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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 | 3300000720 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0075432 | Gp0054816 | Ga0001951 |
| Sample Name | Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 28 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 13917824 |
| Sequencing Scaffolds | 19 |
| Novel Protein Genes | 19 |
| Associated Families | 18 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 1 |
| Not Available | 11 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| 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? |
|---|---|---|---|
| F006520 | Metagenome / Metatranscriptome | 371 | Y |
| F008517 | Metagenome / Metatranscriptome | 332 | Y |
| F012657 | Metagenome | 278 | Y |
| F014051 | Metagenome | 266 | Y |
| F019273 | Metagenome | 230 | Y |
| F025544 | Metagenome / Metatranscriptome | 201 | Y |
| F034030 | Metagenome / Metatranscriptome | 175 | Y |
| F036023 | Metagenome / Metatranscriptome | 171 | Y |
| F037452 | Metagenome / Metatranscriptome | 168 | Y |
| F045461 | Metagenome | 152 | N |
| F046476 | Metagenome / Metatranscriptome | 151 | Y |
| F052920 | Metagenome / Metatranscriptome | 142 | Y |
| F084774 | Metagenome / Metatranscriptome | 112 | N |
| F091102 | Metagenome | 107 | N |
| F098285 | Metagenome | 104 | Y |
| F098431 | Metagenome | 103 | N |
| F101797 | Metagenome | 102 | Y |
| F104209 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI12456J11933_100132 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1866 | Open in IMG/M |
| JGI12456J11933_100363 | All Organisms → cellular organisms → Bacteria | 1350 | Open in IMG/M |
| JGI12456J11933_100632 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 1121 | Open in IMG/M |
| JGI12456J11933_100676 | Not Available | 1081 | Open in IMG/M |
| JGI12456J11933_101018 | All Organisms → cellular organisms → Bacteria | 908 | Open in IMG/M |
| JGI12456J11933_101295 | All Organisms → cellular organisms → Bacteria | 815 | Open in IMG/M |
| JGI12456J11933_101479 | Not Available | 769 | Open in IMG/M |
| JGI12456J11933_101905 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 694 | Open in IMG/M |
| JGI12456J11933_102358 | Not Available | 636 | Open in IMG/M |
| JGI12456J11933_102385 | All Organisms → cellular organisms → Bacteria | 633 | Open in IMG/M |
| JGI12456J11933_102558 | Not Available | 619 | Open in IMG/M |
| JGI12456J11933_102932 | Not Available | 589 | Open in IMG/M |
| JGI12456J11933_102979 | Not Available | 585 | Open in IMG/M |
| JGI12456J11933_103020 | Not Available | 581 | Open in IMG/M |
| JGI12456J11933_103229 | Not Available | 567 | Open in IMG/M |
| JGI12456J11933_103358 | Not Available | 559 | Open in IMG/M |
| JGI12456J11933_104204 | Not Available | 514 | Open in IMG/M |
| JGI12456J11933_104381 | Not Available | 506 | Open in IMG/M |
| JGI12456J11933_104476 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 503 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI12456J11933_100132 | JGI12456J11933_1001321 | F025544 | IAAALTSKHHWLVIACDSCRTVIDLDLRVKPRDPDASIRVALDDVRCPRCNGHGRIRITALARQPSI* |
| JGI12456J11933_100363 | JGI12456J11933_1003631 | F104209 | GDADGGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR* |
| JGI12456J11933_100632 | JGI12456J11933_1006321 | F036023 | MKRLFPQCSVLALMLTLALSAVAKPKTENITLYHDARVNGTSLPAGDYVVKYDVEGTNVQLKFMQGNKEVASTTGQVKTLDKMVGSNQVVLNNQDRSIAEIDFRGNGSAITFGSPSTMGGK* |
| JGI12456J11933_100676 | JGI12456J11933_1006761 | F034030 | YVIAGCVAAVTSADLALAQAKNSTSMEDRLSAKIRCQDFQKNSDGKWTSSSKAKIGKIDFSNHTFGVDEVDIGGADLATFLNRKCAAH* |
| JGI12456J11933_101018 | JGI12456J11933_1010182 | F008517 | VVIIGWIIELAGMALWLYGYFATGHSSIIDWHAYTPWWIADYLPNIESEIGMTLVCAAMVPIYWPSRR* |
| JGI12456J11933_101295 | JGI12456J11933_1012951 | F045461 | FTDNSVVFLAISFFAYCTCARKEIAVRQPTAPHSEFSLRSMLFGAVFIIMFVAAVIIDLAALLQFSGLVNGLPANILEMAGVLTGLTIFPLLVMGMSVSVDLNHK* |
| JGI12456J11933_101479 | JGI12456J11933_1014791 | F091102 | PLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH* |
| JGI12456J11933_101905 | JGI12456J11933_1019052 | F101797 | DIDTNLQNPNASGIGAWGTGEVDKSRNQKIFDQRRFAIRTTPVVQENNGNSRGCKSDTRVPRNANIRILVQSGVWSDVDIDEDGNADGRVRTADLTSNLATMPPWGPS* |
| JGI12456J11933_102358 | JGI12456J11933_1023581 | F084774 | LCNAGVVQAQAPETPLLPMNVEFRYLPEYIEQSTFDDPRYARIEALLTEDTCDVILLDKTTNREAFYSISKPRVDSLAACGSDAYITPIGFTASRTKDLSSTFFIRFQDHFGNEISWNFVVGRIVPHASPEVIYRTDNSGITFLYAPRRAPTADGTVLRIAGREYLPGSARSDTLVAFYATDMTLGQILPGTDLWTVEQSPTDTLTPTWSLV |
| JGI12456J11933_102385 | JGI12456J11933_1023851 | F052920 | RHEVHSHGTAAYIAPFSERTDVHWETTNLPVWNAEGAAEQQELVYEVSWIKELGMWRRFLTSRCKVGSGRQEVPC* |
| JGI12456J11933_102558 | JGI12456J11933_1025581 | F012657 | RLRTSPVMLAASLHQMAERDDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG* |
| JGI12456J11933_102932 | JGI12456J11933_1029321 | F098285 | MNLKMIAAILVIAAVPVCAQAQKPSAAKVTNADAQKVLKIISGDKAKTQTYCDILNLGVQIEEADQSKDAKKADELIQKIDDLTKKLGPEYVALVGGLQDVDMESEDGQQIGSVLEALDRLCAK* |
| JGI12456J11933_102979 | JGI12456J11933_1029791 | F019273 | MIYRVRTNKKYPFKQMQPGETFKLNDEDVRSAQKMAWYYRTRCKRPIRIIIAKSDDGYHCHR |
| JGI12456J11933_103020 | JGI12456J11933_1030201 | F006520 | MWILVIYVSIVAISETVVALLGLTLDRIYPALSLPISLSLFFAVLWLAWIVAVRLTKPKHAKAD |
| JGI12456J11933_103229 | JGI12456J11933_1032291 | F014051 | ALQEFLKINFWAAKDDGMPKDKIDAVSALMKKIGSIQPGKEAVTYEQFVDPSVWKDANAMVK* |
| JGI12456J11933_103358 | JGI12456J11933_1033581 | F012657 | KGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRSWFAGIGHNELNPARLER |
| JGI12456J11933_104204 | JGI12456J11933_1042041 | F037452 | MVLVSLMESSFLIEVDNTSILRTGALHCYHYTLNRLPAPRLLLPRSGLERSDFVHWPFA |
| JGI12456J11933_104381 | JGI12456J11933_1043811 | F098431 | SLQDTGWKYSASIAVSNQGNNTVEIIPGIVTLDELQPNLKALTATEPEKLAHNHTHQVLWSTASAQPSRSAVELHPGNSSALAALSYRTNPAPDYLSPHLIPASAHRGAFERNESVDVRAIALKNVSLPTGQITAGVMWFTRDASARELSLRVPAGDLVFDFPLSFEQ |
| JGI12456J11933_104476 | JGI12456J11933_1044761 | F046476 | VNTLPGAARLNVPKLFRPEFMEAVMKEHPEYFADLPKL* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |