Sample 3300000862

Overview

Basic Information
IMG/M Taxon OID	3300000862 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0075432 \| Gp0054446 \| Ga0001987
Sample Name	Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 64
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	14926982
Sequencing Scaffolds	16
Novel Protein Genes	16
Associated Families	15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	2
All Organisms → cellular organisms → Bacteria	3
Not Available	5
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	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?
F001823	Metagenome / Metatranscriptome	630	Y
F005929	Metagenome / Metatranscriptome	386	Y
F008634	Metagenome / Metatranscriptome	330	Y
F010721	Metagenome / Metatranscriptome	300	Y
F012657	Metagenome	278	Y
F027165	Metagenome	195	Y
F044096	Metagenome / Metatranscriptome	155	Y
F057789	Metagenome	135	N
F059482	Metagenome / Metatranscriptome	134	Y
F075781	Metagenome / Metatranscriptome	118	Y
F076466	Metagenome	118	Y
F076736	Metagenome	117	Y
F091102	Metagenome	107	N
F091204	Metagenome	107	N
F104209	Metagenome	100	N

Family

Category

Number of Sequences

3D Structure?

F001823

Metagenome / Metatranscriptome

630

F005929

Metagenome / Metatranscriptome

386

F008634

Metagenome / Metatranscriptome

330

F010721

Metagenome / Metatranscriptome

300

F012657

Metagenome

278

F027165

Metagenome

195

F044096

Metagenome / Metatranscriptome

155

F057789

Metagenome

135

F059482

Metagenome / Metatranscriptome

134

F075781

Metagenome / Metatranscriptome

118

F076466

Metagenome

118

F076736

Metagenome

117

F091102

Metagenome

107

F091204

Metagenome

107

F104209

Metagenome

100

Scaffold	Taxonomy	Length	IMG/M Link
JGI12579J12822_100164	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2661	Open in IMG/M
JGI12579J12822_100505	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	1834	Open in IMG/M
JGI12579J12822_100794	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1577	Open in IMG/M
JGI12579J12822_101182	All Organisms → cellular organisms → Bacteria	1348	Open in IMG/M
JGI12579J12822_101552	Not Available	1190	Open in IMG/M
JGI12579J12822_103311	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	787	Open in IMG/M
JGI12579J12822_103411	All Organisms → cellular organisms → Bacteria	775	Open in IMG/M
JGI12579J12822_103739	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	737	Open in IMG/M
JGI12579J12822_103826	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae	728	Open in IMG/M
JGI12579J12822_104837	All Organisms → cellular organisms → Bacteria	637	Open in IMG/M
JGI12579J12822_105085	Not Available	619	Open in IMG/M
JGI12579J12822_105454	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	596	Open in IMG/M
JGI12579J12822_105975	Not Available	566	Open in IMG/M
JGI12579J12822_106361	Not Available	544	Open in IMG/M
JGI12579J12822_106456	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	540	Open in IMG/M
JGI12579J12822_107312	Not Available	502	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI12579J12822_100164

