Sample 3300000700

Overview

Basic Information
IMG/M Taxon OID	3300000700 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0075432 \| Gp0054833 \| Ga0001979
Sample Name	Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 56
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	9381243
Sequencing Scaffolds	12
Novel Protein Genes	12
Associated Families	11

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	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	1
Not Available	4
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	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria 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?
F003090	Metagenome / Metatranscriptome	508	Y
F005573	Metagenome / Metatranscriptome	396	Y
F008634	Metagenome / Metatranscriptome	330	Y
F012657	Metagenome	278	Y
F034415	Metagenome / Metatranscriptome	175	Y
F045461	Metagenome	152	N
F057789	Metagenome	135	N
F066972	Metagenome / Metatranscriptome	126	Y
F075781	Metagenome / Metatranscriptome	118	Y
F076736	Metagenome	117	Y
F091102	Metagenome	107	N

Family

Category

Number of Sequences

3D Structure?

F003090

Metagenome / Metatranscriptome

508

F005573

Metagenome / Metatranscriptome

396

F008634

Metagenome / Metatranscriptome

330

F012657

Metagenome

278

F034415

Metagenome / Metatranscriptome

175

F045461

Metagenome

152

F057789

Metagenome

135

F066972

Metagenome / Metatranscriptome

126

F075781

Metagenome / Metatranscriptome

118

F076736

Metagenome

117

F091102

Metagenome

107

Scaffold	Taxonomy	Length	IMG/M Link
JGI12332J11870_100181	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1690	Open in IMG/M
JGI12332J11870_100745	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1020	Open in IMG/M
JGI12332J11870_100807	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1	991	Open in IMG/M
JGI12332J11870_101429	Not Available	775	Open in IMG/M
JGI12332J11870_101518	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	753	Open in IMG/M
JGI12332J11870_101650	Not Available	728	Open in IMG/M
JGI12332J11870_101918	All Organisms → cellular organisms → Bacteria	678	Open in IMG/M
JGI12332J11870_102124	Not Available	653	Open in IMG/M
JGI12332J11870_102563	Not Available	600	Open in IMG/M
JGI12332J11870_102637	All Organisms → cellular organisms → Bacteria	592	Open in IMG/M
JGI12332J11870_103687	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae bacterium	511	Open in IMG/M
JGI12332J11870_103826	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	504	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI12332J11870_100181

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

1690

Open in IMG/M

JGI12332J11870_100745

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

1020

Open in IMG/M

JGI12332J11870_100807

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

991

Open in IMG/M

JGI12332J11870_101429

Not Available

775

Open in IMG/M

JGI12332J11870_101518

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

753

Open in IMG/M

JGI12332J11870_101650

Not Available

728

Open in IMG/M

JGI12332J11870_101918

All Organisms → cellular organisms → Bacteria

678

Open in IMG/M

JGI12332J11870_102124

Not Available

653

Open in IMG/M

JGI12332J11870_102563

Not Available

600

Open in IMG/M

JGI12332J11870_102637

All Organisms → cellular organisms → Bacteria

592

Open in IMG/M

JGI12332J11870_103687

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

511

Open in IMG/M

JGI12332J11870_103826

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

504

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI12332J11870_100181	JGI12332J11870_1001811	F012657	AASLHQMAERDDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*
JGI12332J11870_100745	JGI12332J11870_1007451	F066972	MCGASQKGRPVVRSAILIFLAILVSATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEPQKAALKDLTDASASAHASAKKSLCEAKALLETDEVA*
JGI12332J11870_100807	JGI12332J11870_1008073	F057789	MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEDLQRHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPSV
JGI12332J11870_101429	JGI12332J11870_1014291	F091102	MKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVADIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLY
JGI12332J11870_101518	JGI12332J11870_1015183	F075781	ERFLLRVDNQTKCSFSSKEPAMTAGAVIKKAFPVVMVSVLDSKDGSVEVIK*
JGI12332J11870_101650	JGI12332J11870_1016501	F012657	SGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRXWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12332J11870_101918	JGI12332J11870_1019181	F005573	VIRAHQPPESDDDDGFFAALQELVAYAFEESVRIKKKGRPVSSSRGILQEVQSLLQKYRSELVRQSRLLDQ
JGI12332J11870_102124	JGI12332J11870_1021241	F034415	MPAAPGHARSLHLIEAEAYRRIMAGEAPATLDEFAQQLLHWLRQSYPEAAPTTLATVENQIRGTWHRRHDMIQGGGL*
JGI12332J11870_102563	JGI12332J11870_1025631	F045461	MLFGAVFVIMLAAAIIVDLAAFLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHRK*
JGI12332J11870_102637	JGI12332J11870_1026371	F076736	MVQGVDNIGICTTDVERSVAFYQRLGFSEAYRNDRGVLV
JGI12332J11870_103687	JGI12332J11870_1036871	F008634	MYGKGPELEIGNATSAILISLLRKLADKDILSNTEIRSLLTEAASDLGPHEYTAPVKGAIGIILDDILPQFPE
JGI12332J11870_103826	JGI12332J11870_1038262	F003090	IDYKGYRIEVCPVGKGWRASIFSPGSIRPWPNSPANLEKSSAEELVAEAKRIIDVRLGPRRL*

Scaffold ID

Protein ID

Family

Sequence

JGI12332J11870_100181

JGI12332J11870_1001811

F012657

AASLHQMAERDDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*

JGI12332J11870_100745

JGI12332J11870_1007451

F066972

MCGASQKGRPVVRSAILIFLAILVSATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEPQKAALKDLTDASASAHASAKKSLCEAKALLETDEVA*

JGI12332J11870_100807

JGI12332J11870_1008073

F057789

MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEDLQRHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPSV

JGI12332J11870_101429

JGI12332J11870_1014291

F091102

MKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVADIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLY

JGI12332J11870_101518

JGI12332J11870_1015183

F075781

ERFLLRVDNQTKCSFSSKEPAMTAGAVIKKAFPVVMVSVLDSKDGSVEVIK*

JGI12332J11870_101650

JGI12332J11870_1016501

F012657

SGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRXWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*

JGI12332J11870_101918

JGI12332J11870_1019181

F005573

VIRAHQPPESDDDDGFFAALQELVAYAFEESVRIKKKGRPVSSSRGILQEVQSLLQKYRSELVRQSRLLDQ

JGI12332J11870_102124

JGI12332J11870_1021241

F034415

MPAAPGHARSLHLIEAEAYRRIMAGEAPATLDEFAQQLLHWLRQSYPEAAPTTLATVENQIRGTWHRRHDMIQGGGL*

JGI12332J11870_102563

JGI12332J11870_1025631

F045461

MLFGAVFVIMLAAAIIVDLAAFLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHRK*

JGI12332J11870_102637

JGI12332J11870_1026371

F076736

MVQGVDNIGICTTDVERSVAFYQRLGFSEAYRNDRGVLV

JGI12332J11870_103687

JGI12332J11870_1036871

F008634

MYGKGPELEIGNATSAILISLLRKLADKDILSNTEIRSLLTEAASDLGPHEYTAPVKGAIGIILDDILPQFPE

JGI12332J11870_103826

JGI12332J11870_1038262

F003090

IDYKGYRIEVCPVGKGWRASIFSPGSIRPWPNSPANLEKSSAEELVAEAKRIIDVRLGPRRL*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000700: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 56

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences