3300001642: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF012

Overview

Basic Information

• IMG/M Taxon OID: 3300001642
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0085736 | Gp0057263 | Ga0003851
• Sample Name: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF012
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 4731215
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
Not Available	3

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): 42.532967
  • Long. (^o): -72.209488
  • Alt. (m): N/A
  • Depth (m): 0 to .1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003565	Metagenome / Metatranscriptome	479	Y
F007716	Metagenome / Metatranscriptome	346	Y
F014536	Metagenome / Metatranscriptome	262	Y
F023941	Metagenome / Metatranscriptome	208	Y
F030235	Metagenome / Metatranscriptome	186	Y
F033528	Metagenome / Metatranscriptome	177	Y
F037452	Metagenome / Metatranscriptome	168	Y
F038357	Metagenome / Metatranscriptome	166	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI20246J16307_100009	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	3605
JGI20246J16307_100019	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2655
JGI20246J16307_100025	All Organisms → cellular organisms → Bacteria	2566
JGI20246J16307_100074	All Organisms → cellular organisms → Bacteria	1834
JGI20246J16307_100613	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	687
JGI20246J16307_100900	Not Available	547
JGI20246J16307_100909	Not Available	544
JGI20246J16307_101004	Not Available	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI20246J16307_100009	JGI20246J16307_1000094	F003565	MAVRPEGANHQWRKIPPGELSIDPVANERLGWVTGRAGAS*
JGI20246J16307_100019	JGI20246J16307_1000194	F037452	MGSSFLSEVDDTSILRTGALHRYHYPLTWLPASRLLLPRSGLERSDFV
JGI20246J16307_100025	JGI20246J16307_1000251	F023941	PLEEEGFEPVWGFSCQVVIFGLLPVLCSELEKPFFVPSPAIRFAERAEGVKGPKR*
JGI20246J16307_100074	JGI20246J16307_1000742	F038357	MCPGDPLGNHRQRPIAVSLVFEPVLAHEDGMGVPAPLPHQGRAGLQRSAGVERTSAFLELSRQNLQAALQGGGRAAMGTLLQLIGEPPDDQIATEAQRRADVMQSPPRTPQLLCRLTDQLSDFAINLCQCQTSQPVLPAAVCTERLARVLASRSVVEWGFHGLAGSAMRYTRPRSSLAEARGSPSFFFKVPEKTPRTV*
JGI20246J16307_100613	JGI20246J16307_1006131	F030235	NRSATADLRAIKILLDMLRDIEGQAEPASPETSAFSEADEKVIEQLRARFSKAEK*
JGI20246J16307_100900	JGI20246J16307_1009002	F033528	MYVLTLNPGESAFVRCTLCENLNLMVTNEKESDVKLQFNTKDDQLDAECVKCKGHYFWTPGSVAIVKATEHSN*
JGI20246J16307_100909	JGI20246J16307_1009091	F014536	RATASEAAGREIGAPSLGERILALATGRTRQELYLACPNDRPNHVGIAVQRHIRAGRIEERDGKFYATSPAAHXTA*
JGI20246J16307_101004	JGI20246J16307_1010041	F007716	MKSLIFAVVLLMVGSFSLPVLAQQQDLQEIMNATNALGARQNELLGKKDAAGIASLFTSDGLLVTLAPQFAFKPGRDAIQKHYQGIIEAGATGITLELKNMELRGNDGVWAAGNYSITVKDKTIQGNWFRILKRENGNWKIAMEAFARAIIDAPPAAAPANNK*