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 3300027303

3300027303: Forest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_O1 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300027303 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0071004 | Gp0054049 | Ga0208999
Sample NameForest soil microbial communities from El Dorado National Forest, California, USA - Mediterranean Blodgett CA OM2_O1 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size182478178
Sequencing Scaffolds29
Novel Protein Genes29
Associated Families27

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Mollisiaceae1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Chelicerata → Arachnida → Acari → Parasitiformes → Ixodida → Ixodoidea → Ixodidae → Rhipicephalinae → Rhipicephalus → Boophilus → Rhipicephalus microplus2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2
Not Available8
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → unclassified Nocardioidaceae → Nocardioidaceae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. DOA91
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. URHA00021
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Schlegelella → Schlegelella koreensis1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1

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?
F003908Metagenome / Metatranscriptome462Y
F007502Metagenome / Metatranscriptome350Y
F008380Metagenome / Metatranscriptome334Y
F012876Metagenome / Metatranscriptome276Y
F015944Metagenome / Metatranscriptome251Y
F032463Metagenome / Metatranscriptome180N
F033047Metagenome / Metatranscriptome178Y
F036491Metagenome170Y
F037234Metagenome / Metatranscriptome168Y
F037457Metagenome / Metatranscriptome168Y
F039163Metagenome / Metatranscriptome164Y
F045722Metagenome / Metatranscriptome152Y
F047892Metagenome / Metatranscriptome149Y
F050386Metagenome / Metatranscriptome145Y
F053478Metagenome / Metatranscriptome141Y
F056936Metagenome / Metatranscriptome137Y
F061592Metagenome / Metatranscriptome131Y
F066176Metagenome / Metatranscriptome127Y
F068795Metagenome / Metatranscriptome124Y
F075379Metagenome / Metatranscriptome119Y
F079368Metagenome / Metatranscriptome116Y
F080538Metagenome115Y
F081918Metagenome / Metatranscriptome114Y
F085519Metagenome111Y
F091805Metagenome / Metatranscriptome107Y
F092083Metagenome / Metatranscriptome107Y
F102683Metagenome / Metatranscriptome101Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208999_1000184All Organisms → cellular organisms → Eukaryota → Opisthokonta4109Open in IMG/M
Ga0208999_1000328All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes3327Open in IMG/M
Ga0208999_1000454All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Mollisiaceae2986Open in IMG/M
Ga0208999_1000554All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Chelicerata → Arachnida → Acari → Parasitiformes → Ixodida → Ixodoidea → Ixodidae → Rhipicephalinae → Rhipicephalus → Boophilus → Rhipicephalus microplus2813Open in IMG/M
Ga0208999_1001437All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2132Open in IMG/M
Ga0208999_1003658Not Available1617Open in IMG/M
Ga0208999_1010778All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Chelicerata → Arachnida → Acari → Parasitiformes → Ixodida → Ixodoidea → Ixodidae → Rhipicephalinae → Rhipicephalus → Boophilus → Rhipicephalus microplus1154Open in IMG/M
Ga0208999_1015467All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1019Open in IMG/M
Ga0208999_1021910All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium904Open in IMG/M
Ga0208999_1025700All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae853Open in IMG/M
Ga0208999_1026662All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → unclassified Nocardioidaceae → Nocardioidaceae bacterium841Open in IMG/M
Ga0208999_1027386All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. DOA9834Open in IMG/M
Ga0208999_1028309All Organisms → cellular organisms → Bacteria824Open in IMG/M
Ga0208999_1031173All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium795Open in IMG/M
Ga0208999_1032660All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae781Open in IMG/M
Ga0208999_1036089All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. URHA0002753Open in IMG/M
Ga0208999_1040063Not Available724Open in IMG/M
Ga0208999_1043429All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Schlegelella → Schlegelella koreensis702Open in IMG/M
Ga0208999_1046189Not Available685Open in IMG/M
Ga0208999_1047578All Organisms → cellular organisms → Bacteria677Open in IMG/M
Ga0208999_1068023All Organisms → cellular organisms → Bacteria586Open in IMG/M
Ga0208999_1068611Not Available584Open in IMG/M
Ga0208999_1070223Not Available578Open in IMG/M
Ga0208999_1074586Not Available564Open in IMG/M
Ga0208999_1077717Not Available554Open in IMG/M
Ga0208999_1078131All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia552Open in IMG/M
Ga0208999_1087879All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria525Open in IMG/M
Ga0208999_1088688Not Available523Open in IMG/M
Ga0208999_1096180All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes505Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208999_1000184Ga0208999_10001843F033047MKNFLQTTKKTINTLLVNFTLAKFTGALVTIILVALIKYIISGNLRIEYCEFXNNVAIGLYGWTINTATIGXLSEYFGIKGINFNLNQFLYGYNTMGAGDEDSSKDFKVKLYNAMESADESDPSKQIDKGKGIDKGYSEDNNESEAKPLDKGKGIGRRVPRIELGPGYCVEPPLATXSRVFPGLDPASVFFPKTINPGPGFNVPGGEVPLQDEICKHIDYNSHILKQFKKMDLKTALEQRDNYLKYIQVINQKATYAQETLSKVPEIPTSDYEHRLKNTILRDLHELSIQKVRAEAKATLLNSRIEFIQINTRPNE
Ga0208999_1000328Ga0208999_10003283F050386WKRISEVHKLMVDIQTAHAKLGSQDGNSREHEIKVPHDY
Ga0208999_1000454Ga0208999_10004543F033047MKNFIQTTKKTINTLLVNFTLAKFTSALITIILVALIKYMISGNLHIEYCEFLNNVAIGLFGWTINTATISXLSEYFGIKGINFNLNQFLYRYNTMGAGDYYSSKNFKAKLYNAMDFDDGSDPSKQTDKGKGIDKGYNEGNDESEAKLLDKGKDNNESEAKPLDKGKGIDKGVHRIELGPGHCTEPPFVTXSRVFPGVDPASVFFPKTINPGPGFNVPGGEVPLHDEICKHIDYNSHILNQFKKMDLKTALEQRDNYLKYLQVINHKASFAQDTLSKVPEIPTNDYEHRLKNTILKDLHELSMQKARAEAKATLLNSRIEFIQINTKPNE
Ga0208999_1000554Ga0208999_10005544F039163VVEAERSIDHIGSEKTPIRIVQQWGILVNSLTAEPATWGKA
Ga0208999_1001437Ga0208999_10014372F032463MANCFMDESYILQMRDPWSLMYSEYEQDFIDVLREKIGPKHPLYNQEVYAIAVRRNPGAVLYQAINDGFYAIVYFSGVPKRRRGMPKTEIFADQQAVGEKIAADHAEQLAQYKRDRAV
Ga0208999_1003658Ga0208999_10036585F037234MKKYLKLDPKPGDLTTVRVIKARTGYRCKDIRRTV
Ga0208999_1010778Ga0208999_10107781F039163VATERSIDHIGSEKSPRQIVQQWGILVNSLTAEPATWKNV
Ga0208999_1015467Ga0208999_10154671F092083MENFSMKNMILAAVAALGLATAFVPVAANASTVAGDAQATRVQQTGSYS
Ga0208999_1021910Ga0208999_10219101F007502VRETARTDLFRFLDSYASLLVLLLANFVLLEVVDDARWGAIGSTVLAAVALVVAISDPATGHFVTRRHLAWIGACVAASLLVLLIDTASIIGLTYLLPVALLVTATLPITLRRVLRQARVTYETVLGALCTYVLLGLLFAFVFLAI
Ga0208999_1025700Ga0208999_10257001F061592MSAASADEPNQIDPTPTADDVDDSMKDQLRRDVASWREGRADSSSRDATGLSVAVTRSIVPPTNARMKRAKPASAEIKPASSAEKKPFGMSYDGTSRADYIKLMISRGAR
Ga0208999_1026662Ga0208999_10266621F045722VTATRAPRYRVVIYELRDGKTTQLADTYGNGFITAVATLDDDILEVHFNQGGPKHLQHHIATAIAHDYPPHPR
Ga0208999_1027386Ga0208999_10273861F012876MTKTTTQAAALALSALMTLATVAGMNGIAAKQYAKADSLAMAPYGQTHVAIQHVTVIGHR
Ga0208999_1028309Ga0208999_10283092F008380MRISTLSHLAAGETELGVVYASVEGVNETSYEECLHELKEKAKGLGAGALIGLQLVQSQFQWNQRTSLIATAIK
Ga0208999_1031173Ga0208999_10311731F053478PTIPVYEGFTPAWGQTNAEQLWGQCHADVIKNGMKPADAVAKAFKRAEQVFAKITY
Ga0208999_1032660Ga0208999_10326602F075379MQLTSKTSGLDEKLDGLLSLLMQEFEDQPAIPMARFYDRYGEFFGEDLHSLQEILFDDGLVRCFVGRDGLELEITHKGIGFMAKGGYSSEIREEMLSHEDAVRSKQKIQFWNSVVTTFFIIAIAICFYLRHRPE
Ga0208999_1036089Ga0208999_10360891F068795MQKEATPLWVWLAVALLAIGTLAYATSVYFVEHILA
Ga0208999_1040063Ga0208999_10400631F037457AGRMAHLITLYKARDVPVKTALCAICIDRTRGETFERELTYGVKLWLCAGHHSVEFMRARAGRDFAVTLLRIWRAQGCLTRARSKALASHLETVKEIVRRTKRRRPGSYAWPRLRLEAEEAFARGERALATILRLRERHAGDHATAPSIRTMRRWFSQGRWLRLPATA
Ga0208999_1043429Ga0208999_10434292F015944MATVEGTHARGGRGQPVRYRVEYEVVGTAIHFRASFDGGGAPHEGQFDFDPAKLDAAAAVDGFMQNHIEKSDWDVAP
Ga0208999_1046189Ga0208999_10461891F102683MVCDGVFWATLTHMPGLNTRIRTLLGGAIAAGVLVLPTAAFADCAKTVDTAAFHGTIAQYYPQQCYTTGLKQLGPDVNTYSPNVARNLKAAQRRDRTRKLKFTIQWLPGNKKVRIASKYKLKTNIQLRKGSRILGKGSISGLTTTLKVRKTGGPLRVALLWKLGKKTITVTAAAPLKKVVKKKK
Ga0208999_1047578Ga0208999_10475781F085519MINRRFMIVPPALPRGGYAEKLKTRAMEFPYLLLEVANMRAH
Ga0208999_1068023Ga0208999_10680231F066176MIANPVLTNQSTSGNEQEPTNIQRRTFIGGALTALFASSVRVMAEENDERPHDERPHDLFIVLLKGLYHLVGAGEGPVNNLGLSTVNLNDGSYSRTRIYPIFGISENPDQDRPIGRFYAQFAGDLCAYDLRGGALAMRFNKVPAGAPPGFNDFVPFPDGMGGNYLEGTFELMVLEATGIYRAFQG
Ga0208999_1068611Ga0208999_10686112F091805MSIVIHRAACRLGACAGRRPRIRTMRRKFVSMLFALFSLMPLADAASAITPAGTVDAVSGSCTAHGRVLKRGDMVQVSDTVEVPARGKLKLRMADGSLISIAADSSMTVASYDIGSAGRHGKLSLTRGLLRAVVVAVG
Ga0208999_1070223Ga0208999_10702231F079368KPALIDVGALARYDRPMPSVADYDTLLISTPCVGTA
Ga0208999_1074586Ga0208999_10745861F081918YFYTDSCAENLTDLNNIPTHCPYLLIIYIIISGGVAERWVNLGLILFKNKN
Ga0208999_1077717Ga0208999_10777171F047892MPSIIDAGGADVEGQYADLLFLPFYNKADQKANPMTGNFVKYTGQDKIASFGAYAWAAGVAFRDAVNAQVKAGGVNSVTRKSLFEQLNKINKFDADGMIAPIDLAGRGISNCSVTMQVKNGEFVRVSPTKPGTFKCWPNGIVER
Ga0208999_1078131Ga0208999_10781311F036491MSTVPASSNVMLVGTMLAFFATCLVITFQAPLIWWVIPVALAVLVLTLATIRYRRHRRKRAALHGAKL
Ga0208999_1087879Ga0208999_10878791F003908LPLAKGAKWTYHVTVKRFDADADKETTRTLAWSTEVLDAKTSNGVTAYRVKGWPTDLADFDQAPVATEKTILRSGNSFLFGSSAEPTLDGAEGWFSWPVIDGQKICPSSEMVYCWQVAAVETGYTLSFYTGPDEQTFELEPGTGIARFHYAHHGTTNEVEAKLVSYAKGTAR
Ga0208999_1088688Ga0208999_10886881F080538RRAHLPEHTSATLDEILGTLVAETTGDEFGVAQPRPSHCAIHQLHVAGKFPDVGINDPRDRLFAVIEAQRGRADDHHIAKLAANYVPRSGARLGILVAEGWRRSSANHPAWAVCPAPVVVVVTLDALSEPDYQIAWVHNPTVSDGDDSC
Ga0208999_1096180Ga0208999_10961801F056936GVSVFVGFAFRAKMILKARAKIEELEREILNNYEVILELERETLTMQTHMQDIKSPVIAMKTPTLEPPVTSKKIPDIMLRKQLLAKKNLGQSASGL
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