Sample 3300000706

Overview

Basic Information
IMG/M Taxon OID	3300000706 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0075432 \| Gp0054559 \| Ga0001988
Sample Name	Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 65
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	10918613
Sequencing Scaffolds	15
Novel Protein Genes	15
Associated Families	15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1
Not Available	5
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria meningitidis	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	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?
F001022	Metagenome / Metatranscriptome	804	Y
F007624	Metagenome / Metatranscriptome	348	N
F009002	Metagenome / Metatranscriptome	324	Y
F010450	Metagenome / Metatranscriptome	303	Y
F011271	Metagenome	292	Y
F012657	Metagenome	278	Y
F048473	Metagenome	148	N
F057773	Metagenome / Metatranscriptome	136	Y
F057789	Metagenome	135	N
F059482	Metagenome / Metatranscriptome	134	Y
F062933	Metagenome / Metatranscriptome	130	Y
F066972	Metagenome / Metatranscriptome	126	Y
F069413	Metagenome / Metatranscriptome	124	Y
F069634	Metagenome	123	Y
F079486	Metagenome / Metatranscriptome	115	Y

Family

Category

Number of Sequences

3D Structure?

F001022

Metagenome / Metatranscriptome

804

F007624

Metagenome / Metatranscriptome

348

F009002

Metagenome / Metatranscriptome

324

F010450

Metagenome / Metatranscriptome

303

F011271

Metagenome

292

F012657

Metagenome

278

F048473

Metagenome

148

F057773

Metagenome / Metatranscriptome

136

F057789

Metagenome

135

F059482

Metagenome / Metatranscriptome

134

F062933

Metagenome / Metatranscriptome

130

F066972

Metagenome / Metatranscriptome

126

F069413

Metagenome / Metatranscriptome

124

F069634

Metagenome

123

F079486

Metagenome / Metatranscriptome

115

Scaffold	Taxonomy	Length	IMG/M Link
JGI12374J11875_100005	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	4628	Open in IMG/M
JGI12374J11875_100082	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	2411	Open in IMG/M
JGI12374J11875_100285	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1634	Open in IMG/M
JGI12374J11875_100640	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1277	Open in IMG/M
JGI12374J11875_101085	Not Available	1019	Open in IMG/M
JGI12374J11875_101112	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae	1011	Open in IMG/M
JGI12374J11875_101321	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	925	Open in IMG/M
JGI12374J11875_101474	Not Available	874	Open in IMG/M
JGI12374J11875_101703	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	812	Open in IMG/M
JGI12374J11875_101880	All Organisms → cellular organisms → Bacteria	776	Open in IMG/M
JGI12374J11875_102088	Not Available	732	Open in IMG/M
JGI12374J11875_102510	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria meningitidis	665	Open in IMG/M
JGI12374J11875_103194	Not Available	592	Open in IMG/M
JGI12374J11875_103288	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	584	Open in IMG/M
JGI12374J11875_104102	Not Available	525	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI12374J11875_100005

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

4628

Open in IMG/M

JGI12374J11875_100082

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia

2411

Open in IMG/M

JGI12374J11875_100285

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

1634

Open in IMG/M

JGI12374J11875_100640

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium

1277

Open in IMG/M

JGI12374J11875_101085

Not Available

1019

Open in IMG/M

JGI12374J11875_101112

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

1011

Open in IMG/M

JGI12374J11875_101321

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

925

Open in IMG/M

JGI12374J11875_101474

Not Available

874

Open in IMG/M

JGI12374J11875_101703

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria

812

Open in IMG/M

JGI12374J11875_101880

All Organisms → cellular organisms → Bacteria

776

Open in IMG/M

JGI12374J11875_102088

Not Available

732

Open in IMG/M

JGI12374J11875_102510

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria meningitidis

665

Open in IMG/M

JGI12374J11875_103194

Not Available

592

Open in IMG/M

JGI12374J11875_103288

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

584

Open in IMG/M

JGI12374J11875_104102

Not Available

525

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI12374J11875_100005	JGI12374J11875_1000051	F010450	MNSVPFSRDFVAAGASAYRPRGEPGLAQRGLLRRVVDAIALSHQRAVERDIARVARGLGLGNPDGRLTDEIERRLFEHLNGDRG
JGI12374J11875_100082	JGI12374J11875_1000821	F007624	LLEPMQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*
JGI12374J11875_100285	JGI12374J11875_1002854	F012657	HNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12374J11875_100640	JGI12374J11875_1006401	F079486	VNADAIPASQLACLLYDAAEGICADVAAVMLIDRHGHFLHDPAFRRIIAAGSSITTGQPLAVIRWTAAIHALEAGQLPCCSSEKAIL
JGI12374J11875_101085	JGI12374J11875_1010852	F011271	MRSNRTRSVGRRSRIDFQLEPKERQALKLAEIREALVAAGYNTTAKQAAVLGIGRSTAWWLLNHNKRAGPSAKVIKRILLSPQIPKRVRRKVEQYVEXKVRGVYGHSEQRAQWFSEQFQRSPVRLT*
JGI12374J11875_101112	JGI12374J11875_1011121	F059482	MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLP
JGI12374J11875_101321	JGI12374J11875_1013211	F069413	MQSSLPAGWLAFTGRESNPLDHYKRFQITLSSPSSGFILAQRTAGFPQYGWKAGLSDGAFPSPDQL
JGI12374J11875_101474	JGI12374J11875_1014741	F057773	EISDELLDLGAQDALAGEIAAAKELSHQDREPNLDLVEPRCVFGREVEGDAMLRVAQERFSCRLGCEHTRLSFNAELKLEAAGARNEADDGLREVNVEIVADNVPLCSGSGTAEQAAEKPREILFGPGVADNACHLSRTDVESGDQGLSAVALVFELAAFDLARHHRQARRNTLQCLNAGHFVDRDRALTVISTGCGLVNRTDVRTFAIKGRIRLWGQPIADAMRFEVCLFFKKRPTERCEIFGTMPRRMASSAISRWLHWLIGRSLSDGFSHVIATTAQICSGVYVAGA
JGI12374J11875_101703	JGI12374J11875_1017031	F001022	MKILEIVPRDRTRLYGALVAKEAAIRKSGRGTYSRVGRRSLGSARWKHKMYKGSVQLAHDPSEIVTAKVRAATPEDERKLLSSF
JGI12374J11875_101880	JGI12374J11875_1018803	F009002	VSYRYSFEDLLALLHGHAPAKVDAVALHRRRVEHGHLSVGLKIHCLGNGSQFSTLVEGLG
JGI12374J11875_102088	JGI12374J11875_1020882	F062933	LIVGVTVFYRLPEPLPELTRAEFMAEVRAGHVRRIEIEDQEVIIAESSTRGEFRTGFDRKVDVNLPAELRALGVEVYFSKSPLGLI*
JGI12374J11875_102510	JGI12374J11875_1025101	F057789	SATAVRWSNGSRLMAVPRPPIRGGLMSATSAYAGTTIAIPTAVREEMSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHXGFSERTIRALMDCSIDAPERLLFMKPADLKKIPGLGKASVDEIMRYRAKFVRR
JGI12374J11875_103194	JGI12374J11875_1031941	F069634	VAKCSPRTRIMKIGIHAPSKPAVVVSLLLAILALIGYFVDSSFAFLIAMFAYIIGALGVLVEI*
JGI12374J11875_103288	JGI12374J11875_1032882	F066972	MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEPQKAALKDLTDASAS
JGI12374J11875_104102	JGI12374J11875_1041021	F048473	LGNRITAALIFLNAVGFLGCLILIATVSHQVPDVAIWIIRAVKYSLQMFIFGALLPVIVWSIAASEINRSSFRVRLVEDWARYFLLFASGALFFIAASRLPNSIISSSEHESELTTRHEGGFWICPFLGRC

Scaffold ID

Protein ID

Family

Sequence

JGI12374J11875_100005

JGI12374J11875_1000051

F010450

MNSVPFSRDFVAAGASAYRPRGEPGLAQRGLLRRVVDAIALSHQRAVERDIARVARGLGLGNPDGRLTDEIERRLFEHLNGDRG

JGI12374J11875_100082

JGI12374J11875_1000821

F007624

LLEPMQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*

JGI12374J11875_100285

JGI12374J11875_1002854

F012657

HNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*

JGI12374J11875_100640

JGI12374J11875_1006401

F079486

VNADAIPASQLACLLYDAAEGICADVAAVMLIDRHGHFLHDPAFRRIIAAGSSITTGQPLAVIRWTAAIHALEAGQLPCCSSEKAIL

JGI12374J11875_101085

JGI12374J11875_1010852

F011271

MRSNRTRSVGRRSRIDFQLEPKERQALKLAEIREALVAAGYNTTAKQAAVLGIGRSTAWWLLNHNKRAGPSAKVIKRILLSPQIPKRVRRKVEQYVEXKVRGVYGHSEQRAQWFSEQFQRSPVRLT*

JGI12374J11875_101112

JGI12374J11875_1011121

F059482

MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLP

JGI12374J11875_101321

JGI12374J11875_1013211

F069413

MQSSLPAGWLAFTGRESNPLDHYKRFQITLSSPSSGFILAQRTAGFPQYGWKAGLSDGAFPSPDQL

JGI12374J11875_101474

JGI12374J11875_1014741

F057773

EISDELLDLGAQDALAGEIAAAKELSHQDREPNLDLVEPRCVFGREVEGDAMLRVAQERFSCRLGCEHTRLSFNAELKLEAAGARNEADDGLREVNVEIVADNVPLCSGSGTAEQAAEKPREILFGPGVADNACHLSRTDVESGDQGLSAVALVFELAAFDLARHHRQARRNTLQCLNAGHFVDRDRALTVISTGCGLVNRTDVRTFAIKGRIRLWGQPIADAMRFEVCLFFKKRPTERCEIFGTMPRRMASSAISRWLHWLIGRSLSDGFSHVIATTAQICSGVYVAGA

JGI12374J11875_101703

JGI12374J11875_1017031

F001022

MKILEIVPRDRTRLYGALVAKEAAIRKSGRGTYSRVGRRSLGSARWKHKMYKGSVQLAHDPSEIVTAKVRAATPEDERKLLSSF

JGI12374J11875_101880

JGI12374J11875_1018803

F009002

VSYRYSFEDLLALLHGHAPAKVDAVALHRRRVEHGHLSVGLKIHCLGNGSQFSTLVEGLG

JGI12374J11875_102088

JGI12374J11875_1020882

F062933

LIVGVTVFYRLPEPLPELTRAEFMAEVRAGHVRRIEIEDQEVIIAESSTRGEFRTGFDRKVDVNLPAELRALGVEVYFSKSPLGLI*

JGI12374J11875_102510

JGI12374J11875_1025101

F057789

SATAVRWSNGSRLMAVPRPPIRGGLMSATSAYAGTTIAIPTAVREEMSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHXGFSERTIRALMDCSIDAPERLLFMKPADLKKIPGLGKASVDEIMRYRAKFVRR

JGI12374J11875_103194

JGI12374J11875_1031941

F069634

VAKCSPRTRIMKIGIHAPSKPAVVVSLLLAILALIGYFVDSSFAFLIAMFAYIIGALGVLVEI*

JGI12374J11875_103288

JGI12374J11875_1032882

F066972

MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEPQKAALKDLTDASAS

JGI12374J11875_104102

JGI12374J11875_1041021

F048473

LGNRITAALIFLNAVGFLGCLILIATVSHQVPDVAIWIIRAVKYSLQMFIFGALLPVIVWSIAASEINRSSFRVRLVEDWARYFLLFASGALFFIAASRLPNSIISSSEHESELTTRHEGGFWICPFLGRC

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000706: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 65

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences