NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300000863

3300000863: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 30



Overview

Basic Information
IMG/M Taxon OID3300000863 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0075432 | Gp0054712 | Ga0001953
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 30
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size17139194
Sequencing Scaffolds21
Novel Protein Genes22
Associated Families22

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Acidobacteria2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium1
Not Available8
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameTropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico
TypeEnvironmental
TaxonomyEnvironmental → 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
LocationLuquillo Experimental Forest Soil, Puerto Rico
CoordinatesLat. (o)18.0Long. (o)-65.0Alt. (m)N/ADepth (m).1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000442Metagenome / Metatranscriptome1132Y
F000477Metagenome / Metatranscriptome1097Y
F003446Metagenome / Metatranscriptome486Y
F003681Metagenome / Metatranscriptome474Y
F003758Metagenome / Metatranscriptome470Y
F004890Metagenome / Metatranscriptome420Y
F007614Metagenome / Metatranscriptome348Y
F010721Metagenome / Metatranscriptome300Y
F014414Metagenome / Metatranscriptome263Y
F019842Metagenome / Metatranscriptome227Y
F023419Metagenome / Metatranscriptome210Y
F040358Metagenome / Metatranscriptome162N
F046517Metagenome / Metatranscriptome151N
F047330Metagenome150Y
F063348Metagenome129N
F065344Metagenome127Y
F083188Metagenome / Metatranscriptome113Y
F089680Metagenome108Y
F090176Metagenome / Metatranscriptome108Y
F091102Metagenome107N
F103827Metagenome / Metatranscriptome101Y
F104209Metagenome100N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI12412J12824_100068All Organisms → cellular organisms → Bacteria2537Open in IMG/M
JGI12412J12824_100293All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1587Open in IMG/M
JGI12412J12824_102206All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium721Open in IMG/M
JGI12412J12824_102909All Organisms → cellular organisms → Bacteria → Acidobacteria646Open in IMG/M
JGI12412J12824_102941All Organisms → cellular organisms → Bacteria → Acidobacteria644Open in IMG/M
JGI12412J12824_103237All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium620Open in IMG/M
JGI12412J12824_103255Not Available619Open in IMG/M
JGI12412J12824_103273Not Available618Open in IMG/M
JGI12412J12824_103378All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria611Open in IMG/M
JGI12412J12824_103911Not Available578Open in IMG/M
JGI12412J12824_103932All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Chlamydomonadales → Volvocaceae → Volvox → Volvox carteri576Open in IMG/M
JGI12412J12824_104379All Organisms → cellular organisms → Bacteria → Proteobacteria552Open in IMG/M
JGI12412J12824_104553Not Available544Open in IMG/M
JGI12412J12824_104780All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → unclassified Acidimicrobiales → Acidimicrobiales bacterium534Open in IMG/M
JGI12412J12824_104826Not Available532Open in IMG/M
JGI12412J12824_104934All Organisms → cellular organisms → Bacteria528Open in IMG/M
JGI12412J12824_104976Not Available527Open in IMG/M
JGI12412J12824_105132Not Available520Open in IMG/M
JGI12412J12824_105473Not Available508Open in IMG/M
JGI12412J12824_105547All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium505Open in IMG/M
JGI12412J12824_105629All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium503Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI12412J12824_100068JGI12412J12824_1000682F104209RRNGHGGAGTHAHSTLSAETTHVQVFYRFHPLYSSTLQILRRPKRGDGAVCVSDPMGRRLKIPMWMLLPNSAEMKIAEQAYLSKEALLSLVLLVSTPREIENRVHANLLQAVVDTCKGGQRATTTTPGAGDRKSGGHGADRRRDTNRTDRSHGPHSGGGLSNGRRKSR*
JGI12412J12824_100293JGI12412J12824_1002931F065344RIFERAAYRRIAEGKAPETLSEFAVQLSVWFNDTYPAASTPSISFVEATIRDTWHRRHEEIGSEL*
JGI12412J12824_102206JGI12412J12824_1022062F091102TVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12412J12824_102909JGI12412J12824_1029091F007614VSDDSVPLALPLPRLAADSAEVAALYRQLRKPLLRYLACLGLTSDEAQDVVQDTFL
JGI12412J12824_102941JGI12412J12824_1029412F014414MPVLLHLPGKTNPINGFTHTVSATGAMVILPEGLPTGTKVSIENPKTQKKVEAHVVRPPQMNPEGSLVPLEFTSPSPQFWNIFFPPTTN*
JGI12412J12824_103237JGI12412J12824_1032371F090176SAPLAPDLLTKQVAVLKGYLGIESKDPGVVDLENEALRLRRSAPSPRLAGRPGPDPQGGMSFREIGEVLGRSERWASLAVASAQRREAANAGGRAQLNFDGSILGLRKFTSSELLDAGFNVSVVAERQGHGPQVLTRHYSKLRASSDQRAAEHLGRVIHGD*
JGI12412J12824_103255JGI12412J12824_1032551F063348PAPAGFSIPSMTGFDQTVRLPDRQEXXXXVNVKKAEIEDLAFRFRDEVKAEILQHRGSNAVGVVGSFVVNIEAHRARYAKKLXAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAXXHQIPLEIHKIGLSDNQLEVIMXTAEPLAEEKCQEFLQRVAAILPMRGQISDDDVSVAVHRALSDIIRNSAVWKEWNQ
JGI12412J12824_103273JGI12412J12824_1032731F000477MPAGATKKIAPEIDAQLWEEFAEVARRNGQSQRYLLEQALAHYLHNVVPSQHLVRPEVMRAFEQS
JGI12412J12824_103378JGI12412J12824_1033782F040358RIAIFALAVLAGGGAAEAGQIEVISASPRHIEIAAWCWTAGSNCQQEASDVAQGYCHGSDYPDYPRRALYVRSGLVERGFFSERVIFVYRCNRRSIICEAGSC*
JGI12412J12824_103911JGI12412J12824_1039112F083188MAFCEGVPKRLFATSIAIAIAVCMMGALAAAQTTLQPRAEVFGGYSWLNPDGYVDWGKVNSIAHGWN
JGI12412J12824_103932JGI12412J12824_1039321F023419EFPDVPGKLIENIPGPDVIELKLAFVTSEAEFDAKNTADMDVKIKTADQPEAAKLEKDSAPRFTGTLESYTPDPSFMLNWDKAKVNPDDLPKEGKKPAATKKPAAKKP*
JGI12412J12824_104310JGI12412J12824_1043101F089680AIPDAQAPPAASNLRMYRKLAYFILVLLFVIPVPSLAQCKDALCSSLQDSLDSASIDFRGYISHTLALPSLSTESTKVPCSMSTWANNVPMLICYSQVPLGSATNWYARAMDNLKQLNPSWSFTIKTPGDDRYVDAGPPHCEPTPTEGPYIGQCPLRLEVRKQSDGSAKIYLLVNSFNSPFLMHH
JGI12412J12824_104379JGI12412J12824_1043791F003758KFDPRVSANVIRAFENAEDEVLVNTLPGAARLNVPKLFRPEFMEAVMKEHPEYFADLPKL
JGI12412J12824_104553JGI12412J12824_1045531F103827NQVAPPHNRGLDMKALLFVGMISCLTVAGTATHQQTGIEPGNGLGISIAPDEAASGPDKAMHVKVTFSNLRSEDLTFIPGTLIACGMTPSKTSAVKLNLTGPQGKQHRHLPYLGDGPPYQGWCAGQIDFYVVILHGGESVSLPLEIGKYVDLSDSKQYVGARFPAGKYSLQAELTTEPSE
JGI12412J12824_104780JGI12412J12824_1047801F004890MMSGSRKDVLLKALEAELGETAEDLTTLCTEDVVGWSPLVSLSGLPALVELSAIRELAFSNVVLLTRGLDEVGNKVFAEWVVEAD
JGI12412J12824_104826JGI12412J12824_1048261F003681MANRATVKIGPAINAKLYKEFVAVAKENGQSQRFLLEKAIEHYIHNVVPSQRTVRPEAIEAFRRSNEK
JGI12412J12824_104934JGI12412J12824_1049341F010721RRRRRVYIDTPKGRLSAXFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA*
JGI12412J12824_104976JGI12412J12824_1049762F019842MKFSTADLTVLRIRCQKCAQLTEKLVTLLIGKNAIQCCNCGERISLATPTNKILISETATGCARIGDALVKGLSRAKPA*
JGI12412J12824_105132JGI12412J12824_1051322F000442MLFATVSRGKNLGARLLPHRFQDNRYHVHLGKEGPYIPVSDDREIPSYLANGYSLKMSSPEARTPVLVRPQSIQGWSPNSKEIFFPIFREPFFPVL*
JGI12412J12824_105473JGI12412J12824_1054731F046517DLDAVKVAFGDTWQQSHLPEGYSALMTAYSVHHFFVSESSTTK*
JGI12412J12824_105547JGI12412J12824_1055472F003446ADLQKLVASQAVFKEESLAIYRQVTDQLESDANARLLQTHDQLEKNSTSVVNECNEKMLELSQAFEKIARDSAQNMIASATDKGNKNLEERAAEISSHFTNQLEGHVRSYLEFIGESIKEFPKKLPAA*
JGI12412J12824_105629JGI12412J12824_1056292F047330EQIAIDHVHAKIAVADKALLNFCAKFNKLPSKIGADDIEVLRTYGFGEQHILEAIVTVGFAQFANTVAFGLGTVPDFHNRRIQEELGKARAVELGVHVPAAG*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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