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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 | 3300000690 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0075432 | Gp0054449 | Ga0001998 |
| Sample Name | Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 75 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 7101410 |
| Sequencing Scaffolds | 10 |
| Novel Protein Genes | 10 |
| Associated Families | 10 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1 | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 1 |
| Not Available | 5 |
| 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 |
| F007624 | Metagenome / Metatranscriptome | 348 | N |
| F027877 | Metagenome | 193 | Y |
| F029309 | Metagenome | 188 | Y |
| F054241 | Metagenome | 140 | Y |
| F057789 | Metagenome | 135 | N |
| F074315 | Metagenome | 119 | N |
| F079486 | Metagenome / Metatranscriptome | 115 | Y |
| F091102 | Metagenome | 107 | N |
| F097844 | Metagenome / Metatranscriptome | 104 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI12582J11924_100495 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium | 1077 | Open in IMG/M |
| JGI12582J11924_101217 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1 | 730 | Open in IMG/M |
| JGI12582J11924_101223 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 729 | Open in IMG/M |
| JGI12582J11924_101325 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 700 | Open in IMG/M |
| JGI12582J11924_101371 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei | 690 | Open in IMG/M |
| JGI12582J11924_101477 | Not Available | 664 | Open in IMG/M |
| JGI12582J11924_101654 | Not Available | 633 | Open in IMG/M |
| JGI12582J11924_101978 | Not Available | 589 | Open in IMG/M |
| JGI12582J11924_102698 | Not Available | 515 | Open in IMG/M |
| JGI12582J11924_102826 | Not Available | 505 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI12582J11924_100495 | JGI12582J11924_1004951 | F079486 | VNADAIPASQLACLLYDAAEGICADVAAVMLIDRHGHFLHDPAFRRIIAAGSSITTGQPLAVIRWTAAIHALEAGQLPCCSSEKA |
| JGI12582J11924_101217 | JGI12582J11924_1012172 | F057789 | MSETALQFTGTDLRGLLDVLLEALKVIRRTGRRPTITVNGKLYASHDLRKVAALLPDEDLQRHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAPRQAAKMSALAVAEPAPFRNRGFSERTIKALLDCSIDQPERLLFMQSADLKKIPGVGKASFDEIMRYRAKFIRSSVMKKNP* |
| JGI12582J11924_101223 | JGI12582J11924_1012231 | F091102 | DSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH* |
| JGI12582J11924_101325 | JGI12582J11924_1013251 | F097844 | RSQTMINPLDLLNKFISAIIAYGPKNKTKKARMARKAARRKKLAAIKRH* |
| JGI12582J11924_101371 | JGI12582J11924_1013711 | F003565 | VAVRPEGANHQWRKNPPGELSIDPVADERLVRVTAWVGAS* |
| JGI12582J11924_101477 | JGI12582J11924_1014771 | F029309 | MIHKVRINKKYPFKQMSPGETFKLNELDVRGAQKLAYYYRSLCKRPIQVVVTKQD |
| JGI12582J11924_101654 | JGI12582J11924_1016541 | F007624 | MQLREGSFHGSRPSCPRHPDQWVHRHGFYQRFEDCDSQRRSRIERFVCPRCGRTPRCGRTLSVLPKNRLPYIAVNTTILELDFDARASGTDPPPRSEKERGCLRRAFERFTGRVAPLCALLGQMIRRIKPSVSECWRGLRQLDNLEGILLLLATK |
| JGI12582J11924_101978 | JGI12582J11924_1019782 | F054241 | MGQEGINTMPTENEPITAERIRKKKFVALLGQCLDCGQPVIEGQAFFRSDHGIRHALCEFDPAYAKRAREPKVKTE* |
| JGI12582J11924_102698 | JGI12582J11924_1026981 | F027877 | MGYNARNDEIHENVERMRREREAYEDSLAIVRQFNARLSAKKTA |
| JGI12582J11924_102826 | JGI12582J11924_1028262 | F074315 | MSTDFTEQWSNMQKMFLASSEMSASFRESARRFWENQGKLLDDMQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |