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 3300026858

3300026858: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 69 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026858 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0075432 | Gp0054322 | Ga0207729
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 69 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size17478707
Sequencing Scaffolds35
Novel Protein Genes39
Associated Families37

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales2
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. 1391
Not Available16
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → unclassified Spartobacteria → Spartobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium liaoningense1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria1

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?
F000466Metagenome / Metatranscriptome1105Y
F000628Metagenome / Metatranscriptome973Y
F001962Metagenome / Metatranscriptome611Y
F002851Metagenome / Metatranscriptome526Y
F002925Metagenome / Metatranscriptome520Y
F003090Metagenome / Metatranscriptome508Y
F004961Metagenome / Metatranscriptome417Y
F007624Metagenome / Metatranscriptome348N
F010636Metagenome / Metatranscriptome301Y
F011271Metagenome292Y
F012657Metagenome278Y
F014442Metagenome / Metatranscriptome263Y
F014678Metagenome / Metatranscriptome261Y
F015159Metagenome / Metatranscriptome257Y
F018039Metagenome / Metatranscriptome237Y
F020122Metagenome225Y
F027165Metagenome195Y
F044096Metagenome / Metatranscriptome155Y
F045257Metagenome / Metatranscriptome153Y
F045461Metagenome152N
F048477Metagenome / Metatranscriptome148Y
F054241Metagenome140Y
F055065Metagenome139Y
F056355Metagenome / Metatranscriptome137Y
F057789Metagenome135N
F059050Metagenome / Metatranscriptome134Y
F062053Metagenome / Metatranscriptome131Y
F062933Metagenome / Metatranscriptome130Y
F063348Metagenome129N
F064014Metagenome / Metatranscriptome129Y
F066902Metagenome / Metatranscriptome126Y
F069413Metagenome / Metatranscriptome124Y
F069475Metagenome / Metatranscriptome124Y
F069634Metagenome123Y
F075781Metagenome / Metatranscriptome118Y
F086002Metagenome / Metatranscriptome111Y
F096166Metagenome105N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207729_100120All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales3261Open in IMG/M
Ga0207729_100287All Organisms → cellular organisms → Bacteria → Proteobacteria2551Open in IMG/M
Ga0207729_100327All Organisms → cellular organisms → Bacteria → Proteobacteria2454Open in IMG/M
Ga0207729_100498All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales2111Open in IMG/M
Ga0207729_100945All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. 1391653Open in IMG/M
Ga0207729_100956Not Available1642Open in IMG/M
Ga0207729_100988Not Available1625Open in IMG/M
Ga0207729_101052All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1590Open in IMG/M
Ga0207729_102276Not Available1124Open in IMG/M
Ga0207729_102624Not Available1047Open in IMG/M
Ga0207729_103119All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium942Open in IMG/M
Ga0207729_103648All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli852Open in IMG/M
Ga0207729_103767All Organisms → cellular organisms → Bacteria835Open in IMG/M
Ga0207729_103783All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium832Open in IMG/M
Ga0207729_104064Not Available796Open in IMG/M
Ga0207729_104602All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria742Open in IMG/M
Ga0207729_104852All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → unclassified Spartobacteria → Spartobacteria bacterium719Open in IMG/M
Ga0207729_105075Not Available700Open in IMG/M
Ga0207729_105593All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium liaoningense656Open in IMG/M
Ga0207729_105672Not Available650Open in IMG/M
Ga0207729_105743All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium645Open in IMG/M
Ga0207729_106179Not Available614Open in IMG/M
Ga0207729_106526All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium591Open in IMG/M
Ga0207729_106689All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium581Open in IMG/M
Ga0207729_106736Not Available578Open in IMG/M
Ga0207729_107275All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → unclassified Bryobacteraceae → Bryobacteraceae bacterium550Open in IMG/M
Ga0207729_107413All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium544Open in IMG/M
Ga0207729_107619All Organisms → cellular organisms → Bacteria → Acidobacteria535Open in IMG/M
Ga0207729_107904Not Available522Open in IMG/M
Ga0207729_108013Not Available517Open in IMG/M
Ga0207729_108041Not Available517Open in IMG/M
Ga0207729_108045Not Available516Open in IMG/M
Ga0207729_108052Not Available516Open in IMG/M
Ga0207729_108124Not Available513Open in IMG/M
Ga0207729_108417Not Available501Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207729_100120Ga0207729_1001204F057789MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEDLQRHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAPRQAAKMSALAVAEPAPFRNRGFSERTIKALLDCSIDQPERLLFMQSADLKKIPGVGKASFDEIMRYRAKFIRSSVMKKNP
Ga0207729_100287Ga0207729_1002873F002851MRSFIEAGAVIAACGSAIFWFTSAMCRLPSINRGTNELDKVTELSKALQRMNRWNFWAAGLMGVTALLSALGRFLGLIF
Ga0207729_100327Ga0207729_1003274F012657MAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRQSVMAAFQDLKVRIHPPMGNKFDIARDWSRNWFAGIGHDEMNPARLEHFSWFWSDEYSAVQKALEATIVRSRRSILSGGNAEPGRYGRKI
Ga0207729_100352Ga0207729_1003521F059050IAGWERRRCRNYGDFAAGSGVDVVERGGKVGNFATRHVRELNCERITDRLCNAILRF
Ga0207729_100498Ga0207729_1004982F069634MKIGIHAPDKPPVVVSLLLAILALIAYFVNTPAAFWIAMFAYIVGAVGVITEI
Ga0207729_100945Ga0207729_1009452F069413MQSSLPAGWLAFTGRESNPLDHYKRFQITLSSPSSGFILAQRTAGFPQYGWKAG
Ga0207729_100956Ga0207729_1009561F054241TENEPITAERIRKKKFVALLGQCLDCGQPVIEGQAFFRSDHGIRHALCEFDPAYAKRAREPKVKTE
Ga0207729_100988Ga0207729_1009881F063348MTGFDQTVRLPDRQGVPSERWCAQERKTIVNVKKAEIEDLAFRFRDEVKAEILQHRGSNAVGVVGSFVVNIEAHRARYAKKLDAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAADHQIPLEIHKIGLSDNQLEVIMRTAEPLAEEKCQEFLQRLAAILPMRGQISDDDVSVAVHRALSDIIRNSAVWKEWNQNSPPTLQDGQVSDAA
Ga0207729_101052Ga0207729_1010522F000466MAHLLTYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYHKYLLENSLIKSVFDEPASLPPPKRIQKIQESTAA
Ga0207729_101988Ga0207729_1019882F014442MVLNHRRSNFMKSPSAFDEDDLFTYEVSDEALETAGGHELAGNYTLGSCTGLSVCPG
Ga0207729_102276Ga0207729_1022761F014442MMNFQSTLNEEDDLLTLDISDEALETVGGNEVVGNFTLGACTGLSVCPA
Ga0207729_102624Ga0207729_1026241F062933MHLVSKIGIAIFAAAAVAAVIVDTMRPIAARRLFALVAALIAGVTAFYLVPEPLPELTRAEFMTEVRAGHVRRVEIEDQQVIIGESSTRGEFRTEFDRYKDVDLPAELRALGIEV
Ga0207729_103119Ga0207729_1031192F044096MRSAIPIFLAILVLATTPARAQGTWLETRMTRAICSSEATPVANTDRLARRLNLTEPQKAALKDLTD
Ga0207729_103648Ga0207729_1036482F055065VNPAKAGINSERAIAEKLTVAWLPCQESSALQWPAQSNYRLKAEDFGSTVLKLQNP
Ga0207729_103767Ga0207729_1037671F062053QQKRKANLQWRTKNPDYFGGAYLQQKAKYGTRAEYMRHYRQQHPDYVRRNAASVRKWRQQPRLEPVSHTSRDLHVTIESERTSLRIAHVSHTSRDIFVTLETA
Ga0207729_103783Ga0207729_1037831F045257MKRYPCFIAALSMCFFASMGAACAEVKADTGGIAIGGSVTGSTLNIGIPQQKVDELVRDAKRPLEELTAQQRDNILLLK
Ga0207729_104064Ga0207729_1040641F069475VSQRVVSIALNSATIARLASAARPLVAVLDEQQKRAAGQLAQEMGLGEVVMAALN
Ga0207729_104481Ga0207729_1044811F057789MSATSAYAGTTIAIPTAVREEMSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITINGKLYANHDLRKVAALLPDEDLQPHHQAAADVMFAKKQFGYRRTAYNIAERINSWRTEEQKQVALKAGRTSALPVLEPFPFRHRGFSERTIRALMDC
Ga0207729_104602Ga0207729_1046021F002925MKTCPDCNGEGVIEKGTDDEQQCPTCGGSGFVPDDDDDEEVTRTASW
Ga0207729_104852Ga0207729_1048522F001962MILKSETYHFLGLDLTRHAGFIVTIHDEDGLRLASTPPMPTPAQAFEEARKIVDNKVEGPRKLKVPPSIMPP
Ga0207729_105075Ga0207729_1050751F010636MKVLSGLLLTPTFAAALLLACTQTNAAHRGGGSAYDGTWSVAIYTLRGD
Ga0207729_105593Ga0207729_1055932F014678MIGSFRVERQGASSKIGFDHVGDDGARFGKIERCDSRIHLVETLAATQKLGIDRANLV
Ga0207729_105672Ga0207729_1056722F020122IKLKTMLILKRNPDAEYSESYNILFEGRHVGRIYKAVSHAPREAPWFWGLNFFEWQGSDGPQYGNAATLEAAKQAFRAAWDRRPKASGNL
Ga0207729_105743Ga0207729_1057431F007624FHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF
Ga0207729_106179Ga0207729_1061792F064014MNRSSVESHLRVEVKHRCAAPKRYTWEIFSEGKTLPLKESTDQFRSWEEASWAGKKALKKLLANTP
Ga0207729_106526Ga0207729_1065262F003090EKMTVIDYKGYRIEVGPVGKGWRASIFSPGSIRPWPNSPANLEKSSSEELVAEAKRIIDVRLGPRSL
Ga0207729_106689Ga0207729_1066891F000628RYQGDLSASINDALLAVNLNTVKLVTLQGKKKQTARETQVVLLRRLIQRLHHVAEARGCSINQLVNSGLAAYYSKEQAGKRGPSSRPTRPVASATYDKMSPDERQQLVEELAGLAGLQEGPKDAFPDGTRYEYDSRLKTTFEITPSGKRFPVALVAGRFRRDLANAIARKTAR
Ga0207729_106736Ga0207729_1067361F048477MEELNAFRKVARKHGFVDGEETEDGTVLWMWRPNADAEDRICIDNVTNSATVFWETIPWKIHSKTFRVAFALEEWFVSTSRQAAIPGNPKLVG
Ga0207729_107275Ga0207729_1072751F066902SAAELELIEQLRKYPELFERVRKILEISASAEGPIRKADEIEALLIEEMRRLGHATMETWAGRAEQTLADELKQKDASASVRKKKR
Ga0207729_107413Ga0207729_1074131F096166MPVFSQTSDGFSIFRSAPVRAGTYAGVCLSSIFVLWVYVANRVPELEIFARERNMAAVALLVFFASVPVMRFYRSPLNLVASGMLGWSLLTITYLLLCVKFVELGQNYSSFHIFMLGTVAYFIF
Ga0207729_107619Ga0207729_1076191F056355DWEFCPDCQWTSELNLEQVPIEGLQKLAGWNYPLKGLVTGQFHGRGTRQEPSLTGLLDVADGEAYTVPFNRLRGQLNVTPDEVRFSNAELRFFAPGSEKAHGAGIVTGTAGYRYADQSLGLDLVGASLPLANFRRVRAANLPLGGQISFRLKSSGPATKPEAEGSFRVVDLVVSNEV
Ga0207729_107803Ga0207729_1078032F075781PDQPAAETPRGQARPTEERFWLRVDGQMKRSFSSKEPAMTAGREIKKAFPVVVVTLEDTKDGSIETVK
Ga0207729_107904Ga0207729_1079041F015159MTEEESALVPADTRYRALLDVSRAMVEQPTVKAVLHSLREVLSSSCRLHGAHLYVLGSDQESLHLLEFDREADAPAIKIGTKISRIGEPARVLEDLEPVFLPDVSQEMLKHPELAPFATQSV
Ga0207729_108013Ga0207729_1080131F045461MLCGAVFIIMLVAAVIVDLAALLQFSGLISGLPANILKTSTLEIGGILTALTIFPLLAMGMSISIDQNRSEDK
Ga0207729_108041Ga0207729_1080411F027165MGYNARNDEIHENLERMRREREDYEDSLAIVRQFNARLSAKKTAWFWPTVGAALASKHHWLVIACDACDTVIDLDLTVKRRDPDAPIRVALNDVRCPRCD
Ga0207729_108045Ga0207729_1080451F018039MARTLREVIAAVPAERRAKTAAAHRQKLIAEEQKLIEEKKKRQLVEAKRVLELDRNLIVIAVLIIALPLIAALAVMLAALAVGDQ
Ga0207729_108052Ga0207729_1080521F011271IDLQSEAKEKQALKLAEIRETLVAAGYDTTAKQAAILGIGRSTAWVLLNRDKRAGPSAKVIKRILSSPQVPARARRKVEQYVEQKARGLYGHCESATRTFGNQFQHL
Ga0207729_108124Ga0207729_1081241F004961MSDLAKKFLAKWEFEHIEVVARSHREDQARHLALRCREDAAKAGISGQDLEAAVEGNLIGNMLQALDAAEFRQMYRDQVAEQEED
Ga0207729_108417Ga0207729_1084171F086002MRELMGKIPTKDPNITDVVYLSEIVRCLECQKTVPMGIEVVTVKKGG
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