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 3300027402

3300027402: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-12 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300027402 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0095510 | Gp0055677 | Ga0207465
Sample NameSoil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-12 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size22384728
Sequencing Scaffolds15
Novel Protein Genes15
Associated Families15

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Methylorubrum → Methylorubrum extorquens1
Not Available5
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium4
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → agricultural field → agricultural soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationWisconsin, United States
CoordinatesLat. (o)43.2958Long. (o)-89.3799Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001757Metagenome / Metatranscriptome641N
F002103Metagenome / Metatranscriptome593Y
F002275Metagenome576Y
F004397Metagenome / Metatranscriptome440Y
F006286Metagenome / Metatranscriptome377Y
F007050Metagenome / Metatranscriptome359Y
F014308Metagenome / Metatranscriptome264Y
F023545Metagenome / Metatranscriptome209Y
F038003Metagenome / Metatranscriptome167Y
F041476Metagenome160Y
F044475Metagenome / Metatranscriptome154Y
F049092Metagenome147N
F055154Metagenome / Metatranscriptome139Y
F056934Metagenome / Metatranscriptome137N
F058051Metagenome / Metatranscriptome135Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207465_100067All Organisms → cellular organisms → Bacteria1208Open in IMG/M
Ga0207465_100247All Organisms → cellular organisms → Bacteria905Open in IMG/M
Ga0207465_100338All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Methylorubrum → Methylorubrum extorquens838Open in IMG/M
Ga0207465_100420Not Available796Open in IMG/M
Ga0207465_100832All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium672Open in IMG/M
Ga0207465_100888All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium662Open in IMG/M
Ga0207465_101014All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium641Open in IMG/M
Ga0207465_101074Not Available632Open in IMG/M
Ga0207465_101479All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia587Open in IMG/M
Ga0207465_101747Not Available564Open in IMG/M
Ga0207465_102084Not Available539Open in IMG/M
Ga0207465_102228Not Available530Open in IMG/M
Ga0207465_102332All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays525Open in IMG/M
Ga0207465_102403All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium522Open in IMG/M
Ga0207465_102528All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium516Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207465_100067Ga0207465_1000671F023545DSAALRDALALPPAVRYDTLLERGWLARYFSALEAGVAERAMALRTDLRRLHPDLRFAFHASEPPADWFSLGLLRGLSARESPVLLWLREPRVSDLMRIYREREIYGLAAVRIEADRATFAPAEAARLRSRVFSEGAGFWLDGTVTDSLGRVIRRFVR
Ga0207465_100247Ga0207465_1002471F002275MLMRVVAVMLLLSAGIAAEAMSYSFVSKASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIVYGVTPPGFTTMIQPQKLIPGGVYAGSLLMDTEAHLA
Ga0207465_100338Ga0207465_1003383F044475MRMPLLAYFLVMGIILFTGLVLVSSQLESKSLPVSQRIGVLPPFKAQPDANGSPVGTVDSVVE
Ga0207465_100420Ga0207465_1004201F004397IFVTKFIDPFAAVPALVAGYFCRTWWQVVIAAAAVGIFVEMILVLFEPTPGVHQGRLLMAVLAAGVWSNLAFAFKTWRAKRA
Ga0207465_100832Ga0207465_1008321F056934QLKDAIEKFRDGPEGLEELVEALTAKFTPRNAMLLREAIAKQKSLQEVQTAADNYLKKRKNVAQWPTKQLEPELVRALVDYRSRLHKEDDWLLSRTGMREVASDFNLIHDYASQTKDLDALLEVYGNLFLTQAQSAEFKSKSDEEHKVYLESHAADKLDVLWYFVVSLCRLLQTKDYQLTPEEAYWLGVVDEVTGSGLQSDREMIEMILSTESATRKPWRT
Ga0207465_100888Ga0207465_1008882F002103MSTDEPFRTDYEFLKGVDYIFVSLDRNLSGEECHELAEKYFETHEAMTLPGQALRIDLRPAFRKPLADVTPKFRAVSIGHT
Ga0207465_101014Ga0207465_1010142F001757MMRILKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIAVPADYGLAQYYTEEASGLFRARISRPVSNGTVTVTPLVSRGRPDRPDRTKVV
Ga0207465_101074Ga0207465_1010741F014308LEVAFMSGSTIGIQLIMPKTGTSPKATPEQQASEREAATQPVVKAPPPPGMGKIVDKVA
Ga0207465_101479Ga0207465_1014791F007050MKNKSLNILSAITIALGVLGTNLYAQGTDSRIGSIKHEAGVTQATAITKAEAEKKYPTKGGQYPPGTRNPHDPSGVVTSPYPPYQQYDCSKVVAHGGLVLD
Ga0207465_101747Ga0207465_1017471F049092MKFIEPVFETGGDLWRTLSNVPDADARALNEKLARQSAELNRRLTEILELHNVHQRQANELQDAHDEIDRLSQTVSALQEAVTQYQAGAAAAEDEIVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIAS
Ga0207465_102084Ga0207465_1020842F006286SSGFTRIAAYVGHLLNDEINDHIEGLSQQLRSDPASKCLNRPCELGELMSRTIAP
Ga0207465_102228Ga0207465_1022281F055154MKTILLLHDERGSPKPRLQNVAGSKVTQRPTEGTPGCNCDRWGHPSPDCVDQHVQLRPKLSTSVPAKMEV
Ga0207465_102332Ga0207465_1023321F038003VPTDSHLTPLGFSLDPPSGFALADALVGASPNPLGYRMRSPWDRLTAVSTYGPSGSEEDDEPDFCWDFSGLGNPSAMRDFMTACDYCLSDCSDGSRSLGDEDCGPSRECFHVDLGGPSEGNHLGMPENGDPPRPVPRVDILRELAVVPVPAGGHDPQLEQIREMQARLDEGAGT
Ga0207465_102403Ga0207465_1024031F041476MLLLKSLRIGFVGLMLFVASAWAASSVLEGIVKDAKGHPIEGADIRIETKNGGKLLTTVKTDVRG
Ga0207465_102528Ga0207465_1025282F058051MAIEAMQTNHELETLRIVRPQEQPRRKRSRLVSIAILMLLLTVLGAASYV
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