| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300000863 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0075432 | Gp0054712 | Ga0001953 |
| Sample Name | Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 30 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 17139194 |
| Sequencing Scaffolds | 21 |
| Novel Protein Genes | 22 |
| Associated Families | 22 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium | 1 |
| Not Available | 8 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 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? |
|---|---|---|---|
| F000442 | Metagenome / Metatranscriptome | 1132 | Y |
| F000477 | Metagenome / Metatranscriptome | 1097 | Y |
| F003446 | Metagenome / Metatranscriptome | 486 | Y |
| F003681 | Metagenome / Metatranscriptome | 474 | Y |
| F003758 | Metagenome / Metatranscriptome | 470 | Y |
| F004890 | Metagenome / Metatranscriptome | 420 | Y |
| F007614 | Metagenome / Metatranscriptome | 348 | Y |
| F010721 | Metagenome / Metatranscriptome | 300 | Y |
| F014414 | Metagenome / Metatranscriptome | 263 | Y |
| F019842 | Metagenome / Metatranscriptome | 227 | Y |
| F023419 | Metagenome / Metatranscriptome | 210 | Y |
| F040358 | Metagenome / Metatranscriptome | 162 | N |
| F046517 | Metagenome / Metatranscriptome | 151 | N |
| F047330 | Metagenome | 150 | Y |
| F063348 | Metagenome | 129 | N |
| F065344 | Metagenome | 127 | Y |
| F083188 | Metagenome / Metatranscriptome | 113 | Y |
| F089680 | Metagenome | 108 | Y |
| F090176 | Metagenome / Metatranscriptome | 108 | Y |
| F091102 | Metagenome | 107 | N |
| F103827 | Metagenome / Metatranscriptome | 101 | Y |
| F104209 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI12412J12824_100068 | All Organisms → cellular organisms → Bacteria | 2537 | Open in IMG/M |
| JGI12412J12824_100293 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1587 | Open in IMG/M |
| JGI12412J12824_102206 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium | 721 | Open in IMG/M |
| JGI12412J12824_102909 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 646 | Open in IMG/M |
| JGI12412J12824_102941 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 644 | Open in IMG/M |
| JGI12412J12824_103237 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium | 620 | Open in IMG/M |
| JGI12412J12824_103255 | Not Available | 619 | Open in IMG/M |
| JGI12412J12824_103273 | Not Available | 618 | Open in IMG/M |
| JGI12412J12824_103378 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 611 | Open in IMG/M |
| JGI12412J12824_103911 | Not Available | 578 | Open in IMG/M |
| JGI12412J12824_103932 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri | 576 | Open in IMG/M |
| JGI12412J12824_104379 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 552 | Open in IMG/M |
| JGI12412J12824_104553 | Not Available | 544 | Open in IMG/M |
| JGI12412J12824_104780 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium | 534 | Open in IMG/M |
| JGI12412J12824_104826 | Not Available | 532 | Open in IMG/M |
| JGI12412J12824_104934 | All Organisms → cellular organisms → Bacteria | 528 | Open in IMG/M |
| JGI12412J12824_104976 | Not Available | 527 | Open in IMG/M |
| JGI12412J12824_105132 | Not Available | 520 | Open in IMG/M |
| JGI12412J12824_105473 | Not Available | 508 | Open in IMG/M |
| JGI12412J12824_105547 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 505 | Open in IMG/M |
| JGI12412J12824_105629 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 503 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI12412J12824_100068 | JGI12412J12824_1000682 | F104209 | RRNGHGGAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR* |
| JGI12412J12824_100293 | JGI12412J12824_1002931 | F065344 | RIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSISFVEATIRDTWHRRHEEIGSEL* |
| JGI12412J12824_102206 | JGI12412J12824_1022062 | F091102 | TVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH* |
| JGI12412J12824_102909 | JGI12412J12824_1029091 | F007614 | VSDDSVPLALPLPRLAADSAEVAALYRQLRKPLLRYLACLGLTSDEAQDVVQDTFL |
| JGI12412J12824_102941 | JGI12412J12824_1029412 | F014414 | MPVLLHLPGKTNPINGFTHTVSATGAMVILPEGLPTGTKVSIENPKTQKKVEAHVVRPPQMNPEGSLVPLEFTSPSPQFWNIFFPPTTN* |
| JGI12412J12824_103237 | JGI12412J12824_1032371 | F090176 | SAPLAPDLLTKQVAVLKGYLGIESKDPGVVDLENEALRLRRSAPSPRLAGRPGPDPQGGMSFREIGEVLGRSERWASLAVASAQRREAANAGGRAQLNFDGSILGLRKFTSSELLDAGFNVSVVAERQGHGPQVLTRHYSKLRASSDQRAAEHLGRVIHGD* |
| JGI12412J12824_103255 | JGI12412J12824_1032551 | F063348 | PAPAGFSIPSMTGFDQTVRLPDRQEXXXXVNVKKAEIEDLAFRFRDEVKAEILQHRGSNAVGVVGSFVVNIEAHRARYAKKLXAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAXXHQIPLEIHKIGLSDNQLEVIMXTAEPLAEEKCQEFLQRVAAILPMRGQISDDDVSVAVHRALSDIIRNSAVWKEWNQ |
| JGI12412J12824_103273 | JGI12412J12824_1032731 | F000477 | MPAGATKKIAPEIDAQLWEEFAEVARRNGQSQRYLLEQALAHYLHNVVPSQHLVRPEVMRAFEQS |
| JGI12412J12824_103378 | JGI12412J12824_1033782 | F040358 | RIAIFALAVLAGGGAAEAGQIEVISASPRHIEIAAWCWTAGSNCQQEASDVAQGYCHGSDYPDYPRRALYVRSGLVERGFFSERVIFVYRCNRRSIICEAGSC* |
| JGI12412J12824_103911 | JGI12412J12824_1039112 | F083188 | MAFCEGVPKRLFATSIAIAIAVCMMGALAAAQTTLQPRAEVFGGYSWLNPDGYVDWGKVNSIAHGWN |
| JGI12412J12824_103932 | JGI12412J12824_1039321 | F023419 | EFPDVPGKLIENIPGPDVIELKLAFVTSEAEFDAKNTADMDVKIKTADQPEAAKLEKDSAPRFTGTLESYTPDPSFMLNWDKAKVNPDDLPKEGKKPAATKKPAAKKP* |
| JGI12412J12824_104310 | JGI12412J12824_1043101 | F089680 | AIPDAQAPPAASNLRMYRKLAYFILVLLFVIPVPSLAQCKDALCSSLQDSLDSASIDFRGYISHTLALPSLSTESTKVPCSMSTWANNVPMLICYSQVPLGSATNWYARAMDNLKQLNPSWSFTIKTPGDDRYVDAGPPHCEPTPTEGPYIGQCPLRLEVRKQSDGSAKIYLLVNSFNSPFLMHH |
| JGI12412J12824_104379 | JGI12412J12824_1043791 | F003758 | KFDPRVSANVIRAFENAEDEVLVNTLPGAARLNVPKLFRPEFMEAVMKEHPEYFADLPKL |
| JGI12412J12824_104553 | JGI12412J12824_1045531 | F103827 | NQVAPPHNRGLDMKALLFVGMISCLTVAGTATHQQTGIEPGNGLGISIAPDEAASGPDKAMHVKVTFSNLRSEDLTFIPGTLIACGMTPSKTSAVKLNLTGPQGKQHRHLPYLGDGPPYQGWCAGQIDFYVVILHGGESVSLPLEIGKYVDLSDSKQYVGARFPAGKYSLQAELTTEPSE |
| JGI12412J12824_104780 | JGI12412J12824_1047801 | F004890 | MMSGSRKDVLLKALEAELGETAEDLTTLCTEDVVGWSPLVSLSGLPALVELSAIRELAFSNVVLLTRGLDEVGNKVFAEWVVEAD |
| JGI12412J12824_104826 | JGI12412J12824_1048261 | F003681 | MANRATVKIGPAINAKLYKEFVAVAKENGQSQRFLLEKAIEHYIHNVVPSQRTVRPEAIEAFRRSNEK |
| JGI12412J12824_104934 | JGI12412J12824_1049341 | F010721 | RRRRRVYIDTPKGRLSAXFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA* |
| JGI12412J12824_104976 | JGI12412J12824_1049762 | F019842 | MKFSTADLTVLRIRCQKCAQLTEKLVTLLIGKNAIQCCNCGERISLATPTNKILISETATGCARIGDALVKGLSRAKPA* |
| JGI12412J12824_105132 | JGI12412J12824_1051322 | F000442 | MLFATVSRGKNLGARLLPHRFQDNRYHVHLGKEGPYIPVSDDREIPSYLANGYSLKMSSPEARTPVLVRPQSIQGWSPNSKEIFFPIFREPFFPVL* |
| JGI12412J12824_105473 | JGI12412J12824_1054731 | F046517 | DLDAVKVAFGDTWQQSHLPEGYSALMTAYSVHHFFVSESSTTK* |
| JGI12412J12824_105547 | JGI12412J12824_1055472 | F003446 | ADLQKLVASQAVFKEESLAIYRQVTDQLESDANARLLQTHDQLEKNSTSVVNECNEKMLELSQAFEKIARDSAQNMIASATDKGNKNLEERAAEISSHFTNQLEGHVRSYLEFIGESIKEFPKKLPAA* |
| JGI12412J12824_105629 | JGI12412J12824_1056292 | F047330 | EQIAIDHVHAKIAVADKALLNFCAKFNKLPSKIGADDIEVLRTYGFGEQHILEAIVTVGFAQFANTVAFGLGTVPDFHNRRIQEELGKARAVELGVHVPAAG* |
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