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 3300000712

3300000712: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_O2



Overview

Basic Information
IMG/M Taxon OID3300000712 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0071004 | Gp0054495 | Ga0002416
Sample NameForest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_O2
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size10327562
Sequencing Scaffolds24
Novel Protein Genes25
Associated Families25

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
Not Available9
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria7
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium diazoefficiens1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_71

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameForest Soil Microbial Communities From Multiple Locations In Canada And Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)forest biome → solid layer → forest soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationEl Dorado National Forest, Georgetown, California, USA
CoordinatesLat. (o)38.88Long. (o)-120.64Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001103Metagenome / Metatranscriptome777Y
F002820Metagenome / Metatranscriptome528Y
F006963Metagenome / Metatranscriptome361Y
F008040Metagenome / Metatranscriptome340Y
F016556Metagenome / Metatranscriptome246Y
F018965Metagenome / Metatranscriptome232N
F020387Metagenome / Metatranscriptome224N
F020551Metagenome / Metatranscriptome223N
F022488Metagenome / Metatranscriptome214Y
F023457Metagenome / Metatranscriptome210Y
F023907Metagenome / Metatranscriptome208Y
F027324Metagenome / Metatranscriptome195N
F027566Metagenome / Metatranscriptome194Y
F027923Metagenome / Metatranscriptome193Y
F027924Metagenome / Metatranscriptome193Y
F029122Metagenome / Metatranscriptome189N
F038747Metagenome / Metatranscriptome165N
F040611Metagenome / Metatranscriptome161Y
F042465Metagenome / Metatranscriptome158Y
F044073Metagenome155Y
F053353Metagenome / Metatranscriptome141N
F063970Metagenome / Metatranscriptome129N
F076530Metagenome118N
F087253Metagenome / Metatranscriptome110N
F094125Metagenome / Metatranscriptome106N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI11925J11888_100062All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1781Open in IMG/M
JGI11925J11888_100147Not Available1391Open in IMG/M
JGI11925J11888_100159Not Available1363Open in IMG/M
JGI11925J11888_100314All Organisms → cellular organisms → Bacteria → Proteobacteria1093Open in IMG/M
JGI11925J11888_100361All Organisms → cellular organisms → Bacteria1042Open in IMG/M
JGI11925J11888_100380All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1024Open in IMG/M
JGI11925J11888_100479All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium920Open in IMG/M
JGI11925J11888_100480All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria919Open in IMG/M
JGI11925J11888_100598All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria842Open in IMG/M
JGI11925J11888_100631Not Available823Open in IMG/M
JGI11925J11888_100674All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria805Open in IMG/M
JGI11925J11888_100939All Organisms → cellular organisms → Bacteria700Open in IMG/M
JGI11925J11888_101287Not Available626Open in IMG/M
JGI11925J11888_101483All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium598Open in IMG/M
JGI11925J11888_101487All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria598Open in IMG/M
JGI11925J11888_101564Not Available588Open in IMG/M
JGI11925J11888_101608All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium diazoefficiens583Open in IMG/M
JGI11925J11888_101636Not Available580Open in IMG/M
JGI11925J11888_102023Not Available542Open in IMG/M
JGI11925J11888_102043Not Available541Open in IMG/M
JGI11925J11888_102115All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria536Open in IMG/M
JGI11925J11888_102117All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7536Open in IMG/M
JGI11925J11888_102532All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria508Open in IMG/M
JGI11925J11888_102552Not Available507Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI11925J11888_100062JGI11925J11888_1000622F029122MLIRPAIGDTDPIRYRRPTPDGQFSGNIIDEAMRPSIA
JGI11925J11888_100147JGI11925J11888_1001471F006963MYARHRREVQTVRCAMTFLLFTTLLCALGATQASAQNAVSQQLLELDDDERNAAFTLMLRDGHRKCDQVVRTLFRGTILGVDEWEAMCRNRISYSFTVLAKPNETMIMFVSCRELLATSRMLLHRAGSKTKATGCKIK*
JGI11925J11888_100159JGI11925J11888_1001592F023907VKKLKRNTKGQDGKLRQCYVYEIRIDGVVRYIGKGRNGRIYSHLIDAKRTASRSDVKIRNLSPHFRKMLVSAVRRGSNIAEKMVASNLTDGEAYTIERQMIGNYHKRYAGQLWNTIDERFMDPKYLPKKWSNPVNPLYRLSRPLNELLDRSIARPSCTPPIATAE*
JGI11925J11888_100314JGI11925J11888_1003141F076530IGGLLSLTPHRYDPDVRPYRTDDLEQCAQILDKASSGIDWALVWSAEHLKNQLQSPLSGTFVFERDGRVRGMVNYHLLLLQGREPVRTALIDLWADDGLTGAQRVRLLSHLCTDLRERDVHLVMALRCAMMPASAFAANLFLPTPAQFRMGALFTGGPVPLPLPKTWSIVMM*
JGI11925J11888_100361JGI11925J11888_1003612F053353MKRIQKATVKQPHRLQAPKRSPLSSLNLSKVRTSRQILRKVARSTELSRGDIATEAKLAVGYYVYTISVAGVVRYIGKGKGLRLYSHMKEVRSRLKRDFRVQSIGSILQRNLTKAFLSEAQVTEQVLIDDLTEKAAYKLEYDKLREYVFAGKGDQLWNVIPASIQTPQEIQAYTERLQRNLNSRDRWVRTLSAMTLEALRGGQHQHRTET*
JGI11925J11888_100380JGI11925J11888_1003802F087253MRSSITRLIIAVAVVGVIPVGSVVAQSPVEEALPNRYEAPHSETDFRLGDHQQLRDYFLSGSRDRLK*
JGI11925J11888_100479JGI11925J11888_1004791F016556VPQDAGYWQKMMPNPDRWGLAGPPSNRMRAAMSGALYLGDREPGDGPSGDARCEDIIGRKLG*
JGI11925J11888_100480JGI11925J11888_1004802F001103MAQVITRCRLTGHYMFMGMDADPKEFTRSGGPFARKFCPFCACDHLWHKEDSKFLASKVAPRLHIQQAG*
JGI11925J11888_100598JGI11925J11888_1005982F094125MSTGLETSKALERSKALRHRREAAACGVFATNAKSATDRALLLRMQRSLLTRAYHEDWLDGLPPAPPAGCNSLSLPARS*
JGI11925J11888_100631JGI11925J11888_1006312F063970MKMAAKQYAVTAALACALALMATPSTLAQTRTGVQGAGTLAQYCAPQYDPADLQRVYCRDHG*
JGI11925J11888_100631JGI11925J11888_1006313F022488MKTLIATVALATALVAPIFTQAATAAPNDVIVGGKSIGQDPDANVRLQMRRDAGSEGF*
JGI11925J11888_100674JGI11925J11888_1006741F040611VKRLTGLDSPLWASAVCLLALTLAGAVGITHFDDRNVGFVLLLQALPYAVAAWLIVSGKPDAATGGRALATILIVGLAMRLLLLPG
JGI11925J11888_100939JGI11925J11888_1009391F044073MRALRRTLSIAAMLVSLAGMAAAAEIRVLSVGAVQNAV
JGI11925J11888_101287JGI11925J11888_1012871F002820MNEKKPTYRVEIEYSGTPPNETFGWKIHRNSDVLPILRSQQLFVSRMAGLTDANRSRLQLVDADLQNRAAKGQ*
JGI11925J11888_101483JGI11925J11888_1014832F027923MKRTRHKRTPSVRRRALEFIAAHPGCTEALLAAENIPADVLVELVXSGLVIARIERLDDEDGAVEVTCAWITATGERVLAARG*
JGI11925J11888_101487JGI11925J11888_1014871F027924MRLLVVFLLSLVVSQSISIGVGLLVERHSTPYTGLVTFIALYFAMFWLAWRFAVRMTEPNAFFGTRLSSAEK*
JGI11925J11888_101564JGI11925J11888_1015641F020551EILFVAAAIIGLVSSRIFLFGTGGSTVNASVMRRSVGLVSMVLTYSLFAWGFVSLSWYWPLAAYLVAAIVAAIVVTFSPWRLLYSYRPVLDFAAIAAGCYLWIEHWPFA*
JGI11925J11888_101608JGI11925J11888_1016081F038747MHRSRIEIYWKKIETAPAGVAVQVRVTDGSDQDYLLPYPCKLMEGVWVNAVSGTPLAVRPTYWKLYIETLPRKKGWKRRPPAELCGLAIALWGCLF*
JGI11925J11888_101636JGI11925J11888_1016361F018965MASAADEFKEELQRLTHVTEIRNDERIQASDRALRLFGPIRNFLSRFNEALGAFGKIEVAGPYPVGKYQHATATITAPNGRVVSWEFVLSEGGVSYQRSPYQLSEYGRLESQLKSDVVAFLEKV*
JGI11925J11888_102023JGI11925J11888_1020232F020387PNVERYPEMEGISPLQIAIAMQADVFIDPAFWKALGKKRGWTTDDDFKYWQKSVAEWEDKYWKKFWHRFIDHLAEDKDAESFFKALDSPPRQRPDSHH*
JGI11925J11888_102043JGI11925J11888_1020432F023457MLRDTNAPAMPRSRIEIYWKIIESAPEGVTAQVRVTDGCGSDYLLPYPCKLTKDGWVNAASGKPLAVRATYWKLYVETTPRKKAGDRSTRLDVPQPEHD*
JGI11925J11888_102115JGI11925J11888_1021151F027324MPNQSAANVHPFTNTFPTPPWDAPDPLPVMRREMKLLLIELNVLRIEVEQLRAADQEAHKTKESLSASVNRIMESRDTWQREAERLSALMAQAQPWSLLWWRCLGAFKATERIWHCARAGQI*
JGI11925J11888_102117JGI11925J11888_1021172F042465MITSNPMRALALTAAVFGCAVAAAQADECETMTKTVQVMIDKVDPTAKAGNNPAGLCAAYGEGLGLIKSFRIVADECLDEGDPRTQTLANLDRSIRQLQSQVDKNCE*
JGI11925J11888_102532JGI11925J11888_1025322F008040MVKHGALSKSHVHQMLASKDARVRRAAYTLLEASNPALRRNSELFLEIIRFIWEANPSYDVYREFNKRHLIVPYKVHELISARLKVEKQEQQRAAADQRTDETCRDEGGFLQRLFRRRAPVFQSARS
JGI11925J11888_102552JGI11925J11888_1025522F027566MKTLAMKYLGALGLAAVLAMTAVTSSYAQRQDSSCIPQYDTSGAQMAPYC*
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