3300001658: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF048

Overview

Basic Information

• IMG/M Taxon OID: 3300001658
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0085736 | Gp0057373 | Ga0003887
• Sample Name: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF048
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 4088584
• Sequencing Scaffolds: 9
• Novel Protein Genes: 11
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	2
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	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?
F000083	Metagenome / Metatranscriptome	2471	Y
F003565	Metagenome / Metatranscriptome	479	Y
F004146	Metagenome / Metatranscriptome	451	Y
F005285	Metagenome / Metatranscriptome	406	Y
F020247	Metagenome / Metatranscriptome	225	Y
F022035	Metagenome / Metatranscriptome	216	Y
F023944	Metagenome / Metatranscriptome	208	N
F035094	Metagenome / Metatranscriptome	173	Y
F036891	Metagenome / Metatranscriptome	169	N
F037452	Metagenome / Metatranscriptome	168	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI20282J16327_100165	Not Available	1344
JGI20282J16327_100208	All Organisms → cellular organisms → Bacteria → Proteobacteria	1260
JGI20282J16327_100230	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1209
JGI20282J16327_100317	All Organisms → cellular organisms → Bacteria	1016
JGI20282J16327_100417	Not Available	868
JGI20282J16327_100519	All Organisms → cellular organisms → Bacteria	754
JGI20282J16327_100535	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	741
JGI20282J16327_100942	Not Available	545
JGI20282J16327_101010	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	525

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI20282J16327_100165	JGI20282J16327_1001651	F023944	MMVQSFVAAFAKAARVSDVPEEAIMSDTREPSYMFLAAEWNRSSVSERAYLLAMLFGREFEVEANDLSLQIASLAMTMVEPDGSAALIARVDLG
JGI20282J16327_100165	JGI20282J16327_1001653	F000083	MSTLDEITQEKQRVSEALARIDAQRQKLAGQLGELEATERVLARYSTGTKRTVSAKSPPSPTKAVAPAQRQRGRRPATTAKPGDGRRTSATLSDQVLALATGRTQHEIASACKGARPNHVGAAISRHKRAGRIEERDGKLYASQATEAAQHAVV*
JGI20282J16327_100208	JGI20282J16327_1002081	F039789	LWTVGCADPRLTAQARSPMDKPGKTLRVSPTLPTGRRLPTSFT
JGI20282J16327_100230	JGI20282J16327_1002302	F020247	MTFVGSVHNPKIMLGMLVKVLCGDAIATRRRLPREGNVTFEDLMRGTSDFDVRTVTLEILTSMRYLLPIMVGIVAVIATMRSSSLSWSHDTCWIDGEVGSLSNKSVLERLRY*
JGI20282J16327_100317	JGI20282J16327_1003171	F035094	WLTENELSDLSRLWHDGCVKATIETQDVDRNHSSEV*
JGI20282J16327_100417	JGI20282J16327_1004172	F036891	MNGTGPQMKKLLERARAYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGHVVRNEAGRWSIGLSAVPHTNGRAVRATNGKLVVALDA*
JGI20282J16327_100519	JGI20282J16327_1005191	F005285	MAGSWSDMNQGSLFGKGTAFMIDERSEEPCPKGDRAFVRAKKRGNARGAKGGRKVEA*
JGI20282J16327_100535	JGI20282J16327_1005351	F004146	RARQPRRAKAAGRRAASRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20282J16327_100942	JGI20282J16327_1009422	F037452	MVLVSLMGSSFLSEVCDTSILRAGLSTHYWGPLSWLRASRLLHPRSGLERSDFVLW
JGI20282J16327_101010	JGI20282J16327_1010101	F003565	VAVRPEGANHQWRRNPPGELSIDPVADERLMRVTAWVGAS*
JGI20282J16327_101106	JGI20282J16327_1011061	F022035	PDPNAVVGEQSLSSKLLDYQPSNGAQPAPVEKRETNPLKGVY*