

All Organisms → cellular organisms → Bacteria

832

Open in IMG/M

JGI12331J11884_102102

Not Available

792

Open in IMG/M

JGI12331J11884_102166

Not Available

780

Open in IMG/M

JGI12331J11884_102361

Not Available

752

Open in IMG/M

JGI12331J11884_102564

Not Available

724

Open in IMG/M

JGI12331J11884_102694

Not Available

708

Open in IMG/M

JGI12331J11884_102767

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

698

Open in IMG/M

JGI12331J11884_104095

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium

582

Open in IMG/M

JGI12331J11884_104588

Not Available

553

Open in IMG/M

JGI12331J11884_104778

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales

543

Open in IMG/M

JGI12331J11884_104913

All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium

536

Open in IMG/M

JGI12331J11884_105579

Not Available

506

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI12331J11884_100016	JGI12331J11884_1000164	F083637	MKKMLVVICSLVLALSLAGCGWGPWAGKGKAPIIGKGKAPAPVVTKG*
JGI12331J11884_100412	JGI12331J11884_1004122	F045461	EIAVRQPTALHREFSLRSMLFGAVFVIMLAAAIIVDLAALLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHRK*
JGI12331J11884_100435	JGI12331J11884_1004351	F104209	SAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12331J11884_100836	JGI12331J11884_1008362	F078037	MDVKLITAILVTAAMASAALAQGPSTEKLKADAQEVVKIISSDSAKAQAYCETIKLGDQMDQAEQNNDSDKAEGLSNKIDELNQKLGPEYLKLGQDLQDIDPNSPDGLDLARTLAALDKLCK*
JGI12331J11884_101125	JGI12331J11884_1011251	F059482	MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLAEAAGQLHL
JGI12331J11884_101588	JGI12331J11884_1015883	F057789	MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEELQPHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDQPERLLFMQSADLKKIPGVGKA
JGI12331J11884_101885	JGI12331J11884_1018852	F009024	MQHNSDYYREQATRYRELAEKAPDGAAKKEYLELAAACEEAADRLDDLRASG*
JGI12331J11884_102102	JGI12331J11884_1021022	F012657	VNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12331J11884_102166	JGI12331J11884_1021661	F069634	VKVGIHSPNKPPVVVSLLLAILALIGYSVDSSFAFFIAMFAYIVGALGVLVEI*
JGI12331J11884_102361	JGI12331J11884_1023612	F011271	RYRIDLQSEAKEKQALKLAEIRETLVAAGYDTTAKQAAILGIGRSTAWVLLNRDKRAGPSAKVIKRILSSPQVPKAVRRKVEQYVRQKIRGLYGHSEQRTQWFSQQFQPS*
JGI12331J11884_102564	JGI12331J11884_1025642	F062933	RHVFALLVALIVGVTVFYRLPEPLPELTRAEFMAEVRAGHVRRIEIEDQEVIIAESSTRGEFRTGFDRKVDVNLPAELRALGVEVYFSKSPLGLI*
JGI12331J11884_102694	JGI12331J11884_1026941	F008634	MYGKGRELEIGNATSAIVISLLQALVDKHVLSNTEARAVLTKAADKLGPHDYTAPVKGAIGIILDDILQQFPE
JGI12331J11884_102767	JGI12331J11884_1027671	F083637	MKKVFTVICSVLVALSLAGCGWFVPGKGKAPIIGKGKAP
JGI12331J11884_104095	JGI12331J11884_1040952	F003090	MEKKTVTDYKGYRIEVCPVGKGWRASIFSPGSIRPWPNSPANLEKSSAEELVAEAKRIIDVRLGPRRL*
JGI12331J11884_104588	JGI12331J11884_1045882	F024236	MHLVLVFTVAVGLYVLGMIVLALAAILGSVRGNRELKKLEPEPRPGDY*
JGI12331J11884_104778	JGI12331J11884_1047781	F069413	MQSSLPAGWLAFTGRESNPLDHYKRFQITLSSPSSGFILAQRTAGFPQYGW
JGI12331J11884_104913	JGI12331J11884_1049131	F072153	GQEVWVREMMEEVEIRTGRERIAMHCKAQRKHSVLTFPLHHQGIPLGARRAESKILIHLRQSAPEVEKRSLAAYERVANGGGR*
JGI12331J11884_105579	JGI12331J11884_1055792	F002851	MKSYIETAALITGCGSAAFWFASALCHLPGIKPGTNEQDKATELSNRLQRMSTWNFWAAGLMGVTALLSVWIRFLG*

Scaffold ID

Protein ID

Family

Sequence

JGI12331J11884_100016

JGI12331J11884_1000164

F083637

MKKMLVVICSLVLALSLAGCGWGPWAGKGKAPIIGKGKAPAPVVTKG*

JGI12331J11884_100412

JGI12331J11884_1004122

F045461

EIAVRQPTALHREFSLRSMLFGAVFVIMLAAAIIVDLAALLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHRK*

JGI12331J11884_100435

JGI12331J11884_1004351

F104209

SAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*

JGI12331J11884_100836

JGI12331J11884_1008362

F078037

MDVKLITAILVTAAMASAALAQGPSTEKLKADAQEVVKIISSDSAKAQAYCETIKLGDQMDQAEQNNDSDKAEGLSNKIDELNQKLGPEYLKLGQDLQDIDPNSPDGLDLARTLAALDKLCK*

JGI12331J11884_101125

JGI12331J11884_1011251

F059482

MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLAEAAGQLHL

JGI12331J11884_101588

JGI12331J11884_1015883

F057789

MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEELQPHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDQPERLLFMQSADLKKIPGVGKA

JGI12331J11884_101885

JGI12331J11884_1018852

F009024

MQHNSDYYREQATRYRELAEKAPDGAAKKEYLELAAACEEAADRLDDLRASG*

JGI12331J11884_102102

JGI12331J11884_1021022

F012657

VNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*

JGI12331J11884_102166

JGI12331J11884_1021661

F069634

VKVGIHSPNKPPVVVSLLLAILALIGYSVDSSFAFFIAMFAYIVGALGVLVEI*

JGI12331J11884_102361

JGI12331J11884_1023612

F011271

RYRIDLQSEAKEKQALKLAEIRETLVAAGYDTTAKQAAILGIGRSTAWVLLNRDKRAGPSAKVIKRILSSPQVPKAVRRKVEQYVRQKIRGLYGHSEQRTQWFSQQFQPS*

JGI12331J11884_102564

JGI12331J11884_1025642

F062933

RHVFALLVALIVGVTVFYRLPEPLPELTRAEFMAEVRAGHVRRIEIEDQEVIIAESSTRGEFRTGFDRKVDVNLPAELRALGVEVYFSKSPLGLI*

JGI12331J11884_102694

JGI12331J11884_1026941

F008634

MYGKGRELEIGNATSAIVISLLQALVDKHVLSNTEARAVLTKAADKLGPHDYTAPVKGAIGIILDDILQQFPE

JGI12331J11884_102767

JGI12331J11884_1027671

F083637

MKKVFTVICSVLVALSLAGCGWFVPGKGKAPIIGKGKAP

JGI12331J11884_104095

JGI12331J11884_1040952

F003090

MEKKTVTDYKGYRIEVCPVGKGWRASIFSPGSIRPWPNSPANLEKSSAEELVAEAKRIIDVRLGPRRL*

JGI12331J11884_104588

JGI12331J11884_1045882

F024236

MHLVLVFTVAVGLYVLGMIVLALAAILGSVRGNRELKKLEPEPRPGDY*

JGI12331J11884_104778

JGI12331J11884_1047781

F069413

MQSSLPAGWLAFTGRESNPLDHYKRFQITLSSPSSGFILAQRTAGFPQYGW

JGI12331J11884_104913

JGI12331J11884_1049131

F072153

GQEVWVREMMEEVEIRTGRERIAMHCKAQRKHSVLTFPLHHQGIPLGARRAESKILIHLRQSAPEVEKRSLAAYERVANGGGR*

JGI12331J11884_105579

JGI12331J11884_1055792

F002851

MKSYIETAALITGCGSAAFWFASALCHLPGIKPGTNEQDKATELSNRLQRMSTWNFWAAGLMGVTALLSVWIRFLG*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000716: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 66

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences