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 OID: 3300001645
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0085736 | Gp0057361 | Ga0003875
• Sample Name: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF036
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7181706
• Sequencing Scaffolds: 22
• Novel Protein Genes: 24
• Associated Families: 23

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	4
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
Not Available	7
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 3809	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
• Type: Environmental
• Taxonomy: Environmental → 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

• Location: Harvard Forest LTER, Petersham, MA, USA
• Coordinates
  • Lat. (^o): 42.550409
  • Long. (^o): -72.180244
  • Alt. (m): N/A
  • Depth (m): 0 to .1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000644	Metagenome / Metatranscriptome	965	Y
F000931	Metagenome / Metatranscriptome	829	Y
F000964	Metagenome / Metatranscriptome	820	Y
F004415	Metagenome / Metatranscriptome	439	Y
F005494	Metagenome / Metatranscriptome	399	Y
F011320	Metagenome / Metatranscriptome	292	Y
F012158	Metagenome / Metatranscriptome	283	Y
F013921	Metagenome / Metatranscriptome	267	Y
F014081	Metagenome / Metatranscriptome	266	Y
F015805	Metagenome / Metatranscriptome	252	Y
F017392	Metagenome / Metatranscriptome	241	Y
F018564	Metagenome / Metatranscriptome	234	Y
F023941	Metagenome / Metatranscriptome	208	Y
F033619	Metagenome / Metatranscriptome	177	Y
F036891	Metagenome / Metatranscriptome	169	N
F037452	Metagenome / Metatranscriptome	168	Y
F039383	Metagenome / Metatranscriptome	164	Y
F041178	Metagenome / Metatranscriptome	160	N
F058546	Metagenome / Metatranscriptome	135	N
F067238	Metagenome / Metatranscriptome	126	Y
F070522	Metagenome / Metatranscriptome	123	N
F076395	Metagenome / Metatranscriptome	118	Y
F087952	Metagenome / Metatranscriptome	110	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI20270J16353_100011	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	3036
JGI20270J16353_100028	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	2262
JGI20270J16353_100291	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1202
JGI20270J16353_100458	All Organisms → cellular organisms → Bacteria → Proteobacteria	946
JGI20270J16353_100572	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	844
JGI20270J16353_100632	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	803
JGI20270J16353_100734	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	739
JGI20270J16353_100796	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	713
JGI20270J16353_100797	All Organisms → cellular organisms → Bacteria → Acidobacteria	712
JGI20270J16353_100915	Not Available	666
JGI20270J16353_100922	Not Available	662
JGI20270J16353_100929	Not Available	659
JGI20270J16353_100975	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	643
JGI20270J16353_101065	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	616
JGI20270J16353_101081	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Acidipila → unclassified Acidipila → Acidipila sp.	611
JGI20270J16353_101258	All Organisms → cellular organisms → Bacteria → Proteobacteria	568
JGI20270J16353_101343	Not Available	553
JGI20270J16353_101404	Not Available	545
JGI20270J16353_101540	Not Available	525
JGI20270J16353_101609	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	516
JGI20270J16353_101698	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. STM 3809	504
JGI20270J16353_101717	Not Available	503

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI20270J16353_100011	JGI20270J16353_1000111	F087952	MPQGRGSTAACASXANGRNLREVGLHQCPSERXGEGVPVXSLRVPSHVPSHPQTAAKVRGFSPIASGFTAETDWLLE
JGI20270J16353_100028	JGI20270J16353_1000281	F011320	MKEDPEVSVLTARRAAQHVRLSSADDAYEHLCILTLLPSLAPLHLMLADTPWPHGFGATLASVGPLSEGFE
JGI20270J16353_100291	JGI20270J16353_1002913	F037452	MGSSFLSEVDDTSILRTGALHRYHYPLTWLPASRLLLPRSGLERSDFVLWH
JGI20270J16353_100344	JGI20270J16353_1003441	F018564	REATAAGQEERVKIVEAEIDGLLAEKAEIEKWAAVGSA*
JGI20270J16353_100458	JGI20270J16353_1004582	F067238	VQVSSHRELLSSRAMVVSVAERRDMIPAGKVERGERKRTVDEVSKAD*
JGI20270J16353_100572	JGI20270J16353_1005723	F023941	LERAGFEPVWGFSCQVVIFGLLPVLCSELEKPFFVPSPAIRFAERAEGVKGPKR*
JGI20270J16353_100632	JGI20270J16353_1006321	F058546	YLSGGTGMFKEGDIRAYDAERDAKRARQPRRAKAAGRRAASRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20270J16353_100734	JGI20270J16353_1007343	F012158	MAVQGERIPGGFILITGLDGIRYAVRPQSIGIIHDADECRDETLVQLHGGHVVRVPCPLDEVLNWFT*
JGI20270J16353_100796	JGI20270J16353_1007961	F041178	GVASRGIETSPVASVSKVQAHLRDAARFRARSTSHAVAAHSSCTKIPLSAGRAQEDENHSRKRHFRPWLATVRLPGSARTDQVLGDDGITLVYSLGNLHRNAFDNDTGGHVFPERDQ*
JGI20270J16353_100797	JGI20270J16353_1007972	F013921	MRAILISVAILFMSVPMLAQQRRQPAPVPRTFVPKEPLPCTAFNRMAARLDDVYRIEDVSKSEYDEGMKKYTNGTQVEGVDYFLPEKNKYQRIILQLDKRADFIRWYAVEGGRSQLATANTQCNIELSEREPEYAHIDAIRQLQDTLTVSQA
JGI20270J16353_100915	JGI20270J16353_1009151	F037452	LVSLMGSSILSEVDDTSILRTGLSTCYWRPLGRLPASRLRPPRSGLERSDFVL
JGI20270J16353_100922	JGI20270J16353_1009222	F014081	MRQYDGLTPEERARITEIQDFLIDRYVEQKEALERGDALRAKEIAREIKELQHEKEEIKEWAAM*
JGI20270J16353_100929	JGI20270J16353_1009291	F039383	VNQIGKYLLHENVDVDVQVAEYGYIDFATTRSAAATIDQNSRTVTVELPTPTVRTYIYSVGSVRLSEGPLNALGTAVKAVVAAILHKPIVSVNISEELQAAETNVARTANPSEIFGCGKNEIEQQLAGIFGSLPQYRGWLVVVQFPGTRSVPDSRCQALQNQLVHSS*
JGI20270J16353_100975	JGI20270J16353_1009751	F005494	RAEYPGGGSGMFREADIRAYDPERDANIAEQPRRAKATTPQNSSRSRYAIDPETITAGRLPQRAPVVTSAANPHYQKHFDRLFDLAKAGDWDGVRNYEVKGSNSYSKMVARYRQDLLAVHAASEAAP*
JGI20270J16353_101065	JGI20270J16353_1010651	F033619	LGRRFSEETMLNIHHDESRPSRVTVAFEDGALSFMLSKDATFEDLADQLGRLGARHHGKPVTIEVKLAALSALRDAD*
JGI20270J16353_101081	JGI20270J16353_1010811	F017392	MPKMNTIERRAVGSCQLDKDNQGRIERNLFNANGKTWEALRFCKNKNGAHNRVHLVLDEDKFVELFADAVKNGVFHQRTIDRLKIILERRDPFLDVIGIGSDGTLSQHIDEELYGEDGP*
JGI20270J16353_101258	JGI20270J16353_1012582	F004415	MDDTIEARFVAETELLGLELLPGQKETLLAAYTALREMVELVGADYPFEIEPAHVFMPVPSGGDRR*
JGI20270J16353_101343	JGI20270J16353_1013431	F076395	MTVIRSPLYRWRAGEVEITRVLEFEAALFEPTVLYP
JGI20270J16353_101404	JGI20270J16353_1014041	F015805	MREEQTLAEIEDFIGGFNQPTYRGMRVNGARVATGSSQHGWSGDSRPDAEWIQ*
JGI20270J16353_101484	JGI20270J16353_1014841	F000931	MSTLDEITNEKQRVGEALARLDAQREKLTGQLGELEAAERVLARYSKGTGPRKAASAHTPSTSTKAPAAAPSRERRRTRVAKPAGGKRSSLTL
JGI20270J16353_101540	JGI20270J16353_1015401	F036891	LLERARXYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGQVVRNEAGRWSIGLSAVPHTNGRAVRATNGKLVVALDA*
JGI20270J16353_101609	JGI20270J16353_1016092	F000964	MLEAQIAQGVQLLDLMLEYFSDDGHWARGRYDDGNGGHCLVGAVLHLSRKHRLPRAPAIALLQDAMPR
JGI20270J16353_101698	JGI20270J16353_1016981	F070522	MAAADPDNAHGHNRASSLQVLRRVCLTVSFFAVWVMARRQPDPMQHFGAMLTAASIACAVLAAISRTRVMDQRLNRWDEALAYLALALSVDLWAQL*
JGI20270J16353_101717	JGI20270J16353_1017171	F000644	DDLMRQIQETERLIAVYRNANEVIVGTQDEIYARRGLINRTTLTKAETGDQIVRILERRLVGMRAELQKLGVEYRGGNLLIIPAD*