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 3300001643

3300001643: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF044



Overview

Basic Information
IMG/M Taxon OID3300001643 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0085736 | Gp0057369 | Ga0003883
Sample NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF044
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size5565701
Sequencing Scaffolds16
Novel Protein Genes18
Associated Families18

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Nitrobacter → unclassified Nitrobacter → Nitrobacter sp.1
Not Available6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameForest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

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

Location Information
LocationHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.550409Long. (o)-72.180244Alt. (m)N/ADepth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000083Metagenome / Metatranscriptome2471Y
F001274Metagenome / Metatranscriptome733Y
F009025Metagenome / Metatranscriptome324Y
F009098Metagenome / Metatranscriptome323Y
F014526Metagenome / Metatranscriptome262N
F020247Metagenome / Metatranscriptome225Y
F024627Metagenome / Metatranscriptome205Y
F030179Metagenome / Metatranscriptome186Y
F035562Metagenome / Metatranscriptome172Y
F036449Metagenome / Metatranscriptome170Y
F036837Metagenome / Metatranscriptome169Y
F037452Metagenome / Metatranscriptome168Y
F039383Metagenome / Metatranscriptome164Y
F042464Metagenome / Metatranscriptome158Y
F072195Metagenome / Metatranscriptome121Y
F074716Metagenome / Metatranscriptome119Y
F081859Metagenome / Metatranscriptome114Y
F087952Metagenome / Metatranscriptome110Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI20278J16324_100031All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Nitrobacter → unclassified Nitrobacter → Nitrobacter sp.2217Open in IMG/M
JGI20278J16324_100178Not Available1316Open in IMG/M
JGI20278J16324_100260All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1128Open in IMG/M
JGI20278J16324_100262All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales1121Open in IMG/M
JGI20278J16324_100288Not Available1070Open in IMG/M
JGI20278J16324_100514All Organisms → cellular organisms → Bacteria761Open in IMG/M
JGI20278J16324_100565All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium720Open in IMG/M
JGI20278J16324_100619All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium684Open in IMG/M
JGI20278J16324_100689All Organisms → cellular organisms → Bacteria648Open in IMG/M
JGI20278J16324_100949All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Azospirillaceae → Skermanella562Open in IMG/M
JGI20278J16324_100993All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium553Open in IMG/M
JGI20278J16324_101054Not Available542Open in IMG/M
JGI20278J16324_101099Not Available532Open in IMG/M
JGI20278J16324_101108All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium531Open in IMG/M
JGI20278J16324_101251Not Available504Open in IMG/M
JGI20278J16324_101274Not Available500Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI20278J16324_100031JGI20278J16324_1000311F036449QISMPLAELNDLTFRLIPGHPVAPVGLWSRSRDILMWRSPQFLSVDVIGEWPARNTKTAPVSTAILRHLREIMSLGARLTKLEARQRCLAEVPKAYPGAFEKAWAELEPSCKRGRGKHGPRGH*
JGI20278J16324_100178JGI20278J16324_1001783F009098LPNTTITTDATLFREEAERARRYAAAMADKKIIDRLNEIAALYDELAAGQDPGPTDRE*
JGI20278J16324_100260JGI20278J16324_1002602F087952VGLHQCPSERKGEGVPVRSLRVPSHVPSHPQTAAKVRGFSPIASGFTAETDWLLEQSGFELWVPPACDAPGSHKVRC*
JGI20278J16324_100262JGI20278J16324_1002621F037452MVLVSLMGSSFLSEVCDTSILRAGLSTHYWGPLSWLRASRLLHPRSGLERSDFVL
JGI20278J16324_100288JGI20278J16324_1002882F001274GSAAVTIYQITLRDRETQTVVGYYNGAWTTDRRRALAFRRREAAEAHAARMRDRCPRNAELINVEEIAAAN*
JGI20278J16324_100513JGI20278J16324_1005132F000083MSTLDEITQEKQRVSEALARIDAQRQKLAGQLGELEATERVLARYSTGTKRTVSAKSPPSPTKAVAPAQRQRGRRPATTAKXXDGRRTSATLSDQVLALATGRTQHEIASACKGARPNHVGAAISRHKRAGRIEERDGKLYASQATEAAQHAVV*
JGI20278J16324_100514JGI20278J16324_1005141F030179MITAGVSRVASGLLCVHAIAITPAGPMQLVRSSLSIVNGLPCVTVRSAPAIVVSGPAQRSLTLWPARSPSRLATLYIESSDSFVASAAVSIATGWSEPVPGRELHPLKSSAFHGALLR
JGI20278J16324_100565JGI20278J16324_1005652F035562APAVQEESDLSAKRSGAAMYAACFSRRGLPRRDAAAVAAGPDVIR*
JGI20278J16324_100619JGI20278J16324_1006191F020247TVLLTFISSVHNPKIMLGMLVEVLCRYAITTRRRLPRKGNVTLEDLMRRASDFDVRTVTIVTLTSLRHLLPVAVGIITIITTIRPVGLSCSHDTLAFDGEVGSSSQENVSEHVHQLDELRRFLCSACSFAPAR*
JGI20278J16324_100689JGI20278J16324_1006892F042464LRAKALLPKNSAGYSRAENIHSEAEHMEESGGGVANSR*
JGI20278J16324_100949JGI20278J16324_1009492F074716GRYDRVCHLYQGEAVVRSLRAMGNEDVNYFITTAGHSSLPMSPFDRGGE*
JGI20278J16324_100993JGI20278J16324_1009931F072195AALGRAGYQNQRYPGSPAATFAGATWLAGGRVGTVGPDQPAYVALQYGKQQGVYGFTGSSQVNVTPSMVFSANLVQGVSSQGQLFASNLSNSTLTLSGSVVNQSTGLPTTFSSPGLGLSNSVFRQHLFNAGLTDSLPPNYYSLFAFYTEQQQLSTTAAAPTKSLGLNLGYTRDIRPDVTGNASV
JGI20278J16324_101054JGI20278J16324_1010541F039383VSKTTVGALVDQGRTTNEAGLRTEAEVFRTTVSTTVYYRLPGNSPVANWVNQIGKYLLHENVDVDVQVAEYGYIDFATTRSAAATIDQNSRTVTVELPTPTVRTYIYSVGSLRLSEGPLNALGTAVKAVVAAILHKPIVSVNISEELQAAETNVARTANPSEIFGCGKNEIEQQLAGIFG
JGI20278J16324_101099JGI20278J16324_1010991F009025MDETKIEKLARLSERVAWKVVGALERRGYDIRGKMSTPINRVPRRAPPKPK
JGI20278J16324_101108JGI20278J16324_1011081F014526MTKGELRAAISRGYREMSELTKAKCGGDKCPGVGNRAYRCCDRMHCQMTIDHAYKDWGIRLPTTGHQLPLMGPTGCTALPHLRPWCTLHQCQIQETGSTKDRGWDAKYFRLRNKLIRLEQQLAAM*
JGI20278J16324_101167JGI20278J16324_1011671F081859MTEEHLRWRMQNHIGWVWVVGLCGSLAVANAQAPPAAPVGSSYDGTYRLVSSANVNATYTSRKGQTGQCPSRRAGPLHIVNGRARYTSATGYRVRGTVGPQGELAMRAEGPS
JGI20278J16324_101251JGI20278J16324_1012511F036837APAGDWSDHAFRLGRWAKTLRSSASAEGPKGDWTNEAFRLGRALRRGYKKWSS*
JGI20278J16324_101274JGI20278J16324_1012741F024627ALDADRKNGPAARSFAADAHDCIMVRIKRPYRIQVCGTKMHPNGELPSDPQQIDRHRQTLKLCRKKAPVAVHHRSACSGVKALRNTSDARRQAAKLCYRFGPLTPSARSANLIAGDGTKNGFPAPNKEPAKTKNDHLTGKAPYKFESISLQRGVRNELLIDAAPFA
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