| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300000681 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0075432 | Gp0054555 | Ga0001971 |
| Sample Name | Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 48 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 5600810 |
| Sequencing Scaffolds | 4 |
| Novel Protein Genes | 6 |
| Associated Families | 6 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 1 |
| Not Available | 2 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Loam → Forest Soil → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → tropical forest → forest soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Luquillo Experimental Forest Soil, Puerto Rico | |||||||
| Coordinates | Lat. (o) | 18.0 | Long. (o) | -65.0 | Alt. (m) | N/A | Depth (m) | .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F003565 | Metagenome / Metatranscriptome | 479 | Y |
| F005599 | Metagenome / Metatranscriptome | 395 | Y |
| F007624 | Metagenome / Metatranscriptome | 348 | N |
| F012657 | Metagenome | 278 | Y |
| F065344 | Metagenome | 127 | Y |
| F097461 | Metagenome / Metatranscriptome | 104 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI12370J11904_100236 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1048 | Open in IMG/M |
| JGI12370J11904_100496 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 745 | Open in IMG/M |
| JGI12370J11904_100848 | Not Available | 602 | Open in IMG/M |
| JGI12370J11904_100866 | Not Available | 596 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI12370J11904_100236 | JGI12370J11904_1002361 | F007624 | MQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF* |
| JGI12370J11904_100496 | JGI12370J11904_1004961 | F003565 | VMAVRPEGANHQWRKNPPGELSIDPVADERLVRVTAWVGAS* |
| JGI12370J11904_100496 | JGI12370J11904_1004962 | F005599 | VKPEQASKVTMRMPTLLPFGEGRVSGEAIDMGTRSIRRGSGLGTSEGWFG* |
| JGI12370J11904_100848 | JGI12370J11904_1008481 | F012657 | KAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR* |
| JGI12370J11904_100866 | JGI12370J11904_1008662 | F065344 | MTNGLPDVAKEARPSRRRTRRIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSISFVEATIRDTWHRRHEEIGSEL* |
| JGI12370J11904_101117 | JGI12370J11904_1011171 | F097461 | AVLAGQCDNVGGEPLFVFSAPRYLALCRAMLPERRTGAALGDMHDFSDLLDIGASARGA* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |