NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300000717

3300000717: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 68



Overview

Basic Information
IMG/M Taxon OID3300000717 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0075432 | Gp0054385 | Ga0001991
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 68
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size13597321
Sequencing Scaffolds17
Novel Protein Genes17
Associated Families16

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
Not Available8
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j11
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameTropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico
TypeEnvironmental
TaxonomyEnvironmental → 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
LocationLuquillo Experimental Forest Soil, Puerto Rico
CoordinatesLat. (o)18.0Long. (o)-65.0Alt. (m)N/ADepth (m).1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003090Metagenome / Metatranscriptome508Y
F011271Metagenome292Y
F012657Metagenome278Y
F020122Metagenome225Y
F031584Metagenome / Metatranscriptome182Y
F046870Metagenome / Metatranscriptome150N
F052920Metagenome / Metatranscriptome142Y
F057789Metagenome135N
F059482Metagenome / Metatranscriptome134Y
F062053Metagenome / Metatranscriptome131Y
F063348Metagenome129N
F063480Metagenome129N
F072609Metagenome121Y
F073872Metagenome / Metatranscriptome120Y
F091102Metagenome107N
F101797Metagenome102Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI12543J11896_100365All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1744Open in IMG/M
JGI12543J11896_100743All Organisms → cellular organisms → Bacteria1393Open in IMG/M
JGI12543J11896_101552All Organisms → cellular organisms → Bacteria1018Open in IMG/M
JGI12543J11896_101650All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae992Open in IMG/M
JGI12543J11896_101854All Organisms → cellular organisms → Bacteria → Proteobacteria940Open in IMG/M
JGI12543J11896_103029Not Available727Open in IMG/M
JGI12543J11896_103363All Organisms → cellular organisms → Bacteria686Open in IMG/M
JGI12543J11896_103404Not Available683Open in IMG/M
JGI12543J11896_103582Not Available667Open in IMG/M
JGI12543J11896_104078Not Available625Open in IMG/M
JGI12543J11896_104182Not Available617Open in IMG/M
JGI12543J11896_104290All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1607Open in IMG/M
JGI12543J11896_104391Not Available600Open in IMG/M
JGI12543J11896_104588All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium587Open in IMG/M
JGI12543J11896_105004Not Available560Open in IMG/M
JGI12543J11896_105061All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium557Open in IMG/M
JGI12543J11896_106203Not Available502Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI12543J11896_100365JGI12543J11896_1003651F012657GGNVIAMPSFKKKRRLRTSPVMLAASLHQMAERDDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*
JGI12543J11896_100743JGI12543J11896_1007432F031584MEIAMSALGHVWTAPWQELSDASAALVGCGHVSGLLMRPM*
JGI12543J11896_101552JGI12543J11896_1015523F046870MNTRKEPAMATTPESFVDALNSAFGKQTTQRSAHAKG
JGI12543J11896_101650JGI12543J11896_1016503F059482MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRE
JGI12543J11896_101854JGI12543J11896_1018541F062053WRTKNPDYFGGAYLQQKAKYGTRAEYMRHYRQQHPDYVRRNAASVRKWRQQPRLEPVSHTSRDLHVTIESERTSLRIAHVSHTSRDIFVTLETA*
JGI12543J11896_103029JGI12543J11896_1030291F063348NIFAANAGAPAPAGFSIPSMTGFDQTVRLPDRQGVPSVNVKKAEIEDLAFRFRDEVKAEILQHRGSNAVGVVGSFVVNIEAHRARYAKKLEAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAADHQIPLEIHKIGLSDNQLEVIMRTAEPLAEEKCQEFLQRVAAILPMRGQISDDVVSVAVHRALSDIIRNSAVWKEWNQNSPPTLQDGQVSDAA*
JGI12543J11896_103363JGI12543J11896_1033631F073872IATAIADRLVENSEIFLLGGDSLRKSKNPNPPAE*
JGI12543J11896_103404JGI12543J11896_1034042F011271MRKNGERSGDRRYRIDLQSEAKEKQALKLAEIRETLVAAGYDTTAKQAAILGIGRSTAWVLLNRDKRAGPSAKVIKRILSSPQVPKAVRRKVEQYVKQKIRGLYGHSEQRTQWFSQQFQPS*
JGI12543J11896_103582JGI12543J11896_1035821F011271MRRNRTRSVGRRSRIDFQLEPKERQALKLAEIREALVAAGYNTTAKQAAVLGIGRSTAWWLLNHNKRAGPSAKVIKRILLSPQIPKRVRRKVEQYVEEKVRGVYGHSEQRTQWFSEQFQR
JGI12543J11896_104078JGI12543J11896_1040781F101797APGKCSTGLDIDTNLQNPNASGIGAWGTGEVDKSRNQKIFDQRRFAIRTTPVVQENNGNSRGCKSDTRVPRNANIRILVQSGVWSDVDIDEDGNADGRVRTADLTSNLATMPPWGPS*
JGI12543J11896_104182JGI12543J11896_1041822F063480PPPEPFTVQVIIVDWLYREVDGLAEIKMPVLQHIAGHRNREVYGYLELTHDVRDSRVAAIYRA*
JGI12543J11896_104290JGI12543J11896_1042902F057789MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEELQPHHQALVNVMFAKKQRGYRKTAYNLADRXNSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPGVGKAS
JGI12543J11896_104391JGI12543J11896_1043912F020122MLEETLILKRNPDAEYSESYNVLFEGRYVGRIYKAVSHAPREAPCFWGLEFHEWQGSDGPQYGNVATLEAAKQAFRAAWDRGPKAXGKS*
JGI12543J11896_104588JGI12543J11896_1045881F003090RNHCGSKCRLEKMTVIDYKGYRIEVGPVGKGWRASIFSPGSIRPWPNSPANLEKSSSEELVAEAKRIIDVRLGPRSL*
JGI12543J11896_105004JGI12543J11896_1050042F052920MRHEVHSHGTAAYIAPFSERTDVHWETTNLPVWNAVWNAEGAAEQQELVYEVSWIKELGMWRRFLTSRCKVGSGRQEVPC*
JGI12543J11896_105061JGI12543J11896_1050611F091102VQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12543J11896_106203JGI12543J11896_1062032F072609MTAAWTHPVEFVXVVASLMPRELEATTTVTERMSDEQLDAIIGRGLQSGLDPAATDEDAQIIE*
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