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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300001639 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057254 | Ga0003842 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF003 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 6998714 |
| Sequencing Scaffolds | 9 |
| Novel Protein Genes | 9 |
| Associated Families | 9 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 2 |
| Not Available | 6 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter → Candidatus Koribacter versatilis | 1 |
| 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 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F005508 | Metagenome / Metatranscriptome | 398 | Y |
| F015231 | Metagenome / Metatranscriptome | 256 | Y |
| F018240 | Metagenome / Metatranscriptome | 236 | Y |
| F020058 | Metagenome / Metatranscriptome | 226 | Y |
| F033191 | Metagenome / Metatranscriptome | 178 | Y |
| F056367 | Metagenome / Metatranscriptome | 137 | Y |
| F061335 | Metagenome / Metatranscriptome | 132 | Y |
| F071373 | Metagenome | 122 | Y |
| F092770 | Metagenome / Metatranscriptome | 107 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI20237J16298_100145 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1446 | Open in IMG/M |
| JGI20237J16298_100349 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1034 | Open in IMG/M |
| JGI20237J16298_100603 | Not Available | 805 | Open in IMG/M |
| JGI20237J16298_101034 | Not Available | 644 | Open in IMG/M |
| JGI20237J16298_101245 | Not Available | 593 | Open in IMG/M |
| JGI20237J16298_101341 | Not Available | 578 | Open in IMG/M |
| JGI20237J16298_101465 | Not Available | 558 | Open in IMG/M |
| JGI20237J16298_101668 | Not Available | 532 | Open in IMG/M |
| JGI20237J16298_101680 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter → Candidatus Koribacter versatilis | 531 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI20237J16298_100145 | JGI20237J16298_1001452 | F071373 | EQFLMVKRKDGSRVKRGPYPLLTRKHGQKTVSLRLTDPALLPLYRQQIQAMRQFETVVDGLVRVGEQLSDLAVAEVVQKKTPGGTGTSR* |
| JGI20237J16298_100349 | JGI20237J16298_1003492 | F033191 | FVRRDSAVKLIDGLAGESPASADCPVGTVVISGDGAGDQTVGSPDVNVLDGWT* |
| JGI20237J16298_100603 | JGI20237J16298_1006032 | F020058 | MIASKGGASEPADTLLLGKAGGAAAVRRTLASTICRAIGPMLVARQRQLRDASPVMRFRPAHQSLINRRFDGRASRPT |
| JGI20237J16298_101034 | JGI20237J16298_1010341 | F061335 | MSDPRRMARGFGLSFLVGLSGLVFGLSGAASAQGYLPDGPNVPIVTLNESQEGAAGLPPLPVPPPNGWN |
| JGI20237J16298_101245 | JGI20237J16298_1012452 | F015231 | VSPKRRLRGSRGRLTAGQKSAEGIVGQAVGKASEALQGRKAERTDRPSRNDDAKARTIESGK* |
| JGI20237J16298_101341 | JGI20237J16298_1013411 | F018240 | VTRSSQQAQRAAERQFPVRARTAVPPEGLGRQLALMHAWLDQTCGAAGWSSAPAGTAGVVNDAIVFYFEDAAFAHAFVVRFCCGWRVETTAGAFAVRREEPAPRHPAVAHKTP* |
| JGI20237J16298_101465 | JGI20237J16298_1014652 | F092770 | MSEGARHRPLGRGLAALFGETEGGASFDPASPRRVPI |
| JGI20237J16298_101668 | JGI20237J16298_1016682 | F005508 | MAYQVFRVEITRDETRDGGPVGIEITAYVDRMPETNEATIGRLSRASRGVWNS |
| JGI20237J16298_101680 | JGI20237J16298_1016802 | F056367 | MPRLPIFRLGKEPEKLAPPEMIAATPSLALEGLAVGVDNLRHDVVLSPRFVDAARAQITR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |