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 3300000862

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



Overview

Basic Information
IMG/M Taxon OID3300000862 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0075432 | Gp0054446 | Ga0001987
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 64
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size14926982
Sequencing Scaffolds16
Novel Protein Genes16
Associated Families15

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j12
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium2
All Organisms → cellular organisms → Bacteria3
Not Available5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1

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 biometropical forestforest 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?
F001823Metagenome / Metatranscriptome630Y
F005929Metagenome / Metatranscriptome386Y
F008634Metagenome / Metatranscriptome330Y
F010721Metagenome / Metatranscriptome300Y
F012657Metagenome278Y
F027165Metagenome195Y
F044096Metagenome / Metatranscriptome155Y
F057789Metagenome135N
F059482Metagenome / Metatranscriptome134Y
F075781Metagenome / Metatranscriptome118Y
F076466Metagenome118Y
F076736Metagenome117Y
F091102Metagenome107N
F091204Metagenome107N
F104209Metagenome100N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI12579J12822_100164All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2661Open in IMG/M
JGI12579J12822_100505All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j11834Open in IMG/M
JGI12579J12822_100794All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1577Open in IMG/M
JGI12579J12822_101182All Organisms → cellular organisms → Bacteria1348Open in IMG/M
JGI12579J12822_101552Not Available1190Open in IMG/M
JGI12579J12822_103311All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1787Open in IMG/M
JGI12579J12822_103411All Organisms → cellular organisms → Bacteria775Open in IMG/M
JGI12579J12822_103739All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis737Open in IMG/M
JGI12579J12822_103826All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae728Open in IMG/M
JGI12579J12822_104837All Organisms → cellular organisms → Bacteria637Open in IMG/M
JGI12579J12822_105085Not Available619Open in IMG/M
JGI12579J12822_105454All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae596Open in IMG/M
JGI12579J12822_105975Not Available566Open in IMG/M
JGI12579J12822_106361Not Available544Open in IMG/M
JGI12579J12822_106456All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium540Open in IMG/M
JGI12579J12822_107312Not Available502Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI12579J12822_100164JGI12579J12822_1001641F012657KSGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12579J12822_100505JGI12579J12822_1005056F057789MSETALQFTGTDLRGLLDVLLEALKVIRRXGRRPTITVNGKLYASHDLRKVAALLPDEXLQXHHQALVNVMFAKKQRGYRKTAYNLADRANSWRTEEQKLAARQAAKTSALAVAEPAPFRNRGFSERTIRALMDCSIDEPERLLFMQPANLKKIPGVGKAS
JGI12579J12822_100794JGI12579J12822_1007942F091102MKQWKLLPLICGAWVVAWYPSWAIEERFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCTRGLYGTMHDENDPTSALLIVVPEGSYLFDYYVAVCRAVTHEEPYLPQKH*
JGI12579J12822_101182JGI12579J12822_1011822F104209RQERRNGHGGAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12579J12822_101552JGI12579J12822_1015522F001823MRVIDRDLIRGGHYGQRSCEPHLKAEHMAAPTNSANVKISLANSEP
JGI12579J12822_103311JGI12579J12822_1033111F057789MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHRGFSERTIRALMDCSIDAPERLLFMKPADLKKIPGLGKASVDEIMRYRAKFIRRRAD*
JGI12579J12822_103411JGI12579J12822_1034111F010721GRLSAGFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA*
JGI12579J12822_103739JGI12579J12822_1037391F027165MGYNARNDEIHENVERMRREREAYEDSLAIVRQFNARLSAKKTAWFWPTVAAALASKHHWLVIACDACGTVIDLDLTMKRRDPDAPIRVALNDVRCPRCNGHGRMRIAGLSRYPSV*
JGI12579J12822_103826JGI12579J12822_1038261F059482MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLPEAAG
JGI12579J12822_104837JGI12579J12822_1048371F076736MVQGVDNIGICTTDVERSVAFYQRLGFSEAYRNDRGVLVAAGAAHLFIFA
JGI12579J12822_105085JGI12579J12822_1050851F008634MYGKGRELEIGNATSAIVISLLQALVDKHVLSNTEARAVLTKAADKLGPHDYTAPVKGAIGIILDDILQQFPENGG
JGI12579J12822_105454JGI12579J12822_1054542F076466MLTEATQLEMADLKDRCRNFRGESTGHEQWPADILAEKFQPAEDVDVAPDGGEVETIARANIAVCGIAIVQSDIDANMLLDL
JGI12579J12822_105975JGI12579J12822_1059751F091204MGWLRRISRSRHHGNMSARVIEFPGARESGGKPAHNVRSAQVSDEVVAPLTDFEIAAIESLGAIFQAGGTEAFNFAAKRQLFILASLIKRILGEDGLNELLTAAGWV*
JGI12579J12822_106361JGI12579J12822_1063612F005929MSLLSFWGLVFSLIAVTLFVVIYSYQKSKYANRNIVGDLRQRSVDVYLAAKTPEAESDSKKFREASNEIERLRAETRVLFWLIIAMNTAVIIIFILAYRYF*
JGI12579J12822_106456JGI12579J12822_1064562F044096MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEP
JGI12579J12822_107312JGI12579J12822_1073121F075781EERFWLRVDGQMKRSFSSKEPAMTAGREIKKAFPVVVVTLEDTKDGSIETVK*

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