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

2661

Open in IMG/M

JGI12579J12822_100505

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

1834

Open in IMG/M

JGI12579J12822_100794

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

1577

Open in IMG/M

JGI12579J12822_101182

All Organisms → cellular organisms → Bacteria

1348

Open in IMG/M

JGI12579J12822_101552

Not Available

1190

Open in IMG/M

JGI12579J12822_103311

787

Open in IMG/M

JGI12579J12822_103411

All Organisms → cellular organisms → Bacteria

775

Open in IMG/M

JGI12579J12822_103739

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

737

Open in IMG/M

JGI12579J12822_103826

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

728

Open in IMG/M

JGI12579J12822_104837

All Organisms → cellular organisms → Bacteria

637

Open in IMG/M

JGI12579J12822_105085

Not Available

619

Open in IMG/M

JGI12579J12822_105454

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

596

Open in IMG/M

JGI12579J12822_105975

Not Available

566

Open in IMG/M

JGI12579J12822_106361

Not Available

544

Open in IMG/M

JGI12579J12822_106456

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

540

Open in IMG/M

JGI12579J12822_107312

Not Available

502

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI12579J12822_100164	JGI12579J12822_1001641	F012657	KSGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12579J12822_100505	JGI12579J12822_1005056	F057789	MSETALQFTGTDLRGLLDVLLEALKVIRRXGRRPTITVNGKLYASHDLRKVAALLPDEXLQXHHQALVNVMFAKKQRGYRKTAYNLADRANSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPGVGKAS
JGI12579J12822_100794	JGI12579J12822_1007942	F091102	MKQWKLLPLICGAWVVAWYPSWAIEERFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCTRGLYGTMHDENDPTSALLIVVPEGSYLFDYYVAVCRAVTHEEPYLPQKH*
JGI12579J12822_101182	JGI12579J12822_1011822	F104209	RQERRNGHGGAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12579J12822_101552	JGI12579J12822_1015522	F001823	MRVIDRDLIRGGHYGQRSCEPHLKAEHMAAPTNSANVKISLANSEP
JGI12579J12822_103311	JGI12579J12822_1033111	F057789	MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHRGFSERTIRALMDCSIDAPERLLFMKPADLKKIPGLGKASVDEIMRYRAKFIRRRAD*
JGI12579J12822_103411	JGI12579J12822_1034111	F010721	GRLSAGFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA*
JGI12579J12822_103739	JGI12579J12822_1037391	F027165	MGYNARNDEIHENVERMRREREAYEDSLAIVRQFNARLSAKKTAWFWPTVAAALASKHHWLVIACDACGTVIDLDLTMKRRDPDAPIRVALNDVRCPRCNGHGRMRIAGLSRYPSV*
JGI12579J12822_103826	JGI12579J12822_1038261	F059482	MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLPEAAG
JGI12579J12822_104837	JGI12579J12822_1048371	F076736	MVQGVDNIGICTTDVERSVAFYQRLGFSEAYRNDRGVLVAAGAAHLFIFA
JGI12579J12822_105085	JGI12579J12822_1050851	F008634	MYGKGRELEIGNATSAIVISLLQALVDKHVLSNTEARAVLTKAADKLGPHDYTAPVKGAIGIILDDILQQFPENGG
JGI12579J12822_105454	JGI12579J12822_1054542	F076466	MLTEATQLEMADLKDRCRNFRGESTGHEQWPADILAEKFQPAEDVDVAPDGGEVETIARANIAVCGIAIVQSDIDANMLLDL
JGI12579J12822_105975	JGI12579J12822_1059751	F091204	MGWLRRISRSRHHGNMSARVIEFPGARESGGKPAHNVRSAQVSDEVVAPLTDFEIAAIESLGAIFQAGGTEAFNFAAKRQLFILASLIKRILGEDGLNELLTAAGWV*
JGI12579J12822_106361	JGI12579J12822_1063612	F005929	MSLLSFWGLVFSLIAVTLFVVIYSYQKSKYANRNIVGDLRQRSVDVYLAAKTPEAESDSKKFREASNEIERLRAETRVLFWLIIAMNTAVIIIFILAYRYF*
JGI12579J12822_106456	JGI12579J12822_1064562	F044096	MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEP
JGI12579J12822_107312	JGI12579J12822_1073121	F075781	EERFWLRVDGQMKRSFSSKEPAMTAGREIKKAFPVVVVTLEDTKDGSIETVK*

Scaffold ID

Protein ID

Family

Sequence

JGI12579J12822_100164

JGI12579J12822_1001641

F012657

KSGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*

JGI12579J12822_100505

JGI12579J12822_1005056

F057789

MSETALQFTGTDLRGLLDVLLEALKVIRRXGRRPTITVNGKLYASHDLRKVAALLPDEXLQXHHQALVNVMFAKKQRGYRKTAYNLADRANSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPGVGKAS

JGI12579J12822_100794

JGI12579J12822_1007942

F091102

MKQWKLLPLICGAWVVAWYPSWAIEERFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCTRGLYGTMHDENDPTSALLIVVPEGSYLFDYYVAVCRAVTHEEPYLPQKH*

JGI12579J12822_101182

JGI12579J12822_1011822

F104209

RQERRNGHGGAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*

JGI12579J12822_101552

JGI12579J12822_1015522

F001823

MRVIDRDLIRGGHYGQRSCEPHLKAEHMAAPTNSANVKISLANSEP

JGI12579J12822_103311

JGI12579J12822_1033111

F057789

MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHRGFSERTIRALMDCSIDAPERLLFMKPADLKKIPGLGKASVDEIMRYRAKFIRRRAD*

JGI12579J12822_103411

JGI12579J12822_1034111

F010721

GRLSAGFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA*

JGI12579J12822_103739

JGI12579J12822_1037391

F027165

MGYNARNDEIHENVERMRREREAYEDSLAIVRQFNARLSAKKTAWFWPTVAAALASKHHWLVIACDACGTVIDLDLTMKRRDPDAPIRVALNDVRCPRCNGHGRMRIAGLSRYPSV*

JGI12579J12822_103826

JGI12579J12822_1038261

F059482

MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLPEAAG

JGI12579J12822_104837

JGI12579J12822_1048371

F076736

MVQGVDNIGICTTDVERSVAFYQRLGFSEAYRNDRGVLVAAGAAHLFIFA

JGI12579J12822_105085

JGI12579J12822_1050851

F008634

MYGKGRELEIGNATSAIVISLLQALVDKHVLSNTEARAVLTKAADKLGPHDYTAPVKGAIGIILDDILQQFPENGG

JGI12579J12822_105454

JGI12579J12822_1054542

F076466

MLTEATQLEMADLKDRCRNFRGESTGHEQWPADILAEKFQPAEDVDVAPDGGEVETIARANIAVCGIAIVQSDIDANMLLDL

JGI12579J12822_105975

JGI12579J12822_1059751

F091204

MGWLRRISRSRHHGNMSARVIEFPGARESGGKPAHNVRSAQVSDEVVAPLTDFEIAAIESLGAIFQAGGTEAFNFAAKRQLFILASLIKRILGEDGLNELLTAAGWV*

JGI12579J12822_106361

JGI12579J12822_1063612

F005929

MSLLSFWGLVFSLIAVTLFVVIYSYQKSKYANRNIVGDLRQRSVDVYLAAKTPEAESDSKKFREASNEIERLRAETRVLFWLIIAMNTAVIIIFILAYRYF*

JGI12579J12822_106456

JGI12579J12822_1064562

F044096

MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEP

JGI12579J12822_107312

JGI12579J12822_1073121

F075781

EERFWLRVDGQMKRSFSSKEPAMTAGREIKKAFPVVVVTLEDTKDGSIETVK*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000862: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 64

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences