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 3300000907

3300000907: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM1_M1



Overview

Basic Information
IMG/M Taxon OID3300000907 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0071004 | Gp0053808 | Ga0002398
Sample NameForest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM1_M1
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size23670115
Sequencing Scaffolds23
Novel Protein Genes24
Associated Families24

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Cystobacterineae → Anaeromyxobacteraceae → Anaeromyxobacter → Anaeromyxobacter dehalogenans1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Pleomorphomonadaceae1
Not Available9
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Alicycliphilus → Alicycliphilus denitrificans1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameForest Soil Microbial Communities From Multiple Locations In Canada And Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Multiple Locations In Canada And Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)forest biome → solid layer → forest soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationEl Dorado National Forest, Georgetown, California, USA
CoordinatesLat. (o)38.88Long. (o)-120.64Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000428Metagenome / Metatranscriptome1150Y
F003776Metagenome / Metatranscriptome469Y
F003981Metagenome / Metatranscriptome459Y
F005285Metagenome / Metatranscriptome406Y
F008734Metagenome / Metatranscriptome329Y
F012254Metagenome / Metatranscriptome282Y
F012266Metagenome / Metatranscriptome282Y
F018965Metagenome / Metatranscriptome232N
F022515Metagenome / Metatranscriptome214Y
F029122Metagenome / Metatranscriptome189N
F029833Metagenome / Metatranscriptome187N
F034135Metagenome / Metatranscriptome175Y
F037137Metagenome / Metatranscriptome168Y
F037213Metagenome / Metatranscriptome168Y
F037666Metagenome167N
F040785Metagenome / Metatranscriptome161Y
F042751Metagenome / Metatranscriptome157N
F051371Metagenome / Metatranscriptome144Y
F052907Metagenome142Y
F053353Metagenome / Metatranscriptome141N
F064046Metagenome / Metatranscriptome129Y
F069409Metagenome124Y
F075150Metagenome / Metatranscriptome119N
F105938Metagenome / Metatranscriptome100N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI11871J12876_100132All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1798Open in IMG/M
JGI11871J12876_100647All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1120Open in IMG/M
JGI11871J12876_100660All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Cystobacterineae → Anaeromyxobacteraceae → Anaeromyxobacter → Anaeromyxobacter dehalogenans1115Open in IMG/M
JGI11871J12876_101360All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium828Open in IMG/M
JGI11871J12876_101377All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Pleomorphomonadaceae825Open in IMG/M
JGI11871J12876_102152Not Available698Open in IMG/M
JGI11871J12876_102198All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium692Open in IMG/M
JGI11871J12876_102417All Organisms → cellular organisms → Bacteria672Open in IMG/M
JGI11871J12876_102576All Organisms → cellular organisms → Bacteria656Open in IMG/M
JGI11871J12876_102948All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium626Open in IMG/M
JGI11871J12876_103038Not Available619Open in IMG/M
JGI11871J12876_103659All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Alicycliphilus → Alicycliphilus denitrificans583Open in IMG/M
JGI11871J12876_103721All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria580Open in IMG/M
JGI11871J12876_103813All Organisms → cellular organisms → Bacteria576Open in IMG/M
JGI11871J12876_104083All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium564Open in IMG/M
JGI11871J12876_104332Not Available554Open in IMG/M
JGI11871J12876_104433Not Available550Open in IMG/M
JGI11871J12876_104613Not Available543Open in IMG/M
JGI11871J12876_104770All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium538Open in IMG/M
JGI11871J12876_104887Not Available533Open in IMG/M
JGI11871J12876_105368Not Available517Open in IMG/M
JGI11871J12876_105396Not Available517Open in IMG/M
JGI11871J12876_105496Not Available514Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI11871J12876_100132JGI11871J12876_1001321F029122MLIRPAIGDTDPIRYRRPTPDGQFSGNIIDEAMRPSTVRQI
JGI11871J12876_100647JGI11871J12876_1006473F052907YGGAVRQAIAGWSPHLTWLAPAGAPGGTSADRFKAMSLALATARQSLDKLGTEISKAQAQDGDGPPRRKR*
JGI11871J12876_100660JGI11871J12876_1006602F037666MADHDFDRFPGTARDEASGTPSEIFDVLWGALVELLGSPATATLLRRSARRQRGDFPELVELAITRKDFEYTYVVPAAWKYANERSNAALQALVQDLCSLLLELTGPVVLRRLKTSSQLAKCLQSLAEDK*
JGI11871J12876_101077JGI11871J12876_1010771F037213MVRVLGPTGYKVVARLIAPERGLPSDRHPDRTKRAVVLEAVKVWPGNGGACRKGLVRRPTLTVSV
JGI11871J12876_101360JGI11871J12876_1013601F042751MSAAIILRSFAAVLVCVLGVVPARAETPWIAALTQQALSAGYQATLPPNVSLVLGLAADGKSVPVKQLVTRAEQKVRTFNVSVAHHRDLVIFSVDEATQATVAYLLAPGGKLRKAVSYQIGAVPRQL
JGI11871J12876_101377JGI11871J12876_1013771F069409LGAMLRAIGRGFGNGTFGMAQASAATADNTTASARLVAKAVDRNAAAREDGGTAFLRGESFNRSIPRSI*
JGI11871J12876_102152JGI11871J12876_1021522F051371AVESLRQVRSALADYATAQRGAYPREFEALGEPVRTAAQFAQSVNYQIQYTPGPVEPDGSIRSYALQARAGNYGFLSFYTDNTGAVHATRENRAATAQDSPY*
JGI11871J12876_102198JGI11871J12876_1021982F000428MRLDDHFGSSSTLQRNERVKLAASFWNNVGAGMVIGGIAGAFFLDKPPGAWTKVGIAVAGLVLGWICYSIASNILTYLHTAPDERR*
JGI11871J12876_102417JGI11871J12876_1024171F053353RQILRKVARSTELSRGDIATEAKLAVGYYVYTISVAGVVRYIGKGKGLRLYSHMKEVRSRLKRDFRVQSIGSILQRNLTKAFLSEAQVTEQVLIDDLTEKAAYKLEYDKLREYVFAGKGDQLWNVIPASIQTPQEIQAYTERLQRNLNSRDRWVRTLSAMTLEALRGGQHQHRTET*
JGI11871J12876_102576JGI11871J12876_1025762F005285GMARRWSEMNQGSRTGKGTAFMAARGPEELSPGGDRAFVVARKRGNARGAKGGRKVEA*
JGI11871J12876_102948JGI11871J12876_1029482F012254PRMRDGSWRRLTDIANHYDLGFEVVLWARSFDLLEWTEALKDGAFDVLDAMCEQPKAVESTKRALWAAYLKGAGPDQRAANPQRAA*
JGI11871J12876_103038JGI11871J12876_1030381F003776MKQSELDSMSLDELFMLHELLTATLEARITAERKALEDR
JGI11871J12876_103659JGI11871J12876_1036591F029833MKVACFVNPLVQARGPCFNFGWVEALAKLLQPLRRDARCECMLIAGGWFRDWARQNQKGPLLAGLRTVWLDELALYRQLRALGELPTALDQTAYQADDAEHPALGVIADAMAREINGFEPDIIIGFAGQANYLAKLWPAALRLHIERGHFGRDPYPFSMYFDHVGTHGRSAVGSVGGLNL
JGI11871J12876_103721JGI11871J12876_1037212F012266RLVLALQLPFFEVMALSFRLVGSAPERPCDDVCGLNPLLSESDGDAADFLD*
JGI11871J12876_103813JGI11871J12876_1038131F003981MDHSPTVTAEDIDWLRKLRNARAANQPSPDIPTSVVRKLTQIACAELKSPKERSTRLRERDELERRKQSG*
JGI11871J12876_104083JGI11871J12876_1040832F008734QGHQAGDGPSNLGQEDCHHRIDRVEERSVLRRPTSETTNSLSVFDRVRSISGYFSSGGRRVLETLWFESESQLIS*
JGI11871J12876_104332JGI11871J12876_1043321F022515PRRAIQAFFLRTHGFVLRSDARSHSDYNLPMARARKLFPIYGSALANNMFTALGRGRVVDRFVAAYVAEYNRAAILGGASRDRELAETIGREAMLAMIHEVPQVLPRFFGKKQHATLKEEEKTAMDAFFLELMAALGRVWGWNAQDRRQFGHDLDLYSECAARPVKVAKGRKRGKVREEDPPFI
JGI11871J12876_104433JGI11871J12876_1044332F064046RKPPMKETAGGVARWRVRRYGDLTAVVTECEYNFCDMARTLRMGENTFRRPCNFKELRVVKRAHITTFALCA*
JGI11871J12876_104613JGI11871J12876_1046132F037137MDELTPDQEKAVAATVGAIQRIAMAIVAFPKEQRATHYALVRRNFEAAIKEFSIEGEMAQTWLDKTMIGIQSLVTEIEVG
JGI11871J12876_104770JGI11871J12876_1047702F040785RLGTALREAFAEAMHDPQLIAEGAKMDLELGFVSGVDVQALVERLYKSPPEVIARAQAIVATN*
JGI11871J12876_104887JGI11871J12876_1048872F075150LKAATNLNVVQPKLFQASRQDDRRFSDCTVSVIQILDDADAAFRILGAGLRTVLSVTTMFADKPHHLNGRTSAQR
JGI11871J12876_105368JGI11871J12876_1053682F105938MKTTVMKLAFAKFAIALALAGGVALGAVAVSLTGATASFAQQCIPHYDS
JGI11871J12876_105396JGI11871J12876_1053961F018965IRNDERIQASDRALRLFGPIRNFLSRFNEALGAFGKIEVAGPYPVGKYQHATATITAPNGRVVSWEFVLSEGGVSYQRSPYQLSEYGRLESQLKSDVVAFLEKV*
JGI11871J12876_105496JGI11871J12876_1054962F034135MDIRDLTHALAYGDTFAQTASMLFRDLVEVRQKARELGLTEHPGKRVKVDP*
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