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 3300001645

3300001645: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF036



Overview

Basic Information
IMG/M Taxon OID3300001645 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0085736 | Gp0057361 | Ga0003875
Sample NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF036
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size7181706
Sequencing Scaffolds22
Novel Protein Genes24
Associated Families23

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria4
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales1
All Organisms → cellular organisms → Bacteria → Acidobacteria1
Not Available7
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidipila → unclassified Acidipila → Acidipila sp.1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 38091

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?
F000644Metagenome / Metatranscriptome965Y
F000931Metagenome / Metatranscriptome829Y
F000964Metagenome / Metatranscriptome820Y
F004415Metagenome / Metatranscriptome439Y
F005494Metagenome / Metatranscriptome399Y
F011320Metagenome / Metatranscriptome292Y
F012158Metagenome / Metatranscriptome283Y
F013921Metagenome / Metatranscriptome267Y
F014081Metagenome / Metatranscriptome266Y
F015805Metagenome / Metatranscriptome252Y
F017392Metagenome / Metatranscriptome241Y
F018564Metagenome / Metatranscriptome234Y
F023941Metagenome / Metatranscriptome208Y
F033619Metagenome / Metatranscriptome177Y
F036891Metagenome / Metatranscriptome169N
F037452Metagenome / Metatranscriptome168Y
F039383Metagenome / Metatranscriptome164Y
F041178Metagenome / Metatranscriptome160N
F058546Metagenome / Metatranscriptome135N
F067238Metagenome / Metatranscriptome126Y
F070522Metagenome / Metatranscriptome123N
F076395Metagenome / Metatranscriptome118Y
F087952Metagenome / Metatranscriptome110Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI20270J16353_100011All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium3036Open in IMG/M
JGI20270J16353_100028All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa2262Open in IMG/M
JGI20270J16353_100291All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1202Open in IMG/M
JGI20270J16353_100458All Organisms → cellular organisms → Bacteria → Proteobacteria946Open in IMG/M
JGI20270J16353_100572All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales844Open in IMG/M
JGI20270J16353_100632All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium803Open in IMG/M
JGI20270J16353_100734All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria739Open in IMG/M
JGI20270J16353_100796All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria713Open in IMG/M
JGI20270J16353_100797All Organisms → cellular organisms → Bacteria → Acidobacteria712Open in IMG/M
JGI20270J16353_100915Not Available666Open in IMG/M
JGI20270J16353_100922Not Available662Open in IMG/M
JGI20270J16353_100929Not Available659Open in IMG/M
JGI20270J16353_100975All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium643Open in IMG/M
JGI20270J16353_101065All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium616Open in IMG/M
JGI20270J16353_101081All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidipila → unclassified Acidipila → Acidipila sp.611Open in IMG/M
JGI20270J16353_101258All Organisms → cellular organisms → Bacteria → Proteobacteria568Open in IMG/M
JGI20270J16353_101343Not Available553Open in IMG/M
JGI20270J16353_101404Not Available545Open in IMG/M
JGI20270J16353_101540Not Available525Open in IMG/M
JGI20270J16353_101609All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria516Open in IMG/M
JGI20270J16353_101698All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3809504Open in IMG/M
JGI20270J16353_101717Not Available503Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI20270J16353_100011JGI20270J16353_1000111F087952MPQGRGSTAACASXANGRNLREVGLHQCPSERXGEGVPVXSLRVPSHVPSHPQTAAKVRGFSPIASGFTAETDWLLE
JGI20270J16353_100028JGI20270J16353_1000281F011320MKEDPEVSVLTARRAAQHVRLSSADDAYEHLCILTLLPSLAPLHLMLADTPWPHGFGATLASVGPLSEGFE
JGI20270J16353_100291JGI20270J16353_1002913F037452MGSSFLSEVDDTSILRTGALHRYHYPLTWLPASRLLLPRSGLERSDFVLWH
JGI20270J16353_100344JGI20270J16353_1003441F018564REATAAGQEERVKIVEAEIDGLLAEKAEIEKWAAVGSA*
JGI20270J16353_100458JGI20270J16353_1004582F067238VQVSSHRELLSSRAMVVSVAERRDMIPAGKVERGERKRTVDEVSKAD*
JGI20270J16353_100572JGI20270J16353_1005723F023941LERAGFEPVWGFSCQVVIFGLLPVLCSELEKPFFVPSPAIRFAERAEGVKGPKR*
JGI20270J16353_100632JGI20270J16353_1006321F058546YLSGGTGMFKEGDIRAYDAERDAKRARQPRRAKAAGRRAASRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20270J16353_100734JGI20270J16353_1007343F012158MAVQGERIPGGFILITGLDGIRYAVRPQSIGIIHDADECRDETLVQLHGGHVVRVPCPLDEVLNWFT*
JGI20270J16353_100796JGI20270J16353_1007961F041178GVASRGIETSPVASVSKVQAHLRDAARFRARSTSHAVAAHSSCTKIPLSAGRAQEDENHSRKRHFRPWLATVRLPGSARTDQVLGDDGITLVYSLGNLHRNAFDNDTGGHVFPERDQ*
JGI20270J16353_100797JGI20270J16353_1007972F013921MRAILISVAILFMSVPMLAQQRRQPAPVPRTFVPKEPLPCTAFNRMAARLDDVYRIEDVSKSEYDEGMKKYTNGTQVEGVDYFLPEKNKYQRIILQLDKRADFIRWYAVEGGRSQLATANTQCNIELSEREPEYAHIDAIRQLQDTLTVSQA
JGI20270J16353_100915JGI20270J16353_1009151F037452LVSLMGSSILSEVDDTSILRTGLSTCYWRPLGRLPASRLRPPRSGLERSDFVL
JGI20270J16353_100922JGI20270J16353_1009222F014081MRQYDGLTPEERARITEIQDFLIDRYVEQKEALERGDALRAKEIAREIKELQHEKEEIKEWAAM*
JGI20270J16353_100929JGI20270J16353_1009291F039383VNQIGKYLLHENVDVDVQVAEYGYIDFATTRSAAATIDQNSRTVTVELPTPTVRTYIYSVGSVRLSEGPLNALGTAVKAVVAAILHKPIVSVNISEELQAAETNVARTANPSEIFGCGKNEIEQQLAGIFGSLPQYRGWLVVVQFPGTRSVPDSRCQALQNQLVHSS*
JGI20270J16353_100975JGI20270J16353_1009751F005494RAEYPGGGSGMFREADIRAYDPERDANIAEQPRRAKATTPQNSSRSRYAIDPETITAGRLPQRAPVVTSAANPHYQKHFDRLFDLAKAGDWDGVRNYEVKGSNSYSKMVARYRQDLLAVHAASEAAP*
JGI20270J16353_101065JGI20270J16353_1010651F033619LGRRFSEETMLNIHHDESRPSRVTVAFEDGALSFMLSKDATFEDLADQLGRLGARHHGKPVTIEVKLAALSALRDAD*
JGI20270J16353_101081JGI20270J16353_1010811F017392MPKMNTIERRAVGSCQLDKDNQGRIERNLFNANGKTWEALRFCKNKNGAHNRVHLVLDEDKFVELFADAVKNGVFHQRTIDRLKIILERRDPFLDVIGIGSDGTLSQHIDEELYGEDGP*
JGI20270J16353_101258JGI20270J16353_1012582F004415MDDTIEARFVAETELLGLELLPGQKETLLAAYTALREMVELVGADYPFEIEPAHVFMPVPSGGDRR*
JGI20270J16353_101343JGI20270J16353_1013431F076395MTVIRSPLYRWRAGEVEITRVLEFEAALFEPTVLYP
JGI20270J16353_101404JGI20270J16353_1014041F015805MREEQTLAEIEDFIGGFNQPTYRGMRVNGARVATGSSQHGWSGDSRPDAEWIQ*
JGI20270J16353_101484JGI20270J16353_1014841F000931MSTLDEITNEKQRVGEALARLDAQREKLTGQLGELEAAERVLARYSKGTGPRKAASAHTPSTSTKAPAAAPSRERRRTRVAKPAGGKRSSLTL
JGI20270J16353_101540JGI20270J16353_1015401F036891LLERARXYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGQVVRNEAGRWSIGLSAVPHTNGRAVRATNGKLVVALDA*
JGI20270J16353_101609JGI20270J16353_1016092F000964MLEAQIAQGVQLLDLMLEYFSDDGHWARGRYDDGNGGHCLVGAVLHLSRKHRLPRAPAIALLQDAMPR
JGI20270J16353_101698JGI20270J16353_1016981F070522MAAADPDNAHGHNRASSLQVLRRVCLTVSFFAVWVMARRQPDPMQHFGAMLTAASIACAVLAAISRTRVMDQRLNRWDEALAYLALALSVDLWAQL*
JGI20270J16353_101717JGI20270J16353_1017171F000644DDLMRQIQETERLIAVYRNANEVIVGTQDEIYARRGLINRTTLTKAETGDQIVRILERRLVGMRAELQKLGVEYRGGNLLIIPAD*
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